nbs/test_viz.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {},
   "outputs": [],
   "source": [
    "%load_ext autoreload\n",
    "%autoreload 2"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [],
   "source": [
    "import numpy as np\n",
    "import pandas as pd"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {},
   "outputs": [],
   "source": [
    "raw_file = \"/Users/wenfengzeng/data/orbi_dia/20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw.hdf\"\n",
    "from alpharaw.ms_data_base import MSData_Base\n",
    "\n",
    "raw = MSData_Base()\n",
    "raw.load_hdf(raw_file)\n",
    "spec_df = raw.spectrum_df\n",
    "peak_df = raw.peak_df\n",
    "ms1_df = spec_df.query(\"ms_level==1\")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "OMP: Info #276: omp_set_nested routine deprecated, please use omp_set_max_active_levels instead.\n"
     ]
    },
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>raw_name</th>\n",
       "      <th>sequence</th>\n",
       "      <th>charge</th>\n",
       "      <th>rt</th>\n",
       "      <th>rt_start</th>\n",
       "      <th>rt_stop</th>\n",
       "      <th>mobility</th>\n",
       "      <th>proteins</th>\n",
       "      <th>uniprot_ids</th>\n",
       "      <th>genes</th>\n",
       "      <th>scan_num</th>\n",
       "      <th>score</th>\n",
       "      <th>fdr</th>\n",
       "      <th>diann_spec_idx</th>\n",
       "      <th>mods</th>\n",
       "      <th>mod_sites</th>\n",
       "      <th>nAA</th>\n",
       "      <th>rt_norm</th>\n",
       "      <th>precursor_mz</th>\n",
       "      <th>ccs</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>HLQLAIR</td>\n",
       "      <td>2</td>\n",
       "      <td>54.5422</td>\n",
       "      <td>54.4385</td>\n",
       "      <td>54.7489</td>\n",
       "      <td>0</td>\n",
       "      <td>H2AX_HUMAN</td>\n",
       "      <td>Q71UI9;Q9BTM1;P0C0S5;P16104;Q96KK5;Q96QV6;Q998...</td>\n",
       "      <td>H2AX</td>\n",
       "      <td>75269</td>\n",
       "      <td>0.991963</td>\n",
       "      <td>5.351050e-04</td>\n",
       "      <td>75268</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>7</td>\n",
       "      <td>0.671811</td>\n",
       "      <td>425.766512</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>KLEDGPK</td>\n",
       "      <td>2</td>\n",
       "      <td>27.6224</td>\n",
       "      <td>27.5188</td>\n",
       "      <td>27.7608</td>\n",
       "      <td>0</td>\n",
       "      <td>EF1A1_HUMAN;EF1A3_HUMAN</td>\n",
       "      <td>P68104;Q5VTE0</td>\n",
       "      <td>EEF1A1;EEF1A1P5</td>\n",
       "      <td>37875</td>\n",
       "      <td>0.993793</td>\n",
       "      <td>4.318230e-04</td>\n",
       "      <td>37874</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>7</td>\n",
       "      <td>0.340233</td>\n",
       "      <td>393.721436</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>MVQEAEK</td>\n",
       "      <td>2</td>\n",
       "      <td>29.9747</td>\n",
       "      <td>29.8710</td>\n",
       "      <td>30.0784</td>\n",
       "      <td>0</td>\n",
       "      <td>HSP7C_HUMAN</td>\n",
       "      <td>P0DMV9;P11142;P0DMV8</td>\n",
       "      <td>HSPA8</td>\n",
       "      <td>41141</td>\n",
       "      <td>0.982627</td>\n",
       "      <td>9.529970e-04</td>\n",
       "      <td>41140</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>7</td>\n",
       "      <td>0.369207</td>\n",
       "      <td>417.704929</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>AAAEQLR</td>\n",
       "      <td>2</td>\n",
       "      <td>33.7771</td>\n",
       "      <td>33.6734</td>\n",
       "      <td>33.8809</td>\n",
       "      <td>0</td>\n",
       "      <td>B3GA3_HUMAN</td>\n",
       "      <td>O94766</td>\n",
       "      <td>B3GAT3</td>\n",
       "      <td>46418</td>\n",
       "      <td>0.936862</td>\n",
       "      <td>2.747850e-03</td>\n",
       "      <td>46417</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>7</td>\n",
       "      <td>0.416042</td>\n",
       "      <td>379.711402</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>LPLQDVYK</td>\n",
       "      <td>2</td>\n",
       "      <td>64.5849</td>\n",
       "      <td>64.4818</td>\n",
       "      <td>64.7575</td>\n",
       "      <td>0</td>\n",
       "      <td>EF1A2_HUMAN</td>\n",
       "      <td>P68104;Q5VTE0;Q05639</td>\n",
       "      <td>EEF1A2</td>\n",
       "      <td>89242</td>\n",
       "      <td>0.989373</td>\n",
       "      <td>6.590750e-04</td>\n",
       "      <td>89241</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>8</td>\n",
       "      <td>0.795510</td>\n",
       "      <td>488.279118</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>80</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>AAAAAAAAAAAAAAAGAGAGAK</td>\n",
       "      <td>3</td>\n",
       "      <td>66.8599</td>\n",
       "      <td>66.7564</td>\n",
       "      <td>66.9970</td>\n",
       "      <td>0</td>\n",
       "      <td>S12A2_HUMAN</td>\n",
       "      <td>P55011</td>\n",
       "      <td>SLC12A2</td>\n",
       "      <td>92414</td>\n",
       "      <td>0.999983</td>\n",
       "      <td>2.060000e-05</td>\n",
       "      <td>92413</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>22</td>\n",
       "      <td>0.823532</td>\n",
       "      <td>532.953265</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>81</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>AAAAVGAGHGAGGPGAASSSGGAR</td>\n",
       "      <td>3</td>\n",
       "      <td>35.1365</td>\n",
       "      <td>35.0327</td>\n",
       "      <td>35.2402</td>\n",
       "      <td>0</td>\n",
       "      <td>S35E1_HUMAN</td>\n",
       "      <td>Q96K37</td>\n",
       "      <td>SLC35E1</td>\n",
       "      <td>48308</td>\n",
       "      <td>0.958022</td>\n",
       "      <td>1.908840e-03</td>\n",
       "      <td>48307</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>24</td>\n",
       "      <td>0.432786</td>\n",
       "      <td>622.305138</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>82</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>AAAASAAEAGIATTGTEDSDDALLK</td>\n",
       "      <td>3</td>\n",
       "      <td>67.1117</td>\n",
       "      <td>67.0084</td>\n",
       "      <td>67.2152</td>\n",
       "      <td>0</td>\n",
       "      <td>PSMD4_HUMAN</td>\n",
       "      <td>P55036</td>\n",
       "      <td>PSMD4</td>\n",
       "      <td>92768</td>\n",
       "      <td>0.999071</td>\n",
       "      <td>1.766390e-04</td>\n",
       "      <td>92767</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>25</td>\n",
       "      <td>0.826633</td>\n",
       "      <td>774.043203</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>83</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>AAAAATVVPPMVGGPPFVGPVGFGPGDR</td>\n",
       "      <td>3</td>\n",
       "      <td>78.5982</td>\n",
       "      <td>78.4598</td>\n",
       "      <td>78.7020</td>\n",
       "      <td>0</td>\n",
       "      <td>RBM42_HUMAN</td>\n",
       "      <td>Q9BTD8</td>\n",
       "      <td>RBM42</td>\n",
       "      <td>108759</td>\n",
       "      <td>1.000000</td>\n",
       "      <td>1.000000e-09</td>\n",
       "      <td>108758</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>28</td>\n",
       "      <td>0.968116</td>\n",
       "      <td>864.452814</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>84</th>\n",
       "      <td>20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...</td>\n",
       "      <td>AAAAAAAAAPAAAATAPTTAATTAATAAQ</td>\n",
       "      <td>3</td>\n",
       "      <td>66.5616</td>\n",
       "      <td>66.4583</td>\n",
       "      <td>66.6650</td>\n",
       "      <td>0</td>\n",
       "      <td>SRP14_HUMAN</td>\n",
       "      <td>P37108</td>\n",
       "      <td>SRP14</td>\n",
       "      <td>92001</td>\n",
       "      <td>0.999984</td>\n",
       "      <td>2.060000e-05</td>\n",
       "      <td>92000</td>\n",
       "      <td></td>\n",
       "      <td></td>\n",
       "      <td>29</td>\n",
       "      <td>0.819857</td>\n",
       "      <td>790.074949</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>85 rows × 20 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                                             raw_name  \\\n",
       "0   20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "1   20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "2   20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "3   20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "4   20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "..                                                ...   \n",
       "80  20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "81  20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "82  20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "83  20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "84  20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest...   \n",
       "\n",
       "                         sequence  charge       rt  rt_start  rt_stop  \\\n",
       "0                         HLQLAIR       2  54.5422   54.4385  54.7489   \n",
       "1                         KLEDGPK       2  27.6224   27.5188  27.7608   \n",
       "2                         MVQEAEK       2  29.9747   29.8710  30.0784   \n",
       "3                         AAAEQLR       2  33.7771   33.6734  33.8809   \n",
       "4                        LPLQDVYK       2  64.5849   64.4818  64.7575   \n",
       "..                            ...     ...      ...       ...      ...   \n",
       "80         AAAAAAAAAAAAAAAGAGAGAK       3  66.8599   66.7564  66.9970   \n",
       "81       AAAAVGAGHGAGGPGAASSSGGAR       3  35.1365   35.0327  35.2402   \n",
       "82      AAAASAAEAGIATTGTEDSDDALLK       3  67.1117   67.0084  67.2152   \n",
       "83   AAAAATVVPPMVGGPPFVGPVGFGPGDR       3  78.5982   78.4598  78.7020   \n",
       "84  AAAAAAAAAPAAAATAPTTAATTAATAAQ       3  66.5616   66.4583  66.6650   \n",
       "\n",
       "    mobility                 proteins  \\\n",
       "0          0               H2AX_HUMAN   \n",
       "1          0  EF1A1_HUMAN;EF1A3_HUMAN   \n",
       "2          0              HSP7C_HUMAN   \n",
       "3          0              B3GA3_HUMAN   \n",
       "4          0              EF1A2_HUMAN   \n",
       "..       ...                      ...   \n",
       "80         0              S12A2_HUMAN   \n",
       "81         0              S35E1_HUMAN   \n",
       "82         0              PSMD4_HUMAN   \n",
       "83         0              RBM42_HUMAN   \n",
       "84         0              SRP14_HUMAN   \n",
       "\n",
       "                                          uniprot_ids            genes  \\\n",
       "0   Q71UI9;Q9BTM1;P0C0S5;P16104;Q96KK5;Q96QV6;Q998...             H2AX   \n",
       "1                                       P68104;Q5VTE0  EEF1A1;EEF1A1P5   \n",
       "2                                P0DMV9;P11142;P0DMV8            HSPA8   \n",
       "3                                              O94766           B3GAT3   \n",
       "4                                P68104;Q5VTE0;Q05639           EEF1A2   \n",
       "..                                                ...              ...   \n",
       "80                                             P55011          SLC12A2   \n",
       "81                                             Q96K37          SLC35E1   \n",
       "82                                             P55036            PSMD4   \n",
       "83                                             Q9BTD8            RBM42   \n",
       "84                                             P37108            SRP14   \n",
       "\n",
       "    scan_num     score           fdr  diann_spec_idx mods mod_sites  nAA  \\\n",
       "0      75269  0.991963  5.351050e-04           75268                   7   \n",
       "1      37875  0.993793  4.318230e-04           37874                   7   \n",
       "2      41141  0.982627  9.529970e-04           41140                   7   \n",
       "3      46418  0.936862  2.747850e-03           46417                   7   \n",
       "4      89242  0.989373  6.590750e-04           89241                   8   \n",
       "..       ...       ...           ...             ...  ...       ...  ...   \n",
       "80     92414  0.999983  2.060000e-05           92413                  22   \n",
       "81     48308  0.958022  1.908840e-03           48307                  24   \n",
       "82     92768  0.999071  1.766390e-04           92767                  25   \n",
       "83    108759  1.000000  1.000000e-09          108758                  28   \n",
       "84     92001  0.999984  2.060000e-05           92000                  29   \n",
       "\n",
       "     rt_norm  precursor_mz  ccs  \n",
       "0   0.671811    425.766512  0.0  \n",
       "1   0.340233    393.721436  0.0  \n",
       "2   0.369207    417.704929  0.0  \n",
       "3   0.416042    379.711402  0.0  \n",
       "4   0.795510    488.279118  0.0  \n",
       "..       ...           ...  ...  \n",
       "80  0.823532    532.953265  0.0  \n",
       "81  0.432786    622.305138  0.0  \n",
       "82  0.826633    774.043203  0.0  \n",
       "83  0.968116    864.452814  0.0  \n",
       "84  0.819857    790.074949  0.0  \n",
       "\n",
       "[85 rows x 20 columns]"
      ]
     },
     "execution_count": 4,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "from alphabase.psm_reader.dia_psm_reader import DiannReader\n",
    "from io import StringIO\n",
    "\n",
    "diann_tsv = StringIO(r\"\"\"File.Name\tRun\tProtein.Group\tProtein.Ids\tProtein.Names\tGenes\tPG.Quantity\tPG.Normalised\tPG.MaxLFQ\tGenes.Quantity\tGenes.Normalised\tGenes.MaxLFQ\tGenes.MaxLFQ.Unique\tModified.Sequence\tStripped.Sequence\tPrecursor.Id\tPrecursor.Charge\tQ.Value\tPEP\tGlobal.Q.Value\tProtein.Q.Value\tPG.Q.Value\tGlobal.PG.Q.Value\tGG.Q.Value\tTranslated.Q.Value\tProteotypic\tPrecursor.Quantity\tPrecursor.Normalised\tPrecursor.Translated\tMs1.Translated\tQuantity.Quality\tRT\tRT.Start\tRT.Stop\tiRT\tPredicted.RT\tPredicted.iRT\tFirst.Protein.Description\tLib.Q.Value\tLib.PG.Q.Value\tMs1.Profile.Corr\tMs1.Area\tEvidence\tSpectrum.Similarity\tMass.Evidence\tCScore\tDecoy.Evidence\tDecoy.CScore\tFragment.Quant.Raw\tFragment.Quant.Corrected\tFragment.Correlations\tMS2.Scan\tIM\tiIM\tPredicted.IM\tPredicted.iIM\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP16104\tQ71UI9;Q9BTM1;P0C0S5;P16104;Q96KK5;Q96QV6;Q99878;P20671;P04908;Q93077;Q6FI13;Q16777;P0C0S8;Q7L7L0\tH2AX_HUMAN\tH2AX\t5.39E+09\t5.61E+09\t5.31E+09\t5.39E+09\t5.61E+09\t5.31E+09\t\tHLQLAIR\tHLQLAIR\tHLQLAIR2\t2\t0.000535105\t0.00910279\t0.000413654\t0.000607718\t0.000154297\t0.000287233\t0.000154488\t0\t0\t5.39E+09\t5.61E+09\t5.54E+09\t1.56E+10\t0.9724\t54.5422\t54.4385\t54.7489\t11.064\t54.9861\t10.1797\tHistone H2AX\t0.00113463\t0.000285837\t0.996367\t1.52E+10\t6.61652\t0.45113\t2.9323\t0.991963\t1.35312\t0.170503\t3.19126e+09;1.99595e+09;6.5188e+08;2.51482e+08;1.36147e+08;2.0767e+08;9.93736e+07;\t3.19126e+09;1.99595e+09;6.5188e+08;2.51482e+08;1.36147e+08;2.0767e+08;9.93736e+07;\t0.970892;0.974737;0.966494;0.966994;0.968803;0.973113;0.962525;\t75269\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261\tP60709;P63261\tACTB_HUMAN;ACTG_HUMAN\tACTB;ACTG1\t2.69E+09\t2.83E+09\t3.18E+09\t2.69E+09\t2.83E+09\t3.18E+09\t\tGYSFTTTAER\tGYSFTTTAER\tGYSFTTTAER2\t2\t0.000285994\t0.00280554\t0.000413654\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t2.69E+09\t2.83E+09\t2.80E+09\t1.39E+10\t0.987437\t53.0289\t52.8912\t53.2363\t7.53186\t53.2888\t6.98988\tActin, cytoplasmic 1\t0.000406432\t0.000155521\t0.995032\t1.34E+10\t6.80776\t0.670389\t1.98257\t0.997509\t2.09524\t0.000440657\t1.66331e+09;1.13035e+09;9.23394e+08;6.35706e+08;6.32568e+08;5.37377e+08;4.6731e+08;4.60634e+08;297552;2.04364e+08;1.46604e+08;1.03084e+08;\t1.66331e+09;1.13035e+09;9.23394e+08;6.35707e+08;6.32568e+08;5.37377e+08;4.6731e+08;4.60582e+08;0;2.0435e+08;1.46604e+08;1.03084e+08;\t0.987495;0.987611;0.988638;0.98538;0.991209;0.988956;0.992322;0.988752;-0.315301;0.994759;0.9875;0.985664;\t73168\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ05639\tP68104;Q5VTE0;Q05639\tEF1A2_HUMAN\tEEF1A2\t5.67E+09\t5.95E+09\t2.32E+09\t5.67E+09\t5.95E+09\t2.32E+09\t\tLPLQDVYK\tLPLQDVYK\tLPLQDVYK2\t2\t0.000659075\t0.0120675\t0.00147216\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t5.67E+09\t5.95E+09\t5.88E+09\t1.06E+10\t0.988918\t64.5849\t64.4818\t64.7575\t34.2559\t65.2005\t32.063\tElongation factor 1-alpha 2\t0.00140106\t0.000155521\t0.999233\t1.02E+10\t6.82132\t0.593803\t0.984963\t0.989373\t3.04853\t0.238595\t3.7941e+09;8.0509e+08;1.06835e+09;3.71e+08;2.71941e+08;3.1234e+08;8.01628e+08;8.77322e+07;\t3.7941e+09;8.0509e+08;1.06835e+09;3.71e+08;2.71941e+08;3.1234e+08;8.01628e+08;8.72887e+07;\t0.987829;0.991106;0.991138;0.985;0.991593;0.986344;0.992429;0.97858;\t89242\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261\tP0CG38;P0CG39;A5A3E0;P68032;P60709;Q9BYX7;P63261;P68133;Q6S8J3\tACTB_HUMAN;ACTG_HUMAN\tACTB;ACTG1\t2.69E+09\t2.83E+09\t3.18E+09\t2.69E+09\t2.83E+09\t3.18E+09\t\tIWHHTFYNELR\tIWHHTFYNELR\tIWHHTFYNELR3\t3\t0.000431823\t0.00581969\t0.0846402\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t9.33E+08\t9.73E+08\t9.61E+08\t9.91E+09\t0.957544\t55.9937\t55.8901\t56.2009\t14.3281\t56.5651\t13.1612\tActin, cytoplasmic 1\t0.00912212\t0.000155521\t0.995783\t9.62E+09\t5.52584\t0.47841\t3.86908\t0.994847\t1.82574\t0.106463\t3.44436e+08;0;3.88125e+08;2.00299e+08;4.28286e+08;9.84242e+07;1.82085e+08;9.52372e+07;1.96939e+08;7.51851e+07;3.08521e+07;4.60214e+07;\t3.44436e+08;0;3.88125e+08;2.00299e+08;4.28286e+08;9.84242e+07;1.82085e+08;9.52372e+07;1.96939e+08;7.51851e+07;3.08521e+07;4.60214e+07;\t0.957474;0;0.959025;0.954796;0.955028;0.945864;0.952627;0.946701;0.948933;0.96813;0.97219;0.958369;\t77291\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62805\tP62805\tH4_HUMAN\tH4C1\t2.80E+09\t2.76E+09\t1.99E+09\t2.80E+09\t2.76E+09\t1.99E+09\t1.99E+09\tISGLIYEETR\tISGLIYEETR\tISGLIYEETR2\t2\t0.000392024\t0.00498778\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t2.80E+09\t2.76E+09\t2.73E+09\t9.08E+09\t0.974385\t64.314\t64.1759\t64.4865\t33.9545\t65.1264\t31.1293\tHistone H4\t0.000209662\t0.000155521\t0.999258\t9.31E+09\t6.5959\t0.642875\t3.81213\t0.99558\t1.35209\t0.0605825\t1.10804e+09;1.05922e+09;6.67522e+08;6.32832e+08;3.33674e+08;1.85543e+08;1.14255e+08;5.53403e+07;5.21936e+06;\t1.10804e+09;1.05911e+09;6.67522e+08;6.32832e+08;3.33675e+08;1.85463e+08;1.14255e+08;5.53403e+07;5.21936e+06;\t0.971646;0.976724;0.973582;0.975266;0.969844;0.97421;0.970284;0.974217;0.974887;\t88866\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ05639\tP68104;Q5VTE0;Q05639\tEF1A2_HUMAN\tEEF1A2\t5.67E+09\t5.95E+09\t2.32E+09\t5.67E+09\t5.95E+09\t2.32E+09\t\tSTTTGHLIYK\tSTTTGHLIYK\tSTTTGHLIYK2\t2\t9.85E-05\t0.000216077\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.06E+09\t1.09E+09\t1.08E+09\t9.08E+09\t0.974302\t43.0835\t42.9799\t43.2906\t-13.4266\t43.2145\t-13.7099\tElongation factor 1-alpha 2\t0.000209662\t0.000155521\t0.996092\t8.91E+09\t6.62686\t0.863035\t2.93514\t0.999808\t0\t-1.00E+07\t4.27415e+08;3.98808e+08;3.29845e+08;3.30299e+08;3.13229e+08;2.82263e+08;1.38597e+08;1.40043e+08;1.36008e+08;1.31667e+08;1.13486e+08;1.04604e+08;\t4.27415e+08;3.98808e+08;3.29845e+08;3.30299e+08;3.13229e+08;2.82263e+08;1.38596e+08;1.40043e+08;1.36008e+08;1.31667e+08;1.13486e+08;1.04604e+08;\t0.971418;0.973683;0.975772;0.973582;0.980546;0.975449;0.97386;0.977426;0.974041;0.972594;0.969552;0.972048;\t59344\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261\tP60709;P63261\tACTB_HUMAN;ACTG_HUMAN\tACTB;ACTG1\t2.69E+09\t2.83E+09\t3.18E+09\t2.69E+09\t2.83E+09\t3.18E+09\t\tVAPEEHPVLLTEAPLNPK\tVAPEEHPVLLTEAPLNPK\tVAPEEHPVLLTEAPLNPK3\t3\t0.00758361\t0.24113\t0.000724813\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.72E+09\t1.83E+09\t1.81E+09\t9.37E+09\t0.966863\t67.7944\t67.691\t67.9316\t43.7032\t67.3629\t45.9066\tActin, cytoplasmic 1\t0.000604903\t0.000155521\t0.994224\t8.89E+09\t6.51378\t0.508485\t0\t0.823302\t1.04939\t0.000181551\t1.37206e+09;7.61439e+08;5.48453e+08;4.37034e+08;4.035e+08;4.05482e+08;3.71602e+08;2.28322e+08;2.47699e+08;1.88642e+08;1.39492e+08;1.25621e+08;\t1.37206e+09;7.61439e+08;5.48453e+08;4.37034e+08;4.035e+08;4.05482e+08;3.71602e+08;2.28322e+08;2.47699e+08;1.88642e+08;1.39492e+08;1.25621e+08;\t0.972167;0.96953;0.962094;0.970383;0.966791;0.968306;0.952441;0.968107;0.969571;0.966755;0.971007;0.96417;\t93719\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ8N257;Q96A08;Q99880\tP58876;P23527;P06899;Q99880;Q99877;A0A2R8Y619;Q16778;Q99879;Q5QNW6;P57053;O60814;P62807;Q8N257;Q96A08;Q93079;P33778\tH2B1A_HUMAN;H2B1L_HUMAN;H2B3B_HUMAN\tH2BC1;H2BC13;H2BU1\t1.71E+09\t1.86E+09\t1.91E+09\t1.71E+09\t1.86E+09\t1.91E+09\t\tLLLPGELAK\tLLLPGELAK\tLLLPGELAK2\t2\t0.000465585\t0.00793288\t0.000413654\t1\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.71E+09\t1.86E+09\t1.84E+09\t9.33E+09\t0.978795\t70.2303\t70.1269\t70.3682\t60.951\t70.5757\t58.9588\tHistone H2B type 3-B\t0.00201423\t0.000155521\t0.995872\t8.70E+09\t6.58622\t0.278155\t0\t0.992989\t1.02416\t0.042667\t2.98585e+09;8.26265e+08;2.73372e+08;1.1685e+09;2.72766e+08;7.0163e+07;\t2.98585e+09;8.26265e+08;2.73315e+08;1.1685e+09;2.72766e+08;7.00993e+07;\t0.980204;0.957602;0.975178;0.97956;0.979141;0.974025;\t97113\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261;Q562R1\tQ562R1;P68032;P60709;P63261;P62736;P68133;P63267\tACTBL_HUMAN;ACTB_HUMAN;ACTG_HUMAN\tACTB;ACTBL2;ACTG1\t2.28E+09\t2.31E+09\t2.49E+09\t2.28E+09\t2.31E+09\t2.49E+09\t\tHQGVMVGMGQK\tHQGVMVGMGQK\tHQGVMVGMGQK2\t2\t9.85E-05\t0.000183051\t0.000313824\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t9.12E+08\t9.29E+08\t9.18E+08\t8.51E+09\t0.989855\t43.8446\t43.7065\t44.052\t-11.495\t44.0922\t-12.0012\tActin, cytoplasmic 1\t5.91E-05\t0.000155521\t0.993801\t8.47E+09\t6.83749\t0.653866\t3.96718\t0.999837\t0.785175\t0.00069883\t5.81844e+08;3.51381e+08;2.37392e+08;1.65294e+08;1.6527e+08;1.48014e+08;1.38191e+08;1.34174e+08;1.25893e+08;1.08583e+08;9.38454e+07;8.42032e+07;\t5.81844e+08;3.51381e+08;2.37392e+08;1.65294e+08;1.6527e+08;1.48014e+08;1.38191e+08;1.34174e+08;1.25893e+08;1.08583e+08;9.38454e+07;8.42032e+07;\t0.990382;0.99282;0.98933;0.986896;0.990957;0.99036;0.990831;0.991121;0.99264;0.989951;0.991413;0.996038;\t60402\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP06748\tP06748\tNPM_HUMAN\tNPM1\t1.21E+09\t1.23E+09\t8.84E+08\t1.21E+09\t1.23E+09\t8.84E+08\t8.84E+08\tGPSSVEDIK\tGPSSVEDIK\tGPSSVEDIK2\t2\t0.000431823\t0.00690353\t0.00084395\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.21E+09\t1.23E+09\t1.22E+09\t8.31E+09\t0.997377\t43.355\t43.2168\t43.5279\t-15.85\t42.1054\t-13.1044\tNucleophosmin\t0.000262714\t0.000155521\t0.999199\t8.26E+09\t5.94774\t0.87404\t0.995891\t0.993893\t2.70181\t0.30638\t7.83869e+08;2.10029e+08;2.15767e+08;1.88007e+08;1.18861e+08;\t7.83869e+08;2.10029e+08;2.15767e+08;1.88007e+08;1.18861e+08;\t0.997332;0.997562;0.997358;0.996244;0.994437;\t59720\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ16543\tQ16543\tCDC37_HUMAN\tCDC37\t4.27E+07\t4.50E+07\t4.16E+07\t4.27E+07\t4.50E+07\t4.16E+07\t4.16E+07\tELEVAEGGK\tELEVAEGGK\tELEVAEGGK2\t2\t0.00020319\t0.00127744\t0.000413654\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t2.84E+07\t2.89E+07\t2.86E+07\t7.78E+09\t0.981861\t43.3205\t43.2168\t43.4587\t-14.2924\t42.8226\t-13.1818\tHsp90 co-chaperone Cdc37\t0.000524058\t0.000155521\t0.818547\t7.72E+09\t6.50872\t0.696557\t2.7588\t0.998864\t1.17637\t0.0724093\t2.2719e+07;1.5505e+07;1.27611e+07;9.71128e+06;8.17837e+06;5.91507e+06;21171.1;2.28022e+06;0;594971;366615;\t2.2525e+07;1.5505e+07;1.27611e+07;9.71128e+06;8.17837e+06;5.91507e+06;0;2.0477e+06;0;247483;124339;\t0.9743;0.982908;0.983191;0.978243;0.982288;0.984934;-0.373957;0.884451;0;0.669146;0.626415;\t59672\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62805\tP62805\tH4_HUMAN\tH4C1\t2.80E+09\t2.76E+09\t1.99E+09\t2.80E+09\t2.76E+09\t1.99E+09\t1.99E+09\tTVTAMDVVYALK\tTVTAMDVVYALK\tTVTAMDVVYALK2\t2\t9.85E-05\t0.0002615\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.48E+09\t1.49E+09\t1.47E+09\t7.70E+09\t0.971965\t73.8895\t73.786\t73.993\t79.6238\t73.874\t79.5848\tHistone H4\t0.000209662\t0.000155521\t0.974962\t7.72E+09\t6.43486\t0.608884\t0\t0.999767\t1.59583\t0.10453\t7.60743e+08;4.63831e+08;3.79336e+08;2.51543e+08;2.18509e+08;1.99074e+08;\t7.60743e+08;4.63831e+08;3.79336e+08;2.51543e+08;2.18509e+08;1.99074e+08;\t0.973559;0.966959;0.962019;0.976376;0.964787;0.968797;\t102215\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62979;P62987\tP62987;P62979;P0CG47;P0CG48\tRL40_HUMAN;RS27A_HUMAN\tRPS27A;UBA52\t2.71E+09\t2.56E+09\t2.42E+09\t2.71E+09\t2.56E+09\t2.42E+09\t\tTLSDYNIQK\tTLSDYNIQK\tTLSDYNIQK2\t2\t7.38E-05\t0.000122697\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.39E+09\t1.44E+09\t1.42E+09\t7.84E+09\t0.974899\t50.5076\t50.3695\t50.6803\t2.02701\t50.6102\t1.83385\tUbiquitin-40S ribosomal protein S27a\t0.000209662\t0.000155521\t0.99819\t7.70E+09\t6.58495\t0.804851\t1.95376\t0.999891\t1.04939\t0.0141891\t1.03869e+09;2.34698e+08;1.21588e+08;1.04323e+08;8.43246e+07;4.68722e+07;3.62377e+07;2.73732e+07;2.47863e+07;1.91349e+07;1.96729e+07;1.57115e+07;\t1.03869e+09;2.34698e+08;1.21588e+08;1.04323e+08;8.43246e+07;4.68722e+07;3.62376e+07;2.73732e+07;2.47863e+07;1.91349e+07;1.96729e+07;1.57115e+07;\t0.975322;0.974209;0.972617;0.972326;0.970579;0.972658;0.969779;0.969577;0.976568;0.977303;0.982689;0.948845;\t69662\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62805\tP62805\tH4_HUMAN\tH4C1\t2.80E+09\t2.76E+09\t1.99E+09\t2.80E+09\t2.76E+09\t1.99E+09\t1.99E+09\tDAVTYTEHAK\tDAVTYTEHAK\tDAVTYTEHAK2\t2\t0.00156158\t0.035673\t0.000313824\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.50E+09\t1.54E+09\t1.52E+09\t6.94E+09\t0.969104\t36.8975\t36.7938\t37.0701\t-27.2495\t35.9087\t-25.4549\tHistone H4\t5.83E-05\t0.000155521\t0.997211\t6.85E+09\t6.56341\t0.581731\t0.970244\t0.969226\t2.51976\t0.138552\t8.10667e+08;7.55666e+07;4.25577e+08;2.78242e+08;2.64975e+08;1.7035e+08;\t8.10667e+08;7.55666e+07;4.25577e+08;2.78242e+08;2.64975e+08;1.7035e+08;\t0.966799;0.977347;0.967286;0.968833;0.979074;0.976239;\t50752\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP08238;P14625\tP08238;P14625\tENPL_HUMAN;HS90B_HUMAN\tHSP90AB1;HSP90B1\t1.36E+09\t1.32E+09\t1.32E+09\t1.36E+09\t1.32E+09\t1.32E+09\t\tELISNASDALDK\tELISNASDALDK\tELISNASDALDK2\t2\t0.000238055\t0.00179954\t0.000413654\t0.000166917\t0.00689655\t0.00309291\t0.00690868\t0\t0\t1.36E+09\t1.32E+09\t1.30E+09\t6.10E+09\t0.988709\t60.8664\t60.7282\t61.0046\t23.9979\t61.2036\t23.3435\tHeat shock protein HSP 90-beta\t0.000620747\t0.0041861\t0.996858\t6.37E+09\t6.79542\t0.591887\t1.90654\t0.998401\t5.82222\t0.983314\t7.91127e+08;3.05331e+08;2.74261e+08;2.57785e+08;2.65334e+08;9.13519e+07;1.04595e+07;1.35486e+06;2.49969e+06;\t7.91128e+08;3.05331e+08;2.74261e+08;2.57785e+08;2.65334e+08;9.13519e+07;1.04318e+07;0;2.49969e+06;\t0.988411;0.990132;0.988573;0.988888;0.987962;0.990724;0.985604;0.536726;0.920662;\t84070\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261;Q562R1\tQ562R1;P68032;P60709;P63261;P62736;P68133;P63267\tACTBL_HUMAN;ACTB_HUMAN;ACTG_HUMAN\tACTB;ACTBL2;ACTG1\t2.28E+09\t2.31E+09\t2.49E+09\t2.28E+09\t2.31E+09\t2.49E+09\t\tHQGVMVGMGQK\tHQGVMVGMGQK\tHQGVMVGMGQK3\t3\t8.85E-05\t0.000132476\t0.000413654\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t2.28E+09\t2.31E+09\t2.28E+09\t6.36E+09\t0.991183\t43.8358\t43.6975\t44.0431\t-11.5316\t44.0754\t-12.0213\tActin, cytoplasmic 1\t0.000544392\t0.000155521\t0.989115\t6.35E+09\t6.85819\t0.631144\t2.97129\t0.999882\t1.62414\t0.00603993\t9.26789e+08;7.81777e+08;5.67211e+08;3.99921e+08;2.25594e+08;2.07675e+08;1.46461e+08;9.06426e+07;8.43031e+07;4.62478e+07;2.75441e+07;2.22855e+07;\t9.26789e+08;7.81777e+08;5.67211e+08;3.99921e+08;2.25594e+08;2.07675e+08;1.46427e+08;9.06426e+07;8.40952e+07;4.62478e+07;2.75441e+07;2.22855e+07;\t0.991996;0.991166;0.989878;0.993241;0.989581;0.992613;0.992852;0.993956;0.990366;0.983463;0.987672;0.988971;\t60387\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ05639\tP68104;Q5VTE0;Q05639\tEF1A2_HUMAN\tEEF1A2\t5.67E+09\t5.95E+09\t2.32E+09\t5.67E+09\t5.95E+09\t2.32E+09\t\tIGGIGTVPVGR\tIGGIGTVPVGR\tIGGIGTVPVGR2\t2\t0.000384728\t0.00365573\t0.000410728\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t6.22E+08\t5.70E+08\t5.64E+08\t5.62E+09\t0.985587\t63.5164\t63.4128\t63.6545\t30.6228\t64.187\t28.8303\tElongation factor 1-alpha 2\t0.000262714\t0.000155521\t0.998269\t6.21E+09\t5.8761\t0.223044\t0.432067\t0.996757\t0\t-1.00E+07\t1.4774e+09;3.9353e+08;2.70848e+08;1.57664e+08;7.12412e+07;6.42549e+06;\t1.4774e+09;3.9353e+08;2.70848e+08;1.57664e+08;7.12412e+07;2.40259e+06;\t0.985291;0.985206;0.985632;0.986897;0.984792;0.362821;\t87756\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP68104;Q5VTE0\tP68104;Q5VTE0\tEF1A1_HUMAN;EF1A3_HUMAN\tEEF1A1;EEF1A1P5\t1.48E+09\t1.56E+09\t1.22E+09\t1.48E+09\t1.56E+09\t1.22E+09\t\tKLEDGPK\tKLEDGPK\tKLEDGPK2\t2\t0.000431823\t0.0070171\t0.000413654\t1\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.48E+09\t1.56E+09\t1.54E+09\t6.21E+09\t0.983517\t27.6224\t27.5188\t27.7608\t-38.0815\t27.4486\t-37.8465\tElongation factor 1-alpha 1\t0.00422257\t0.000155521\t0.995021\t5.97E+09\t6.72896\t0.208005\t2.91026\t0.993793\t2.82536\t0.249338\t8.00577e+08;1.59319e+08;4.08342e+08;9.15178e+08;1.27701e+08;6.50621e+07;3.6127e+07;\t8.00577e+08;1.59319e+08;4.08342e+08;9.15178e+08;1.27701e+08;6.50621e+07;3.6127e+07;\t0.983411;0.984188;0.981714;0.984205;0.979773;0.986817;0.950005;\t37875\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP63267;P68133\tP68032;P62736;P68133;P63267\tACTH_HUMAN;ACTS_HUMAN\tACTA1;ACTG2\t2.59E+08\t2.67E+08\t2.86E+08\t2.59E+08\t2.67E+08\t2.86E+08\t\tYPIEHGIITNWDDMEK\tYPIEHGIITNWDDMEK\tYPIEHGIITNWDDMEK3\t3\t9.85E-05\t0.000247364\t0.000406417\t0.0303188\t0.000292099\t0.000287233\t0.000292483\t0\t0\t2.59E+08\t2.67E+08\t2.64E+08\t5.88E+09\t0.944878\t68.0697\t67.9661\t68.2077\t44.9242\t67.582\t47.3698\tActin, gamma-enteric smooth muscle\t0.000209662\t0.000155521\t0.976823\t5.78E+09\t6.08768\t0.170474\t1.8921\t0.99978\t1.30319\t0.0585148\t2.2772e+08;1.71254e+07;1.41307e+07;1.05065e+07;1.15779e+07;1.03996e+07;\t2.2772e+08;1.71254e+07;1.41307e+07;1.05065e+07;1.15779e+07;1.03097e+07;\t0.943529;0.968731;0.937705;0.9455;0.95887;0.918724;\t94103\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261;Q562R1\tA5A3E0;Q562R1;P68032;P60709;Q9BYX7;P63261;P62736;P68133;P63267;Q6S8J3\tACTBL_HUMAN;ACTB_HUMAN;ACTG_HUMAN\tACTB;ACTBL2;ACTG1\t2.28E+09\t2.31E+09\t2.49E+09\t2.28E+09\t2.31E+09\t2.49E+09\t\tSYELPDGQVITIGNER\tSYELPDGQVITIGNER\tSYELPDGQVITIGNER2\t2\t0.000176639\t0.000995006\t0.000413654\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.41E+09\t1.53E+09\t1.51E+09\t6.00E+09\t0.981575\t70.8699\t70.7668\t70.9726\t60.9921\t70.5831\t62.4906\tActin, cytoplasmic 1\t0.000758133\t0.000155521\t0.976903\t5.62E+09\t6.47517\t0.0152577\t0\t0.999115\t2.084\t0.123952\t1.26658e+09;4.17093e+08;1.42754e+08;1.31715e+07;7.66937e+06;5.32064e+06;\t1.26658e+09;4.17093e+08;1.42754e+08;1.31715e+07;7.66937e+06;5.22091e+06;\t0.981853;0.979525;0.979763;0.949661;0.970398;0.96364;\t98009\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ8N257;Q99880\tP58876;P23527;P06899;Q99880;Q99877;Q16778;Q99879;Q5QNW6;P57053;O60814;P62807;Q8N257;Q93079;P33778\tH2B1L_HUMAN;H2B3B_HUMAN\tH2BC13;H2BU1\t1.05E+09\t1.03E+09\t5.85E+08\t1.05E+09\t1.03E+09\t5.85E+08\t\tAMGIMNSFVNDIFER\tAMGIMNSFVNDIFER\tAMGIMNSFVNDIFER2\t2\t0.00781583\t0.248294\t0.00123375\t1\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.05E+09\t1.03E+09\t1.02E+09\t5.40E+09\t0.930469\t79.2215\t79.1524\t79.3253\t89.6401\t79.6034\t89.5894\tHistone H2B type 3-B\t0.00067334\t0.000155521\t0.953269\t5.53E+09\t5.72684\t0.899715\t0.915647\t0.819003\t3.25332\t1.84E-05\t1.06751e+09;4.06724e+08;3.58609e+08;3.72653e+08;3.51308e+08;3.38104e+08;2.89514e+08;2.92401e+08;3.12553e+08;2.45058e+08;1.08516e+08;6.59231e+07;\t1.01195e+09;3.91036e+08;3.58609e+08;3.72653e+08;3.49946e+08;3.37852e+08;2.88635e+08;2.91667e+08;3.01648e+08;2.34514e+08;1.05183e+08;6.3645e+07;\t0.895989;0.90651;0.932065;0.924545;0.928852;0.930451;0.929403;0.929607;0.908413;0.902675;0.912417;0.909182;\t109624\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP07900;P08238;Q58FF6;Q58FF8\tQ58FF7;P08238;Q58FF8;Q58FF6;P07900\tH90B2_HUMAN;H90B4_HUMAN;HS90A_HUMAN;HS90B_HUMAN\tHSP90AA1;HSP90AB1;HSP90AB2P;HSP90AB4P\t1.11E+09\t1.12E+09\t1.12E+09\t1.11E+09\t1.12E+09\t1.12E+09\t\tYESLTDPSK\tYESLTDPSK\tYESLTDPSK2\t2\t0.000238055\t0.0020366\t0.000413654\t0.000166917\t0.00500192\t0.00299215\t0.00501092\t0\t0\t1.11E+09\t1.12E+09\t1.10E+09\t5.42E+09\t0.983814\t45.3953\t45.2919\t45.5335\t-7.66303\t45.9571\t-8.76276\tHeat shock protein HSP 90-alpha\t0.000350841\t0.0013833\t0.999293\t5.44E+09\t6.7431\t0.447953\t1.9736\t0.998191\t1.82967\t0.00784658\t9.45016e+08;7.94255e+08;1.83609e+08;1.30001e+08;9.33503e+07;8.83889e+07;9.26863e+07;7.8938e+07;7.29961e+07;6.20347e+07;4.53422e+07;244970;\t9.45017e+08;7.94255e+08;1.83609e+08;1.30001e+08;9.33503e+07;8.83889e+07;9.26863e+07;7.8938e+07;7.29961e+07;6.20347e+07;4.53422e+07;0;\t0.981208;0.983112;0.983006;0.989244;0.981269;0.982979;0.984208;0.983554;0.986677;0.983278;0.976568;-0.431001;\t62557\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP84243;Q5TEC6\tP84243;Q16695;Q71DI3;Q5TEC6;Q6NXT2;P68431\tH33_HUMAN;H3PS2_HUMAN\tH3-2;H3-3A\t6.14E+08\t6.49E+08\t7.93E+08\t6.14E+08\t6.49E+08\t7.93E+08\t\tYRPGTVALR\tYRPGTVALR\tYRPGTVALR2\t2\t1.45E-05\t1.45E-05\t0.000338942\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t6.14E+08\t6.49E+08\t6.41E+08\t5.66E+09\t0.974321\t46.0166\t45.9129\t46.2239\t-7.80173\t45.8876\t-7.54156\tHistone H3.3\t9.14E-05\t0.000155521\t0.99874\t5.42E+09\t6.43909\t0.310159\t4.8418\t0.999987\t0\t-1.00E+07\t4.72994e+08;7.03402e+07;7.05606e+07;2.7205e+07;2.55425e+07;2.56059e+07;2.16745e+07;2.05811e+07;1.71975e+07;8.99623e+06;8.92781e+06;9.34675e+06;\t4.72994e+08;7.03402e+07;7.05161e+07;2.71085e+07;2.54932e+07;2.56059e+07;2.11806e+07;2.04258e+07;1.71512e+07;8.99623e+06;8.92781e+06;9.34675e+06;\t0.974102;0.973369;0.976742;0.970844;0.936498;0.946014;0.90601;0.968654;0.970185;0.948053;0.96315;0.946719;\t63420\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP60709;P63261;Q562R1\tQ562R1;P68032;P60709;P63261;P62736;P68133;P63267\tACTBL_HUMAN;ACTB_HUMAN;ACTG_HUMAN\tACTB;ACTBL2;ACTG1\t2.28E+09\t2.31E+09\t2.49E+09\t2.28E+09\t2.31E+09\t2.49E+09\t\tDLTDYLMK\tDLTDYLMK\tDLTDYLMK2\t2\t0.00206179\t0.0551038\t0.000413654\t0.00148854\t0.000154297\t0.000150989\t0.000154488\t0\t0\t1.25E+09\t1.27E+09\t1.26E+09\t5.17E+09\t0.940984\t71.711\t71.6421\t71.8144\t74.5754\t72.9647\t67.4258\tActin, cytoplasmic 1\t0.000927818\t0.000155521\t0.979698\t5.13E+09\t6.0189\t0.387993\t0.934052\t0.953247\t1.31\t0.027694\t7.95427e+08;2.85546e+08;2.08608e+08;1.69711e+08;4.3186e+07;4.58848e+06;\t7.95427e+08;2.84127e+08;2.08608e+08;1.68283e+08;4.24921e+07;4.58848e+06;\t0.945725;0.932558;0.939034;0.932805;0.925797;0.955959;\t99179\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP17066\tP17066;P48741\tHSP76_HUMAN\tHSPA6\t9.39E+08\t9.85E+08\t9.85E+08\t9.39E+08\t9.85E+08\t9.85E+08\t\tVEILANDQGNR\tVEILANDQGNR\tVEILANDQGNR2\t2\t0.000127789\t0.000401812\t0.00121251\t1\t0.00711522\t0.00862578\t0.00712767\t0\t0\t9.39E+08\t9.85E+08\t9.73E+08\t5.31E+09\t0.988216\t49.6477\t49.544\t49.7859\t1.35036\t50.2825\t0.00954159\tHeat shock 70 kDa protein 6\t0.000677861\t0.00498043\t0.999399\t5.12E+09\t6.77949\t0.645876\t2.95958\t0.999642\t2.11176\t0.0728485\t7.251e+08;4.64154e+08;4.21074e+08;2.9303e+08;2.04103e+08;2.24616e+08;7.02622e+07;8.47998e+07;3.73892e+07;1.9421e+07;1.09734e+07;\t7.251e+08;4.64154e+08;4.21074e+08;2.9303e+08;2.04103e+08;2.24616e+08;7.02622e+07;8.47998e+07;3.73892e+07;1.9421e+07;1.09734e+07;\t0.986781;0.983497;0.988935;0.988418;0.985315;0.986605;0.982543;0.989395;0.98823;0.977329;0.98406;\t68468\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62979;P62987\tP62987;P62979;P0CG47;P0CG48\tRL40_HUMAN;RS27A_HUMAN\tRPS27A;UBA52\t2.71E+09\t2.56E+09\t2.42E+09\t2.71E+09\t2.56E+09\t2.42E+09\t\tESTLHLVLR\tESTLHLVLR\tESTLHLVLR3\t3\t0.000545446\t0.00928902\t0.000413654\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t2.71E+09\t2.56E+09\t2.53E+09\t4.46E+09\t0.987045\t63.9926\t63.8546\t64.1998\t31.5895\t64.4915\t30.1253\tUbiquitin-40S ribosomal protein S27a\t0.001007\t0.000155521\t0.990392\t4.77E+09\t6.78482\t0.367009\t0\t0.9918\t1.27118\t0.0833539\t9.24239e+08;1.38204e+09;5.37889e+08;3.63184e+08;4.03011e+08;1.6913e+08;4.42671e+07;\t9.24239e+08;1.38204e+09;5.37889e+08;3.63184e+08;4.03011e+08;1.6913e+08;4.42671e+07;\t0.983891;0.988317;0.987495;0.983762;0.989917;0.98929;0.982456;\t88416\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62805\tP62805\tH4_HUMAN\tH4C1\t2.80E+09\t2.76E+09\t1.99E+09\t2.80E+09\t2.76E+09\t1.99E+09\t1.99E+09\tDAVTYTEHAK\tDAVTYTEHAK\tDAVTYTEHAK3\t3\t0.000693018\t0.0126726\t0.0825586\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t7.57E+08\t7.77E+08\t7.68E+08\t4.69E+09\t0.974706\t36.9237\t36.7854\t37.0618\t-25.447\t36.9081\t-25.406\tHistone H4\t0.00884812\t0.000155521\t0.98909\t4.63E+09\t5.64087\t0.333737\t0\t0.988846\t1.1678\t0.124419\t3.85686e+08;1.91591e+08;1.7997e+08;0;8.38708e+07;7.0683e+07;5.45228e+07;\t3.85686e+08;1.91591e+08;1.79758e+08;0;8.38708e+07;7.0683e+07;5.45228e+07;\t0.975229;0.974357;0.973957;0;0.970785;0.974144;0.982379;\t50786\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ05639\tP68104;Q5VTE0;Q05639\tEF1A2_HUMAN\tEEF1A2\t5.67E+09\t5.95E+09\t2.32E+09\t5.67E+09\t5.95E+09\t2.32E+09\t\tSTTTGHLIYK\tSTTTGHLIYK\tSTTTGHLIYK3\t3\t2.06E-05\t4.57E-05\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t3.68E+08\t3.78E+08\t3.73E+08\t4.61E+09\t0.970665\t43.0746\t42.971\t43.2818\t-13.464\t43.1976\t-13.7295\tElongation factor 1-alpha 2\t0.000209662\t0.000155521\t0.990573\t4.55E+09\t6.57166\t0.829609\t1.93063\t0.999959\t0\t-1.00E+07\t1.49995e+08;1.20023e+08;9.82084e+07;9.06548e+07;9.39456e+07;8.8431e+07;6.88827e+07;3.5403e+07;3.22209e+07;2.42421e+07;1.56332e+07;1.61812e+07;\t1.49995e+08;1.20023e+08;9.82084e+07;9.06548e+07;9.39456e+07;8.8431e+07;6.88827e+07;3.5403e+07;3.22209e+07;2.42421e+07;1.56332e+07;1.61812e+07;\t0.967732;0.975477;0.969265;0.968643;0.964716;0.9725;0.978234;0.967442;0.964504;0.972432;0.95524;0.957886;\t59329\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP06733\tP06733\tENOA_HUMAN\tENO1\t1.43E+09\t1.46E+09\t1.51E+09\t1.43E+09\t1.46E+09\t1.51E+09\t1.51E+09\tTIAPALVSK\tTIAPALVSK\tTIAPALVSK2\t2\t0.000238055\t0.00186618\t0.000413654\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.43E+09\t1.46E+09\t1.44E+09\t4.48E+09\t0.98229\t59.3048\t59.1668\t59.4431\t20.1321\t59.2844\t20.1979\tAlpha-enolase\t0.00305996\t0.000155521\t0.996428\t4.45E+09\t6.71521\t0.521823\t0\t0.998342\t1.37506\t0.0417564\t2.26516e+08;4.21805e+08;1.20832e+08;7.82295e+08;7.03528e+07;6.64737e+07;\t2.26516e+08;4.21805e+08;1.20832e+08;7.82295e+08;7.03528e+07;6.64737e+07;\t0.983176;0.981869;0.985201;0.982261;0.981694;0.981153;\t81895\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ05639\tP68104;Q5VTE0;Q05639\tEF1A2_HUMAN\tEEF1A2\t5.67E+09\t5.95E+09\t2.32E+09\t5.67E+09\t5.95E+09\t2.32E+09\t\tQTVAVGVIK\tQTVAVGVIK\tQTVAVGVIK2\t2\t8.85E-05\t0.000139845\t0.000999889\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t7.84E+08\t8.19E+08\t8.09E+08\t4.58E+09\t0.987811\t57.9254\t57.8224\t58.0971\t18.7789\t58.6357\t17.28\tElongation factor 1-alpha 2\t0.000384902\t0.000155521\t0.999135\t4.44E+09\t6.78093\t0.599047\t7.89659\t0.999876\t1.09563\t0.00276125\t3.80968e+08;3.68507e+08;2.11917e+08;1.91203e+08;1.71659e+08;1.59891e+08;1.48329e+08;1.36445e+08;5.08095e+07;4.44708e+07;4.17958e+07;3.41061e+07;\t3.80968e+08;3.68507e+08;2.11917e+08;1.91203e+08;1.71659e+08;1.59891e+08;1.48329e+08;1.36445e+08;5.08095e+07;4.44708e+07;4.17958e+07;3.41061e+07;\t0.987708;0.9876;0.988219;0.987563;0.985192;0.985322;0.98679;0.988092;0.984893;0.985051;0.985218;0.986951;\t79976\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ16777;Q6FI13\tQ9BTM1;Q96KK5;Q99878;P20671;P04908;Q93077;Q6FI13;Q16777;P0C0S8;Q7L7L0\tH2A2A_HUMAN;H2A2C_HUMAN\tH2AC18;H2AC20\t5.51E+08\t5.52E+08\t4.93E+08\t5.51E+08\t5.52E+08\t4.93E+08\t\tVTIAQGGVLPNIQAVLLPK\tVTIAQGGVLPNIQAVLLPK\tVTIAQGGVLPNIQAVLLPK2\t2\t8.85E-05\t0.000125242\t0.000345941\t1\t0.000154297\t0.000150989\t0.000154488\t0\t0\t5.51E+08\t5.52E+08\t5.45E+08\t4.33E+09\t0.953783\t79.0183\t78.9146\t79.0875\t89.5042\t79.1686\t89.5329\tHistone H2A type 2-C\t0.000118827\t0.000155521\t0.919696\t4.38E+09\t5.90865\t0.801051\t2.87257\t0.999889\t1.75784\t0.0114251\t3.15416e+08;1.56526e+08;1.61072e+08;1.39492e+08;1.04563e+08;9.65366e+07;7.28477e+07;6.17481e+07;5.77218e+07;4.47374e+07;4.20848e+07;2.60212e+07;\t3.15416e+08;1.50704e+08;1.53262e+08;1.39492e+08;9.92562e+07;9.65366e+07;7.25062e+07;6.17481e+07;5.77218e+07;4.47374e+07;4.20848e+07;2.60212e+07;\t0.951497;0.919515;0.909991;0.954812;0.908618;0.959766;0.938788;0.953433;0.961606;0.961138;0.955892;0.953514;\t109343\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP10809\tP10809\tCH60_HUMAN\tHSPD1\t1.26E+09\t1.25E+09\t1.49E+09\t1.26E+09\t1.25E+09\t1.49E+09\t1.49E+09\tLSDGVAVLK\tLSDGVAVLK\tLSDGVAVLK2\t2\t0.00353004\t0.103154\t0.00147113\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t6.30E+08\t6.48E+08\t6.40E+08\t4.44E+09\t0.979119\t59.9607\t59.857\t60.0988\t23.626\t61.0174\t21.5193\t60 kDa heat shock protein, mitochondrial\t0.00133957\t0.000155521\t0.997238\t4.37E+09\t6.65027\t0.337979\t0\t0.915907\t1.84069\t0.0546863\t1.20585e+08;7.65971e+07;2.23002e+08;4.32341e+08;5.32281e+08;2.41822e+07;\t1.20585e+08;7.65971e+07;2.22817e+08;4.32341e+08;5.32281e+08;2.41822e+07;\t0.975959;0.977693;0.975398;0.980253;0.979153;0.971978;\t82807\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62979;P62987\tP62987;P62979;P0CG47;P0CG48\tRL40_HUMAN;RS27A_HUMAN\tRPS27A;UBA52\t2.71E+09\t2.56E+09\t2.42E+09\t2.71E+09\t2.56E+09\t2.42E+09\t\tESTLHLVLR\tESTLHLVLR\tESTLHLVLR2\t2\t8.85E-05\t0.00012685\t0.000338942\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t7.04E+08\t6.73E+08\t6.65E+08\t4.05E+09\t0.985595\t63.9664\t63.8629\t64.1736\t31.3154\t64.4083\t30.0484\tUbiquitin-40S ribosomal protein S27a\t9.30E-05\t0.000155521\t0.996884\t4.29E+09\t6.74286\t0.222102\t3.94314\t0.999887\t1.05383\t0.0667772\t5.69563e+08;1.1803e+08;7.51931e+07;5.90536e+07;3.56413e+07;1.56632e+07;1.97808e+07;8.2565e+06;\t5.69563e+08;1.1803e+08;7.51931e+07;5.90536e+07;3.55164e+07;1.56632e+07;1.97808e+07;8.19959e+06;\t0.984542;0.983562;0.990373;0.989669;0.976993;0.97337;0.989202;0.976059;\t88382\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP06733\tP06733\tENOA_HUMAN\tENO1\t1.43E+09\t1.46E+09\t1.51E+09\t1.43E+09\t1.46E+09\t1.51E+09\t1.51E+09\tIEEELGSK\tIEEELGSK\tIEEELGSK2\t2\t0.00426807\t0.127052\t0.00231448\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.13E+09\t1.13E+09\t1.12E+09\t4.12E+09\t0.979688\t41.2814\t41.1776\t41.4198\t-16.1764\t41.9516\t-17.5245\tAlpha-enolase\t0.00164032\t0.000155521\t0.995565\t4.18E+09\t5.70255\t0.345963\t0.98019\t0.898405\t2.83151\t0.185516\t1.5692e+08;5.45715e+08;9.03357e+07;4.97219e+08;2.26027e+07;\t1.5692e+08;5.45715e+08;9.03357e+07;4.97219e+08;2.26027e+07;\t0.976226;0.97973;0.977074;0.980117;0.985626;\t56839\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP06733\tP06733\tENOA_HUMAN\tENO1\t1.43E+09\t1.46E+09\t1.51E+09\t1.43E+09\t1.46E+09\t1.51E+09\t1.51E+09\tLNVTEQEK\tLNVTEQEK\tLNVTEQEK2\t2\t0.000392024\t0.0044445\t0.000413654\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t9.33E+08\t9.56E+08\t9.44E+08\t4.14E+09\t0.971193\t39.1408\t39.0372\t39.279\t-21.4068\t39.1615\t-21.4348\tAlpha-enolase\t0.0015674\t0.000155521\t0.995705\t4.09E+09\t6.43157\t0.398783\t0.962498\t0.99606\t1.95881\t0.037598\t3.93286e+08;3.61028e+08;1.50928e+08;9.88497e+07;1.78885e+08;3.33179e+07;\t3.93286e+08;3.61028e+08;1.50928e+08;9.16502e+07;1.78584e+08;3.32805e+07;\t0.968108;0.973591;0.968385;0.931867;0.97314;0.958941;\t53866\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ12931\tQ12931\tTRAP1_HUMAN\tTRAP1\t1.91E+09\t1.97E+09\t1.90E+09\t1.91E+09\t1.97E+09\t1.90E+09\t1.90E+09\tGVVDSEDIPLNLSR\tGVVDSEDIPLNLSR\tGVVDSEDIPLNLSR2\t2\t7.38E-05\t9.85E-05\t0.000380449\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.91E+09\t1.97E+09\t1.95E+09\t4.11E+09\t0.952441\t70.3134\t70.2098\t70.4161\t59.1028\t70.2379\t59.4085\tHeat shock protein 75 kDa, mitochondrial\t0.000188345\t0.000155521\t0.989093\t4.04E+09\t6.19034\t0.396458\t2.84728\t0.999912\t1.94547\t0.0536657\t1.38625e+09;3.03509e+08;2.89904e+08;2.23285e+08;2.0725e+08;1.79263e+08;1.34722e+08;1.25874e+08;1.18732e+08;1.00809e+08;4.99096e+07;5.30507e+07;\t1.38625e+09;3.03509e+08;2.89904e+08;2.23285e+08;2.03962e+08;1.79263e+08;1.34722e+08;1.25874e+08;1.18732e+08;1.00809e+08;4.99096e+07;5.30507e+07;\t0.952381;0.950571;0.950114;0.955355;0.944222;0.951909;0.952771;0.952519;0.94398;0.94636;0.954871;0.945841;\t97231\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP08238\tP08238\tHS90B_HUMAN\tHSP90AB1\t1.51E+09\t1.56E+09\t1.65E+09\t1.51E+09\t1.56E+09\t1.65E+09\t5.72E+08\tHLEINPDHPIVETLR\tHLEINPDHPIVETLR\tHLEINPDHPIVETLR3\t3\t9.85E-05\t0.000323544\t0.000822803\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t6.61E+08\t6.85E+08\t6.77E+08\t4.12E+09\t0.961266\t65.3483\t65.2448\t65.4517\t31.4033\t64.4352\t34.9043\tHeat shock protein HSP 90-beta\t0.000209662\t0.000155521\t0.991731\t4.02E+09\t6.3287\t0.501928\t2.89087\t0.999712\t1.92754\t0.0344686\t6.27024e+08;2.59932e+08;2.16322e+08;1.84755e+08;1.90832e+08;1.20218e+08;1.42167e+08;1.14318e+08;9.75813e+07;1.02384e+08;8.45648e+07;8.5396e+07;\t6.27024e+08;2.59932e+08;2.16322e+08;1.84755e+08;1.90832e+08;1.20218e+08;1.42167e+08;1.14318e+08;9.75813e+07;1.02384e+08;8.45648e+07;8.5396e+07;\t0.955426;0.962561;0.953839;0.968141;0.960494;0.957902;0.969181;0.964837;0.961304;0.966444;0.969984;0.967923;\t90306\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62937\tP62937\tPPIA_HUMAN\tPPIA\t7.96E+08\t7.98E+08\t6.48E+08\t7.96E+08\t7.98E+08\t6.48E+08\t6.78E+08\tFEDENFILK\tFEDENFILK\tFEDENFILK2\t2\t9.85E-05\t0.000193836\t0.000338942\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t7.96E+08\t7.98E+08\t7.89E+08\t3.98E+09\t0.969135\t69.2713\t69.1678\t69.3743\t55.2639\t69.5356\t53.7356\tPeptidyl-prolyl cis-trans isomerase A\t9.14E-05\t0.000155521\t0.994331\t4.02E+09\t6.42557\t0.771977\t3.86337\t0.999828\t1.36998\t0.0283622\t5.3029e+08;1.73122e+08;1.20542e+08;9.27354e+07;8.04441e+07;6.83525e+07;5.72193e+07;4.10514e+07;1.52986e+07;8.65e+06;\t5.3029e+08;1.73122e+08;1.20542e+08;9.27354e+07;8.04441e+07;6.83525e+07;5.72193e+07;4.10514e+07;1.52986e+07;8.65e+06;\t0.969425;0.969936;0.962926;0.965981;0.969611;0.961205;0.966717;0.965576;0.969506;0.965053;\t95777\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP62979;P62987\tP62987;P62979;P0CG47;P0CG48\tRL40_HUMAN;RS27A_HUMAN\tRPS27A;UBA52\t2.71E+09\t2.56E+09\t2.42E+09\t2.71E+09\t2.56E+09\t2.42E+09\t\tTITLEVEPSDTIENVK\tTITLEVEPSDTIENVK\tTITLEVEPSDTIENVK2\t2\t0.000384728\t0.00369355\t0.000345941\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t8.94E+08\t9.40E+08\t9.28E+08\t4.17E+09\t0.926375\t69.7678\t69.6645\t69.8711\t53.8745\t69.2838\t56.4398\tUbiquitin-40S ribosomal protein S27a\t0.000111582\t0.000155521\t0.98402\t4.02E+09\t5.89229\t0.435653\t1.86769\t0.996723\t2.67187\t0.0731647\t5.45605e+08;5.26677e+07;3.17573e+08;2.06002e+08;1.95136e+08;1.55333e+08;1.28686e+08;7.99912e+07;8.67784e+07;\t5.43953e+08;5.2275e+07;3.17573e+08;2.06002e+08;1.95136e+08;1.55333e+08;1.28674e+08;7.99912e+07;8.65668e+07;\t0.919716;0.915585;0.948493;0.923251;0.945683;0.925436;0.931616;0.928686;0.929259;\t96473\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP11142\tP0DMV9;P11142;P0DMV8\tHSP7C_HUMAN\tHSPA8\t1.18E+09\t1.22E+09\t1.17E+09\t1.18E+09\t1.22E+09\t1.17E+09\t\tMVQEAEK\tMVQEAEK\tMVQEAEK2\t2\t0.000952997\t0.019864\t0.000413654\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t0\t7.06E+08\t6.90E+08\t6.82E+08\t3.82E+09\t0.967368\t29.9747\t29.871\t30.0784\t-35.8885\t29.7298\t-35.6414\tHeat shock cognate 71 kDa protein\t0.00329775\t0.000155521\t0.988986\t3.96E+09\t6.46198\t0.142346\t0.97031\t0.982627\t0.523363\t0.0544192\t1.36024e+08;1.11873e+08;4.0263e+08;2.87334e+08;1.65726e+07;2.23634e+07;\t1.36024e+08;1.11873e+08;4.0263e+08;2.87335e+08;1.64578e+07;2.23634e+07;\t0.969632;0.968904;0.967514;0.967005;0.970144;0.973945;\t41141\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP10809\tP10809\tCH60_HUMAN\tHSPD1\t1.26E+09\t1.25E+09\t1.49E+09\t1.26E+09\t1.25E+09\t1.49E+09\t1.49E+09\tVTDALNATR\tVTDALNATR\tVTDALNATR2\t2\t9.85E-05\t0.000331719\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t4.78E+08\t4.92E+08\t4.87E+08\t3.97E+09\t0.986772\t43.1834\t43.0799\t43.2871\t-12.155\t43.7902\t-13.4877\t60 kDa heat shock protein, mitochondrial\t0.000209662\t0.000155521\t0.996611\t3.90E+09\t6.70628\t0.569242\t1.97354\t0.999705\t1.14637\t0.00399249\t5.49052e+08;2.35269e+08;2.23748e+08;2.02586e+08;1.83709e+08;7.04234e+07;7.32998e+07;6.97587e+07;2.49265e+07;2.17733e+07;1.89957e+07;1.36312e+07;\t5.49052e+08;2.35269e+08;2.23748e+08;2.02586e+08;1.83709e+08;7.04234e+07;7.32664e+07;6.3334e+07;2.49265e+07;2.17733e+07;1.89957e+07;1.36312e+07;\t0.986621;0.977207;0.986477;0.988092;0.987754;0.985154;0.986235;0.938041;0.984728;0.988385;0.986479;0.979176;\t59482\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP55011\tP55011\tS12A2_HUMAN\tSLC12A2\t5.98E+06\t5.93E+06\t6.35E+06\t5.98E+06\t5.93E+06\t6.35E+06\t6.35E+06\tAAAAAAAAAAAAAAAGAGAGAK\tAAAAAAAAAAAAAAAGAGAGAK\tAAAAAAAAAAAAAAAGAGAGAK2\t2\t1.10E-05\t1.10E-05\t6.94E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t734849\t715716\t707124\t2.60E+06\t0.908655\t66.8382\t66.7693\t66.941\t42.4172\t67.1197\t41.089\tSolute carrier family 12 member 2\t1.17E-06\t0.000155521\t0.961374\t2.71E+06\t4.0176\t0.543523\t2.47226\t0.99999\t0\t-1.00E+07\t203175;329950;337362;393260;166591;303261;175223;166859;0;\t203175;239857;337362;366022;166591;202236;175223;166859;0;\t0.94466;0.797355;0.962807;0.952806;0.944307;0.799379;0.944746;0.943977;0;\t92386\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP55011\tP55011\tS12A2_HUMAN\tSLC12A2\t5.98E+06\t5.93E+06\t6.35E+06\t5.98E+06\t5.93E+06\t6.35E+06\t6.35E+06\tAAAAAAAAAAAAAAAGAGAGAK\tAAAAAAAAAAAAAAAGAGAGAK\tAAAAAAAAAAAAAAAGAGAGAK3\t3\t2.06E-05\t1.95E-05\t5.42E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.31E+06\t1.28E+06\t1.26E+06\t6.21E+06\t0.684834\t66.8599\t66.7564\t66.997\t42.4514\t67.1264\t41.1895\tSolute carrier family 12 member 2\t4.16E-07\t0.000155521\t0.912233\t6.43E+06\t4.09677\t0.770944\t0\t0.999983\t1.81774\t0.112525\t818363;1.11654e+06;722732;201747;393384;259548;\t306024;739798;659295;75260.9;343071;259548;\t0.575248;0.633442;0.906944;0.656656;0.839257;0.960528;\t92414\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ99453\tQ99453\tPHX2B_HUMAN\tPHOX2B\t7.32E+06\t7.18E+06\t7.18E+06\t7.32E+06\t7.18E+06\t7.18E+06\t7.18E+06\tAAAAAAAAAK\tAAAAAAAAAK\tAAAAAAAAAK2\t2\t7.38E-05\t8.27E-05\t0.000406417\t0.00317827\t0.00352526\t0.00263687\t0.00353172\t0\t1\t7.32E+06\t7.18E+06\t7.10E+06\t3.04E+07\t0.881489\t29.4893\t29.3855\t29.5931\t-36.2035\t29.4027\t-36.142\tPaired mesoderm homeobox protein 2B\t0.000209662\t0.00179014\t0.808718\t3.14E+07\t5.00822\t0.751302\t1.80157\t0.999926\t0\t-1.00E+07\t3.53824e+06;2.45351e+06;3.54621e+06;1.8459e+06;3.42215e+06;1.18497e+06;\t3.53824e+06;2.45351e+06;3.11526e+06;1.75191e+06;1.4577e+06;467412;\t0.955065;0.944998;0.840062;0.866211;0.0934324;0.559032;\t40467\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP37108\tP37108\tSRP14_HUMAN\tSRP14\t6.94E+07\t7.00E+07\t6.70E+07\t6.94E+07\t7.00E+07\t6.70E+07\t6.70E+07\tAAAAAAAAAPAAAATAPTTAATTAATAAQ\tAAAAAAAAAPAAAATAPTTAATTAATAAQ\tAAAAAAAAAPAAAATAPTTAATTAATAAQ3\t3\t2.06E-05\t1.79E-05\t6.63E-07\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.15E+06\t1.20E+06\t1.19E+06\t4.40E+07\t0.941162\t66.5616\t66.4583\t66.665\t37.8276\t66.0713\t39.8636\tSignal recognition particle 14 kDa protein\t1.00E-09\t0.000155521\t0.961038\t4.27E+07\t3.75456\t0.257431\t0.14544\t0.999984\t1.60774\t0.399652\t6.583e+06;776772;361489;177173;374308;4.89243e+06;191324;369434;\t4.5176e+06;776772;361489;0;374308;617722;191324;0;\t0.622782;0.93271;0.912519;0.530227;0.958702;-0.34638;0.908708;0.0663301;\t92001\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ96JP5\tQ96JP5\tZFP91_HUMAN\tZFP91\t3.02E+06\t3.05E+06\t3.06E+06\t3.02E+06\t3.05E+06\t3.06E+06\t3.06E+06\tAAAAAAAAAVSR\tAAAAAAAAAVSR\tAAAAAAAAAVSR2\t2\t4.02E-07\t4.02E-07\t0.000338942\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t3.02E+06\t3.05E+06\t3.01E+06\t1.02E+07\t0.946382\t43.5642\t43.4605\t43.6677\t-12.6338\t43.5728\t-12.6347\tE3 ubiquitin-protein ligase ZFP91\t9.85E-05\t0.000155521\t0.980693\t1.02E+07\t5.99409\t0.678343\t2.76347\t1\t1.49283\t0.0437854\t2.00025e+06;788954;898598;639632;757650;677999;353387;81450.6;\t1.67662e+06;788954;874145;639632;757650;590464;314868;0;\t0.926685;0.959546;0.964721;0.954063;0.988704;0.948005;0.938464;0.0225276;\t60011\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP36578\tP36578\tRL4_HUMAN\tRPL4\t3.50E+08\t3.44E+08\t3.55E+08\t3.50E+08\t3.44E+08\t3.55E+08\t3.55E+08\tAAAAAAALQAK\tAAAAAAALQAK\tAAAAAAALQAK2\t2\t7.38E-05\t8.98E-05\t0.000172164\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.75E+08\t1.79E+08\t1.77E+08\t7.58E+08\t0.987361\t44.8752\t44.7717\t45.0134\t-10.3997\t44.6033\t-9.8017\t60S ribosomal protein L4\t1.74E-05\t0.000155521\t0.996238\t7.50E+08\t6.79702\t0.914196\t2.95876\t0.99992\t2.8238\t0.00247232\t9.69508e+07;5.98928e+07;4.85251e+07;4.08031e+07;3.15859e+07;2.95721e+07;2.28166e+07;1.85254e+07;0;1.60052e+07;1.6292e+07;1.29384e+07;\t9.69508e+07;5.98928e+07;4.85251e+07;4.08031e+07;3.15859e+07;2.95721e+07;2.28166e+07;1.85254e+07;0;1.60052e+07;1.61109e+07;1.29384e+07;\t0.985302;0.988903;0.990083;0.987323;0.992626;0.989648;0.989127;0.985732;0;0.982823;0.985877;0.980133;\t61833\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ6SPF0\tQ6SPF0\tSAMD1_HUMAN\tSAMD1\t1.06E+06\t1.01E+06\t1.87E+06\t1.06E+06\t1.01E+06\t1.87E+06\t1.87E+06\tAAAAAATAPPSPGPAQPGPR\tAAAAAATAPPSPGPAQPGPR\tAAAAAATAPPSPGPAQPGPR2\t2\t0.000431823\t0.00588898\t0.000547692\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t863031\t889611\t878932\t0\t0.943755\t50.4896\t50.3515\t50.6278\t3.14058\t51.1537\t1.79602\tAtherin\t8.12E-05\t0.000155521\t0\t0\t2.59147\t0.674297\t0\t0.994786\t0\t-1.00E+07\t385386;136612;341033;0;0;0;570436;0;16541.4;10401.4;0;142998;\t385386;136612;341033;0;0;0;0;0;5710.93;0;0;45163.3;\t0.989031;0.959404;0.886322;0;0;0;-0.305921;0;0.617071;0.468092;0;0.477145;\t69640\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO76031\tO76031\tCLPX_HUMAN\tCLPX\t9.30E+06\t9.41E+06\t1.10E+07\t9.30E+06\t9.41E+06\t1.10E+07\t1.10E+07\tAAAAADLANR\tAAAAADLANR\tAAAAADLANR2\t2\t5.02E-06\t5.02E-06\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t9.30E+06\t9.41E+06\t9.30E+06\t4.61E+07\t0.975563\t40.9025\t40.7642\t41.0061\t-18.2598\t40.908\t-18.2635\tATP-dependent Clp protease ATP-binding subunit clpX-like, mitochondrial\t0.000235429\t0.000155521\t0.992039\t4.61E+07\t6.06422\t0.582608\t1.69658\t0.999996\t3.04009\t0.449584\t4.2768e+06;3.45671e+06;2.20558e+06;1.82788e+06;1.68789e+06;1.56231e+06;1.01818e+06;\t4.15062e+06;3.45671e+06;2.20558e+06;1.82788e+06;1.68789e+06;1.27045e+06;1.01818e+06;\t0.968368;0.985591;0.984045;0.980981;0.972721;0.843875;0.980606;\t56313\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ8WUQ7\tQ8WUQ7\tCATIN_HUMAN\tCACTIN\t1.62E+06\t1.61E+06\t1.45E+06\t1.62E+06\t1.61E+06\t1.45E+06\t1.45E+06\tAAAAALSQQQSLQER\tAAAAALSQQQSLQER\tAAAAALSQQQSLQER2\t2\t3.42E-06\t3.42E-06\t3.52E-05\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t322246\t340825\t336734\t1.50E+06\t0.850187\t50.0018\t49.9328\t50.1054\t1.46958\t50.34\t0.759389\tCactin\t7.34E-06\t0.000155521\t0.822074\t1.44E+06\t3.60659\t0.424567\t0.702174\t0.999997\t0\t-1.00E+07\t218427;98341.1;59048.7;52347.3;0;99960.3;\t193008;70189.4;59048.7;17599.6;0;36617.2;\t0.882208;0.696192;0.928573;0.671124;0;0.655698;\t68961\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tA6NIH7\tA6NIH7\tU119B_HUMAN\tUNC119B\t1.27E+06\t1.30E+06\t1.37E+06\t1.27E+06\t1.30E+06\t1.37E+06\t1.37E+06\tAAAAASAAGPGGLVAGK\tAAAAASAAGPGGLVAGK\tAAAAASAAGPGGLVAGK2\t2\t0.000153243\t0.000591965\t4.60E-07\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.09E+06\t1.13E+06\t1.12E+06\t5.20E+06\t0.765567\t54.5889\t54.4853\t54.6923\t10.3803\t54.6569\t10.2768\tProtein unc-119 homolog B\t1.00E-09\t0.000155521\t0.978429\t5.07E+06\t3.2348\t0.60884\t0.444085\t0.999473\t2.23185\t0.65963\t866708;985092;298186;357639;195489;1.91259e+06;51518.8;249298;\t553669;553685;38576.1;340684;195489;557270;15808.8;170115;\t0.726853;0.58521;-0.0177422;0.9597;0.938074;0.440178;0.600464;0.785562;\t75336\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9BTD8\tQ9BTD8\tRBM42_HUMAN\tRBM42\t1.81E+07\t1.86E+07\t1.66E+07\t1.81E+07\t1.86E+07\t1.66E+07\t1.66E+07\tAAAAATVVPPMVGGPPFVGPVGFGPGDR\tAAAAATVVPPMVGGPPFVGPVGFGPGDR\tAAAAATVVPPMVGGPPFVGPVGFGPGDR3\t3\t1.00E-09\t0\t2.17E-05\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t2.06E+06\t2.01E+06\t1.98E+06\t4.71E+06\t0.966755\t78.5982\t78.4598\t78.702\t89.3662\t78.7332\t89.3934\tRNA-binding protein 42\t4.54E-06\t0.000155521\t0.959185\t4.89E+06\t5.79148\t0.582026\t0.734682\t1\t1.68212\t0.0265325\t1.29163e+06;743800;651046;660488;244590;376315;\t1.29163e+06;743800;651046;660488;126849;376315;\t0.984507;0.961391;0.95443;0.984943;0.710144;0.973681;\t108759\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9P258\tQ9P258\tRCC2_HUMAN\tRCC2\t7.20E+07\t7.75E+07\t7.25E+07\t7.20E+07\t7.75E+07\t7.25E+07\t7.25E+07\tAAAAAWEEPSSGNGTAR\tAAAAAWEEPSSGNGTAR\tAAAAAWEEPSSGNGTAR2\t2\t1.00E-09\t0\t4.79E-09\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.42E+06\t1.48E+06\t1.47E+06\t5.41E+06\t0.987178\t51.0052\t50.8673\t51.1087\t2.91876\t51.0451\t2.8668\tProtein RCC2\t1.00E-09\t0.000155521\t0.918841\t5.25E+06\t6.17456\t0.635877\t0.896129\t1\t1.75598\t0.0374735\t791478;414752;324936;305981;396341;215730;293490;\t791478;397386;324936;305981;369671;215730;287196;\t0.983947;0.985905;0.99215;0.990253;0.979319;0.88922;0.987358;\t70356\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO60518\tO60518\tRNBP6_HUMAN\tRANBP6\t3.75E+06\t4.06E+06\t5.08E+06\t3.75E+06\t4.06E+06\t5.08E+06\t5.08E+06\tAAAAFVLANENNIALFK\tAAAAFVLANENNIALFK\tAAAAFVLANENNIALFK2\t2\t0.0019292\t0.0502972\t0.0118852\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t192954\t188034\t185777\t1.44E+06\t0.841796\t75.731\t75.6618\t75.8002\t86.8757\t75.66\t87.0801\tRan-binding protein 6\t0.00455153\t0.000155521\t0.820376\t1.49E+06\t2.48742\t0.607297\t0.727578\t0.957151\t1.61993\t0.0722952\t0;59268;37409.6;133995;31960.6;0;111706;178822;0;0;0;0;\t0;59268;28057.2;105628;23970.5;0;85753.9;92464.7;0;0;0;0;\t0;0.801784;0.801784;0.874876;0.801784;0;0.898133;0.786455;0;0;0;0;\t104777\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9Y2U8\tQ9Y2U8\tMAN1_HUMAN\tLEMD3\t5.43E+06\t5.45E+06\t4.46E+06\t5.43E+06\t5.45E+06\t4.46E+06\t4.46E+06\tAAAAGSLDR\tAAAAGSLDR\tAAAAGSLDR2\t2\t0.000431823\t0.00672927\t0.00135381\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t3.50E+06\t3.61E+06\t3.57E+06\t1.22E+07\t0.977119\t34.4357\t34.332\t34.5394\t-28.8231\t34.9907\t-29.7015\tInner nuclear membrane protein Man1\t0.000902812\t0.000155521\t0.958071\t1.20E+07\t4.03242\t0.299562\t0.62512\t0.994046\t2.0684\t0.0360598\t4.35921e+06;1.22818e+06;1.22589e+06;1.05021e+06;784517;168415;\t1.12011e+06;1.22818e+06;1.22589e+06;1.05021e+06;150348;167301;\t-0.250785;0.987145;0.975576;0.967196;0.270694;0.809369;\t47333\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ13671\tQ13671\tRIN1_HUMAN\tRIN1\t8.36E+06\t8.28E+06\t8.40E+06\t8.36E+06\t8.28E+06\t8.40E+06\t8.40E+06\tAAAALMQDR\tAAAALMQDR\tAAAALMQDR2\t2\t1.53E-05\t1.53E-05\t0.000859186\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t3.39E+06\t3.44E+06\t3.40E+06\t8.28E+06\t0.968847\t46.5678\t46.4642\t46.706\t-6.43864\t46.5677\t-6.44649\tRas and Rab interactor 1\t0.000284611\t0.000155521\t0.888492\t8.26E+06\t5.57387\t0.570811\t0.733917\t0.999986\t1.99603\t0.0833016\t1.53683e+06;1.55664e+06;1.13051e+06;912253;629190;808775;\t1.53683e+06;1.22565e+06;1.00542e+06;912253;629190;625418;\t0.995076;0.929489;0.897861;0.981752;0.981451;0.92022;\t64185\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ68DK7\tQ68DK7\tMSL1_HUMAN\tMSL1\t4.65E+06\t4.70E+06\t2.52E+06\t4.65E+06\t4.70E+06\t2.52E+06\t2.52E+06\tAAAAPAGGNPEQR\tAAAAPAGGNPEQR\tAAAAPAGGNPEQR2\t2\t1.34E-07\t1.34E-07\t2.48E-05\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.98E+06\t2.05E+06\t2.02E+06\t2.75E+06\t0.928578\t33.9602\t33.8564\t34.0985\t-30.1328\t34.1708\t-30.4492\tMale-specific lethal 1 homolog\t5.17E-06\t0.000155521\t0.934474\t2.69E+06\t5.59736\t0.490158\t0.928215\t1\t1.8439\t0.0956779\t978415;967341;1.08927e+06;165495;490348;515168;\t935911;875172;895001;165495;490348;485029;\t0.95341;0.897596;0.826702;0.951981;0.950505;0.845174;\t46675\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ96L91\tQ96L91\tEP400_HUMAN\tEP400\t3.65E+06\t3.77E+06\t2.40E+06\t3.65E+06\t3.77E+06\t2.40E+06\t2.40E+06\tAAAAPFQTSQASASAPR\tAAAAPFQTSQASASAPR\tAAAAPFQTSQASASAPR2\t2\t0.000176639\t0.000900222\t2.31E-05\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t744301\t766711\t757507\t2.78E+06\t0.932863\t54.1464\t54.0083\t54.2501\t9.91714\t54.4342\t9.35329\tE1A-binding protein p400\t4.82E-06\t0.000155521\t0.705355\t2.73E+06\t3.14801\t0.44249\t0\t0.999199\t0\t-1.00E+07\t317111;0;41636.9;40214.6;433202;56678.6;18345.5;\t317111;0;12700.9;0;409171;18019;0;\t0.984504;0;0.538994;0.566177;0.907429;0.601605;0.566177;\t74723\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP55036\tP55036\tPSMD4_HUMAN\tPSMD4\t2.22E+07\t2.31E+07\t2.42E+07\t2.22E+07\t2.31E+07\t2.42E+07\t2.45E+07\tAAAASAAEAGIATTGTEDSDDALLK\tAAAASAAEAGIATTGTEDSDDALLK\tAAAASAAEAGIATTGTEDSDDALLK3\t3\t0.000176639\t0.00104512\t8.36E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t5.93E+06\t6.08E+06\t6.01E+06\t2.39E+07\t0.897321\t67.1117\t67.0084\t67.2152\t43.5969\t67.3434\t42.3932\t26S proteasome non-ATPase regulatory subunit 4\t1.75E-06\t0.000155521\t0.975977\t2.36E+07\t2.82068\t0.719575\t0\t0.999071\t1.72871\t0.140997\t329559;4.36119e+06;1.43705e+06;1.75783e+06;392759;89280.1;343441;838495;445212;295869;246634;268423;\t0;4.36119e+06;1.41795e+06;885112;152321;0;165609;563084;421639;283458;244580;268423;\t-0.693026;0.902867;0.898149;0.78898;0.730804;-0.0158817;0.795566;0.613026;0.882397;0.843088;0.864887;0.94676;\t92768\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tA1X283\tA1X283\tSPD2B_HUMAN\tSH3PXD2B\t5.44E+06\t5.68E+06\t4.98E+06\t5.44E+06\t5.68E+06\t4.98E+06\t4.98E+06\tAAAASVPNADGLK\tAAAASVPNADGLK\tAAAASVPNADGLK2\t2\t4.49E-06\t4.49E-06\t0.000253055\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t2.72E+06\t2.79E+06\t2.75E+06\t7.27E+06\t0.91947\t52.1322\t52.0286\t52.2359\t5.32114\t52.2208\t5.15089\tSH3 and PX domain-containing protein 2B\t3.37E-05\t0.000155521\t0.988099\t7.18E+06\t4.50371\t0.366127\t0.419708\t0.999996\t2.17114\t0.185867\t1.41188e+06;1.36356e+06;372722;62635.4;0;214339;\t1.41188e+06;1.0943e+06;372722;0;0;214339;\t0.948504;0.870304;0.955577;0.336853;0;0.979227;\t71922\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9BQE4\tQ9BQE4\tSELS_HUMAN\tSELENOS\t3.00E+06\t2.91E+06\t2.13E+06\t3.00E+06\t2.91E+06\t2.13E+06\t2.13E+06\tAAAAVEPDVVVK\tAAAAVEPDVVVK\tAAAAVEPDVVVK2\t2\t2.06E-05\t4.93E-05\t0.000313824\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t3.00E+06\t2.91E+06\t2.88E+06\t9.48E+06\t0.959929\t60.347\t60.2434\t60.4849\t22.072\t60.2421\t22.2983\tSelenoprotein S\t6.60E-05\t0.000155521\t0.983986\t9.88E+06\t3.64143\t0.567944\t0\t0.999956\t1.4173\t0.0296731\t1.88431e+06;851127;186113;396730;118055;0;\t1.74907e+06;851127;0;396730;118055;0;\t0.963014;0.985245;0.524612;0.892021;0.859248;0;\t83346\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ96K37\tQ96K37\tS35E1_HUMAN\tSLC35E1\t2.59E+06\t2.58E+06\t2.46E+06\t2.59E+06\t2.58E+06\t2.46E+06\t2.46E+06\tAAAAVGAGHGAGGPGAASSSGGAR\tAAAAVGAGHGAGGPGAASSSGGAR\tAAAAVGAGHGAGGPGAASSSGGAR3\t3\t0.00190884\t0.0492298\t0.00738067\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t117682\t121279\t119824\t1.62E+06\t0.948982\t35.1365\t35.0327\t35.2402\t-27.7258\t35.6369\t-28.5581\tSolute carrier family 35 member E1\t0.00146566\t0.000155521\t0.941545\t1.59E+06\t2.47659\t0.261035\t0\t0.958022\t0\t-1.00E+07\t1.70854e+06;0;19497;34114.4;110942;19233.1;49415.1;43357.8;0;0;0;47587.8;\t388580;0;6740.62;0;110942;0;49415.1;0;0;0;0;0;\t0.295906;0;0.652065;-0.422671;0.967022;0.502553;0.899476;-0.12759;0;0;0;0.124384;\t48308\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ8WWH5\tQ8WWH5\tTRUB1_HUMAN\tTRUB1\t4.70E+06\t4.86E+06\t5.30E+06\t4.70E+06\t4.86E+06\t5.30E+06\t5.30E+06\tAAAAVVAAAAR\tAAAAVVAAAAR\tAAAAVVAAAAR2\t2\t9.85E-05\t0.000262036\t0.000406417\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t4.18E+06\t4.31E+06\t4.26E+06\t5.80E+06\t0.926588\t49.0196\t48.8815\t49.123\t-0.284125\t49.5041\t-1.31327\tProbable tRNA pseudouridine synthase 1\t0.000209662\t0.000155521\t0.93215\t5.69E+06\t4.2454\t0.463125\t1.3844\t0.999767\t1.2961\t0.0791145\t1.10811e+06;1.14984e+06;2.21759e+06;55524.2;699792;65871.3;\t1.09886e+06;1.14984e+06;1.92704e+06;0;602950;0;\t0.949167;0.979647;0.882054;0.0315786;0.815923;0.499615;\t67593\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ8N8D1\tQ8N8D1\tPDCD7_HUMAN\tPDCD7\t685694\t657245\t427561\t685694\t657245\t427561\t427561\tAAADGVLSEVR\tAAADGVLSEVR\tAAADGVLSEVR2\t2\t0.000488985\t0.00838423\t0.0110571\t0.000317813\t0.000292099\t0.000150989\t0.000292483\t0\t1\t685694\t657245\t649355\t1.46E+06\t0.958494\t61.1034\t60.9653\t61.1723\t23.6548\t61.0318\t23.8186\tProgrammed cell death protein 7\t0.00306963\t0.000285837\t0.945143\t1.54E+06\t3.04902\t0.326456\t0.632284\t0.992593\t1.49908\t0.0890181\t431233;1.52803e+06;0;254461;38915.8;0;66951.7;107839;34750.7;\t431233;207308;0;254461;0;0;0;0;11092.5;\t0.988142;-0.433395;0;0.908251;0.557237;0;0.487626;-0.438914;0.609962;\t84398\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO95159\tO95159\tZFPL1_HUMAN\tZFPL1\t6.74E+06\t6.54E+06\t5.39E+06\t6.74E+06\t6.54E+06\t5.39E+06\t5.39E+06\tAAADSDPNLDPLMNPHIR\tAAADSDPNLDPLMNPHIR\tAAADSDPNLDPLMNPHIR2\t2\t0.000635161\t0.0119352\t0.000879235\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t183590\t199749\t197351\t0\t0.488587\t67.6375\t67.5686\t67.7063\t46.339\t67.8361\t45.0781\tZinc finger protein-like 1\t0.000312215\t0.000155521\t0\t0\t1.13671\t0.481893\t0.806559\t0.989489\t1.57409\t0.317626\t269834;39165.6;141257;432007;1.07373e+06;0;355745;0;55110.5;25200.4;109337;0;\t69719.8;39165.6;31945.8;81924.9;36820;0;56498.9;0;12544.7;18900.3;87698.1;0;\t0.665973;0.801784;0.636842;0.279818;-0.413649;0;-0.788366;0;0.513657;0.801784;0.85346;0;\t93503\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO95159\tO95159\tZFPL1_HUMAN\tZFPL1\t6.74E+06\t6.54E+06\t5.39E+06\t6.74E+06\t6.54E+06\t5.39E+06\t5.39E+06\tAAADSDPNLDPLMNPHIR\tAAADSDPNLDPLMNPHIR\tAAADSDPNLDPLMNPHIR3\t3\t4.02E-07\t4.02E-07\t0.000468823\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.77E+06\t1.87E+06\t1.84E+06\t5.52E+06\t0.968361\t67.6565\t67.5531\t67.7254\t46.4008\t67.8475\t45.1782\tZinc finger protein-like 1\t6.96E-05\t0.000155521\t0.964979\t5.29E+06\t5.08689\t0.809335\t0\t1\t1.18187\t0.105499\t1.51135e+06;1.26025e+06;478778;201530;328322;63481.1;\t1.51135e+06;692873;478778;201530;210479;56012.9;\t0.976907;0.428485;0.940222;0.935012;0.741054;0.85775;\t93527\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ6P2E9\tQ6P2E9\tEDC4_HUMAN\tEDC4\t1.32E+07\t1.26E+07\t1.46E+07\t1.32E+07\t1.26E+07\t1.46E+07\t1.46E+07\tAAADTLQGPMQAAYR\tAAADTLQGPMQAAYR\tAAADTLQGPMQAAYR2\t2\t5.36E-07\t5.36E-07\t3.98E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t4.04E+06\t3.66E+06\t3.61E+06\t9.06E+06\t0.985878\t63.4953\t63.3572\t63.6335\t28.8957\t63.5563\t28.7774\tEnhancer of mRNA-decapping protein 4\t8.31E-07\t0.000155521\t0.928199\t1.01E+07\t5.53779\t0.515177\t0\t1\t2.06725\t0.324079\t2.04419e+06;1.14278e+06;902019;479644;93833.8;525865;\t2.04419e+06;1.09248e+06;902019;479644;0;479265;\t0.996523;0.963719;0.988591;0.969503;-0.16584;0.897264;\t87729\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9UNF1\tQ9UNF1\tMAGD2_HUMAN\tMAGED2\t1.17E+07\t1.17E+07\t1.17E+07\t1.17E+07\t1.17E+07\t1.17E+07\t1.17E+07\tAAAEAAAEAK\tAAAEAAAEAK\tAAAEAAAEAK2\t2\t0.000238055\t0.00186605\t0.000313824\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t6.54E+06\t6.44E+06\t6.36E+06\t3.98E+07\t0.953197\t30.0796\t29.9759\t30.1834\t-35.5637\t30.0556\t-35.5299\tMelanoma-associated antigen D2\t5.86E-05\t0.000155521\t0.953349\t4.10E+07\t5.31418\t0.733147\t1.92234\t0.998342\t1.08532\t0.0426559\t3.74887e+06;2.83689e+06;1.70254e+06;1.91846e+06;0;1.11956e+06;302420;1.80399e+06;392793;\t3.74887e+06;2.83689e+06;1.70254e+06;1.67386e+06;0;1.11956e+06;0;376772;392793;\t0.949753;0.961867;0.917586;0.940492;0;0.983722;-0.423033;-0.314078;0.91487;\t41287\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9NQP4\tQ9NQP4\tPFD4_HUMAN\tPFDN4\t1.71E+07\t1.77E+07\t1.79E+07\t1.71E+07\t1.77E+07\t1.79E+07\t1.79E+07\tAAAEDVNVTFEDQQK\tAAAEDVNVTFEDQQK\tAAAEDVNVTFEDQQK2\t2\t5.02E-06\t5.02E-06\t1.22E-05\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.71E+07\t1.77E+07\t1.75E+07\t1.04E+08\t0.992581\t58.6334\t58.4952\t58.7715\t18.2686\t58.3964\t18.8159\tPrefoldin subunit 4\t1.47E-07\t0.000155521\t0.993409\t1.02E+08\t6.8299\t0.601462\t1.98806\t0.999996\t1.05651\t0.00469413\t8.38647e+06;3.76075e+06;4.92185e+06;2.77251e+06;3.1039e+06;2.09991e+06;1.74959e+06;1.69834e+06;1.9203e+06;2.38605e+06;1.37156e+06;1.44195e+06;\t8.38647e+06;3.76075e+06;4.92185e+06;2.77251e+06;3.10151e+06;2.09991e+06;1.74756e+06;1.69834e+06;1.9203e+06;2.37786e+06;1.35596e+06;1.44195e+06;\t0.991957;0.991772;0.994262;0.989614;0.990836;0.984505;0.923188;0.990248;0.996857;0.992285;0.984511;0.99573;\t80965\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9NQP4\tQ9NQP4\tPFD4_HUMAN\tPFDN4\t1.71E+07\t1.77E+07\t1.79E+07\t1.71E+07\t1.77E+07\t1.79E+07\t1.79E+07\tAAAEDVNVTFEDQQK\tAAAEDVNVTFEDQQK\tAAAEDVNVTFEDQQK3\t3\t0.00186253\t0.0459043\t0.000810107\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.58E+06\t1.64E+06\t1.62E+06\t8.95E+06\t0.324313\t58.6538\t58.5156\t58.861\t19.2098\t58.8397\t18.8592\tPrefoldin subunit 4\t5.50E-05\t0.000155521\t0.940141\t8.73E+06\t1.86485\t0.444452\t0\t0.960746\t1.35851\t0.0501954\t1.8843e+06;643447;1.04247e+06;834146;78591.9;393792;\t934996;643447;0;0;0;0;\t-0.0596847;0.882301;-0.33965;-0.207328;0.206985;-0.147879;\t80991\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ99942\tQ99942\tRNF5_HUMAN\tRNF5\t7.76E+06\t8.11E+06\t2.74E+06\t7.76E+06\t8.11E+06\t2.74E+06\t2.74E+06\tAAAEEEDGGPEGPNR\tAAAEEEDGGPEGPNR\tAAAEEEDGGPEGPNR2\t2\t9.85E-05\t0.000334198\t0.00107239\t0.000317813\t0.000292099\t0.000287233\t0.000292483\t0\t1\t42115.8\t43272.3\t42752.9\t0\t0.801784\t35.42\t35.3508\t35.4891\t-27.649\t35.6811\t-28.0812\tE3 ubiquitin-protein ligase RNF5\t0.000410103\t0.000285837\t0\t0\t2.65635\t0.585807\t0\t0.999703\t2.16344\t0.0422504\t18099.2;16646.1;91568;0;23873;16056.8;79312.3;0;0;0;0;0;\t13574.4;12484.6;36191.8;0;18617.9;16056.8;20504.9;0;0;0;0;0;\t0.801784;0.801784;0.47481;0;0.840148;0.801784;0.61537;0;0;0;0;0;\t48702\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO95551\tO95551\tTYDP2_HUMAN\tTDP2\t4.88E+06\t4.92E+06\t4.46E+06\t4.88E+06\t4.92E+06\t4.46E+06\t4.46E+06\tAAAEEGHIIPR\tAAAEEGHIIPR\tAAAEEGHIIPR2\t2\t8.85E-05\t0.000136964\t5.57E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t533347\t536045\t529610\t3.90E+06\t0.953657\t45.3287\t45.2254\t45.4322\t-8.60098\t45.4853\t-8.89437\tTyrosyl-DNA phosphodiesterase 2\t1.16E-06\t0.000155521\t0.945411\t3.93E+06\t3.58918\t0.457549\t0\t0.999878\t2.70277\t0.321361\t262968;160583;109796;381531;0;0;\t262968;160583;109796;197553;0;0;\t0.947184;0.971373;0.943252;0.0290952;0;0;\t62465\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO95551\tO95551\tTYDP2_HUMAN\tTDP2\t4.88E+06\t4.92E+06\t4.46E+06\t4.88E+06\t4.92E+06\t4.46E+06\t4.46E+06\tAAAEEGHIIPR\tAAAEEGHIIPR\tAAAEEGHIIPR3\t3\t1.41E-06\t1.41E-06\t0.000313824\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.50E+06\t1.50E+06\t1.49E+06\t2.12E+07\t0.948459\t45.3198\t45.2166\t45.4579\t-8.63714\t45.4671\t-8.912\tTyrosyl-DNA phosphodiesterase 2\t5.86E-05\t0.000155521\t0.982844\t2.15E+07\t5.05464\t0.546101\t0\t0.999999\t1.76414\t0.0273296\t1.52387e+06;981647;1.06757e+06;248201;257409;313176;\t1.52387e+06;388229;1.06757e+06;119056;123344;313176;\t0.985228;0.553293;0.985967;0.733336;0.733425;0.905294;\t62450\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO15357\tO15357\tSHIP2_HUMAN\tINPPL1\t8.97E+06\t8.65E+06\t8.50E+06\t8.97E+06\t8.65E+06\t8.50E+06\t8.50E+06\tAAAEELLAR\tAAAEELLAR\tAAAEELLAR2\t2\t0.00432578\t0.130311\t0.000413654\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t3.29E+06\t3.39E+06\t3.35E+06\t2.41E+07\t0.929792\t57.5465\t57.4428\t57.6501\t15.3538\t57.047\t16.4456\tPhosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 2\t0.000604903\t0.000155521\t0.994261\t2.37E+07\t3.73613\t0.0248275\t0.871122\t0.89607\t2.28641\t0.0338493\t0;1.54227e+06;5.53175e+06;639748;1.30655e+06;249035;\t0;1.54227e+06;1.90367e+06;634909;1.11306e+06;217970;\t0;0.979276;0.272555;0.811354;0.928785;0.875313;\t79449\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ96P70\tQ96P70\tIPO9_HUMAN\tIPO9\t1.94E+07\t1.98E+07\t1.65E+07\t1.94E+07\t1.98E+07\t1.65E+07\t1.65E+07\tAAAEEQIK\tAAAEEQIK\tAAAEEQIK2\t2\t0.00714482\t0.229177\t0.00158479\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.03E+07\t1.07E+07\t1.05E+07\t4.61E+07\t0.940084\t33.5721\t33.4684\t33.7795\t-31.409\t33.3178\t-31.0431\tImportin-9\t0.00197566\t0.000155521\t0.7445\t4.52E+07\t3.09199\t0.400466\t0\t0.830578\t1.21188\t0.0787499\t2.53791e+06;3.74676e+06;4.02787e+06;0;\t2.53791e+06;3.74676e+06;4.02787e+06;0;\t0.912694;0.953784;0.944598;0;\t46134\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO15042\tO15042\tSR140_HUMAN\tU2SURP\t4.28E+07\t4.31E+07\t4.22E+07\t4.28E+07\t4.31E+07\t4.22E+07\t4.22E+07\tAAAEIYEEFLAAFEGSDGNK\tAAAEIYEEFLAAFEGSDGNK\tAAAEIYEEFLAAFEGSDGNK3\t3\t4.29E-06\t4.29E-06\t1.03E-05\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t528195\t544381\t537846\t4.42E+06\t0.920645\t81.1868\t81.1175\t81.2907\t89.9374\t80.5231\t90.1447\tU2 snRNP-associated SURP motif-containing protein\t1.00E-09\t0.000155521\t0.934521\t4.34E+06\t4.54946\t0.361884\t0\t0.999996\t1.52526\t0.0774767\t346444;124447;88714.5;144510;107722;41602.8;\t315034;124447;88714.5;115850;76743.1;40706.6;\t0.913734;0.934199;0.926171;0.893408;0.82698;0.922303;\t112347\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ01780\tQ01780\tEXOSX_HUMAN\tEXOSC10\t7.26E+06\t7.59E+06\t8.29E+06\t7.26E+06\t7.59E+06\t8.29E+06\t8.29E+06\tAAAEQAISVR\tAAAEQAISVR\tAAAEQAISVR2\t2\t8.85E-05\t0.000143261\t4.38E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t5.16E+06\t5.21E+06\t5.15E+06\t2.06E+07\t0.987152\t47.1914\t47.0533\t47.2952\t-5.56574\t46.9987\t-5.1584\tExosome component 10\t9.14E-07\t0.000155521\t0.800824\t2.06E+07\t5.01232\t0.894691\t1.00285\t0.999873\t1.79229\t0.0974021\t2.20721e+06;2.16795e+06;1.98179e+06;2.66474e+06;732555;1.00618e+06;1.09728e+06;635125;134237;525856;283601;\t2.20721e+06;2.16795e+06;1.98179e+06;2.45275e+06;357876;1.00618e+06;1.09728e+06;284277;49144.6;227850;242392;\t0.979844;0.98895;0.986987;0.975552;0.71999;0.983605;0.993622;0.672302;0.611504;-0.115311;0.851141;\t65052\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO94766\tO94766\tB3GA3_HUMAN\tB3GAT3\t3.63E+06\t3.76E+06\t3.65E+06\t3.63E+06\t3.76E+06\t3.65E+06\t3.91E+06\tAAAEQLR\tAAAEQLR\tAAAEQLR2\t2\t0.00274785\t0.0757179\t0.0735589\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t3.63E+06\t3.76E+06\t3.71E+06\t1.75E+07\t0.911864\t33.7771\t33.6734\t33.8809\t-31.259\t33.419\t-30.7311\tGalactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 3\t0.00778475\t0.000155521\t0.848252\t1.71E+07\t2.60843\t0.439697\t0\t0.936862\t1.39731\t0.22325\t945290;1.25496e+06;2.20773e+06;\t945290;474133;2.20773e+06;\t0.974086;0.523115;0.96871;\t46418\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP02786\tP02786\tTFR1_HUMAN\tTFRC\t5.61E+07\t5.73E+07\t6.00E+07\t5.61E+07\t5.73E+07\t6.00E+07\t6.04E+07\tAAAEVAGQFVIK\tAAAEVAGQFVIK\tAAAEVAGQFVIK2\t2\t1.47E-06\t1.47E-06\t0.000172164\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t7.32E+06\t7.44E+06\t7.35E+06\t9.37E+07\t0.939685\t66.8972\t66.7939\t66.9999\t40.5793\t66.725\t41.3631\tTransferrin receptor protein 1\t1.62E-05\t0.000155521\t0.971735\t9.34E+07\t4.82808\t0.426613\t0\t0.999999\t1.26326\t0.0750108\t1.28602e+07;6.40643e+06;752999;1.90492e+06;1.64254e+06;824359;\t1.28602e+07;6.23445e+06;291022;1.90492e+06;1.49137e+06;795980;\t0.967758;0.968245;0.686333;0.977871;0.881457;0.80862;\t92467\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tP07954\tP07954\tFUMH_HUMAN\tFH\t8.09E+07\t8.15E+07\t8.20E+07\t8.09E+07\t8.15E+07\t8.20E+07\t8.20E+07\tAAAEVNQDYGLDPK\tAAAEVNQDYGLDPK\tAAAEVNQDYGLDPK2\t2\t6.76E-06\t6.76E-06\t3.28E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.05E+07\t1.11E+07\t1.09E+07\t1.54E+08\t0.984914\t55.7643\t55.6266\t55.9024\t12.2845\t55.5761\t12.6943\tFumarate hydratase, mitochondrial\t1.55E-07\t0.000155521\t0.998666\t1.47E+08\t6.72065\t0.918135\t2.80234\t0.999994\t0.843162\t0.0141294\t1.00923e+07;5.09331e+06;3.11361e+06;2.5746e+06;2.88789e+06;2.09221e+06;2.08194e+06;1.58969e+06;382824;576166;577299;569670;\t1.00923e+07;5.00094e+06;3.11361e+06;2.5746e+06;2.88789e+06;2.09221e+06;2.08194e+06;1.58969e+06;382824;522456;544252;569670;\t0.979075;0.984414;0.9813;0.982477;0.987954;0.984183;0.99317;0.984658;0.949921;0.933585;0.892467;0.992867;\t76974\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9Y490\tQ9Y490\tTLN1_HUMAN\tTLN1\t2.36E+07\t2.13E+07\t3.58E+07\t2.36E+07\t2.13E+07\t3.58E+07\t3.58E+07\tAAAFEEQENETVVVK\tAAAFEEQENETVVVK\tAAAFEEQENETVVVK2\t2\t2.01E-07\t2.01E-07\t4.79E-09\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t4.86E+06\t4.76E+06\t4.70E+06\t2.39E+07\t0.99218\t60.4969\t60.3593\t60.6691\t23.4538\t60.9313\t22.6005\tTalin-1\t1.00E-09\t0.000155521\t0.985622\t2.48E+07\t5.98036\t0.799629\t0\t1\t1.3356\t0.0573292\t2.71444e+06;1.34693e+06;833052;580861;530149;204253;\t2.68614e+06;1.34693e+06;829909;580861;530149;114417;\t0.994684;0.98925;0.988834;0.902369;0.912412;0.780842;\t83557\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tO94826\tO94826\tTOM70_HUMAN\tTOMM70\t2.23E+07\t2.27E+07\t2.13E+07\t2.23E+07\t2.27E+07\t2.13E+07\t2.13E+07\tAAAFEQLQK\tAAAFEQLQK\tAAAFEQLQK2\t2\t2.48E-06\t2.48E-06\t0.000313824\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.22E+07\t1.29E+07\t1.27E+07\t8.55E+07\t0.987558\t53.026\t52.8883\t53.1296\t6.93622\t53.0022\t6.98368\tMitochondrial import receptor subunit TOM70\t7.03E-05\t0.000155521\t0.990014\t8.22E+07\t6.72505\t0.621726\t0.978666\t0.999998\t1.60539\t0.180695\t4.25973e+06;4.8138e+06;4.15117e+06;3.82407e+06;1.75081e+06;1.40441e+06;1.41878e+06;808493;581676;357216;366294;\t4.25972e+06;4.57287e+06;4.15117e+06;3.82407e+06;1.75081e+06;1.40441e+06;1.41878e+06;808493;581676;357216;361195;\t0.984926;0.981268;0.989638;0.98823;0.987376;0.982275;0.987311;0.982671;0.982824;0.985089;0.986328;\t73163\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ9H9Y2\tQ9H9Y2\tRPF1_HUMAN\tRPF1\t8.05E+06\t8.29E+06\t7.55E+06\t8.05E+06\t8.29E+06\t7.55E+06\t7.55E+06\tAAAFPPGFSISEIK\tAAAFPPGFSISEIK\tAAAFPPGFSISEIK2\t2\t0.000693018\t0.0126746\t0.00118486\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t6.65E+06\t7.17E+06\t7.09E+06\t1.50E+07\t0.685595\t73.6172\t73.4102\t73.7898\t78.234\t73.6252\t78.0659\tRibosome production factor 1\t0.000567085\t0.000155521\t0.361789\t1.41E+07\t1.92145\t0.415565\t0.365626\t0.988845\t1.03646\t0.149711\t2.92897e+06;4.82826e+06;801278;901043;687614;0;321497;55982.6;106097;104520;549188;\t2.23447e+06;3.60946e+06;801278;489928;0;0;130319;0;0;0;210290;\t0.574083;0.693642;0.960308;0.353608;-0.486386;0;0.480131;0.10442;0.231093;-0.474117;0.375198;\t101836\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ96S52\tQ96S52\tPIGS_HUMAN\tPIGS\t8.12E+06\t8.41E+06\t8.20E+06\t8.12E+06\t8.41E+06\t8.20E+06\t8.20E+06\tAAAGAAATHLEVAR\tAAAGAAATHLEVAR\tAAAGAAATHLEVAR2\t2\t4.62E-06\t4.62E-06\t5.59E-06\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t641151\t649412\t641616\t9.14E+06\t0.918876\t47.1289\t47.0253\t47.2326\t-4.50256\t47.5178\t-5.29078\tGPI transamidase component PIG-S\t1.17E-06\t0.000155521\t0.985068\t9.13E+06\t4.34281\t0.566033\t0\t0.999996\t0\t-1.00E+07\t223736;299451;80135;0;127185;75872.7;246201;\t223736;299451;26912.9;0;117965;75872.7;124396;\t0.964365;0.907441;0.641041;0;0.861627;0.893983;0.706587;\t64967\t0\t0\t0\t0\n",
    "D:\\AlphaDeepData\\MaxDIA\\raw\\20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1.raw\t20190914_HFX4_SeHu_HeLa-400ng_DIA-GradientTest_60min_1\tQ96S52\tQ96S52\tPIGS_HUMAN\tPIGS\t8.12E+06\t8.41E+06\t8.20E+06\t8.12E+06\t8.41E+06\t8.20E+06\t8.20E+06\tAAAGAAATHLEVAR\tAAAGAAATHLEVAR\tAAAGAAATHLEVAR3\t3\t0.000251025\t0.00211713\t0.000253055\t0.000166917\t0.000154297\t0.000150989\t0.000154488\t0\t1\t1.89E+06\t1.91E+06\t1.89E+06\t1.48E+07\t0.93793\t47.1534\t47.0497\t47.2571\t-4.52773\t47.5056\t-5.23908\tGPI transamidase component PIG-S\t3.49E-05\t0.000155521\t0.986044\t1.48E+07\t3.51643\t0.434976\t1.20384\t0.998119\t1.69295\t0.0565776\t868043;758540;325542;537529;146821;591782;\t528140;758540;0;537529;55750.1;591782;\t0.932808;0.965212;-0.508668;0.981549;0.687565;0.863342;\t64998\t0\t0\t0\t0\n",
    "\"\"\")\n",
    "\n",
    "psm_df = DiannReader().load(diann_tsv)\n",
    "psm_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "WARNING:root:WARNING: Temp mmap arrays are written to /var/folders/fh/hf8t3l1x02d42ggk3b304_rh0000gn/T/temp_mmap_m_g01bb6. Cleanup of this folder is OS dependant, and might need to be triggered manually! Current space: 594,288,431,104\n",
      "WARNING:root:WARNING: No Bruker libraries are available for this operating system. Mobility and m/z values need to be estimated. While this estimation often returns acceptable results with errors < 0.02 Th, huge errors (e.g. offsets of 6 Th) have already been observed for some samples!\n"
     ]
    }
   ],
   "source": [
    "from alpharaw.viz.psm_plot import PSM_Plot\n",
    "from alpharaw.viz.xic_plot import XIC_Plot\n",
    "from alpharaw.viz.psm_plot import plot_multi_spectra, plot_multi_psms\n",
    "from alpharaw.viz.df_utils import make_psm_plot_df_for_peptide, make_query_plot_df_for_peptide\n",
    "\n",
    "xic_plotter = XIC_Plot()\n",
    "psm_plotter = PSM_Plot()\n",
    "\n",
    "def plot_xic(\n",
    "    spec_df, peak_df,\n",
    "    query_masses, rt_sec,\n",
    "    query_ion_names,\n",
    "    precursor_mz,\n",
    "    ms1_mz_tol = 20,\n",
    "    title=\"\",\n",
    "):\n",
    "    if precursor_mz > 0:\n",
    "        precursor_left_mz = precursor_mz*(1-ms1_mz_tol*1e-6)\n",
    "        precursor_right_mz = precursor_mz*(1+ms1_mz_tol*1e-6)\n",
    "    else:\n",
    "        precursor_left_mz = -1.0\n",
    "        precursor_right_mz = -1.0\n",
    "    return xic_plotter.plot_query_masses(\n",
    "        spec_df, peak_df,\n",
    "        query_masses,\n",
    "        query_ion_names=query_ion_names,\n",
    "        query_rt_sec=rt_sec, \n",
    "        precursor_left_mz=precursor_left_mz,\n",
    "        precursor_right_mz=precursor_right_mz,\n",
    "        query_intensities=None,\n",
    "        title=title,\n",
    "    )\n",
    "\n",
    "def plot_psm_xic(\n",
    "    spec_df, peak_df,\n",
    "    sequence, mods, mod_sites, charge,\n",
    "    rt_sec, include_isotopes=False\n",
    "):\n",
    "    plot_df = make_query_plot_df_for_peptide(\n",
    "        sequence, mods, mod_sites, charge, rt_sec,\n",
    "        ms_level=2, include_precursor_isotopes=include_isotopes,\n",
    "    )\n",
    "    return xic_plotter.plot(\n",
    "        spec_df, peak_df,\n",
    "        plot_df, title=plot_df.modified_sequence.values[0]\n",
    "    )\n",
    "\n",
    "def plot_one_psm(\n",
    "    peak_df,\n",
    "    sequence, mods, mod_sites, charge,\n",
    "):\n",
    "    plot_df = make_psm_plot_df_for_peptide(\n",
    "        peak_df.mz.values,\n",
    "        peak_df.intensity.values,\n",
    "        sequence, mods, mod_sites, charge\n",
    "    )\n",
    "    return psm_plotter.plot(\n",
    "        plot_df, sequence, \n",
    "        plot_df.modified_sequence.values[0],\n",
    "        plot_unmatched_peaks=True\n",
    "    )\n",
    "\n",
    "def plot_psms(\n",
    "    peak_df_list,\n",
    "    sequence, mods, mod_sites, charge,\n",
    "    plot_height=800\n",
    "):\n",
    "    return plot_multi_psms(\n",
    "        [_df.mz.values for _df in peak_df_list],\n",
    "        [_df.intensity.values for _df in peak_df_list],\n",
    "        sequence, mods, mod_sites, charge, \n",
    "        plot_height=plot_height\n",
    "    )\n",
    "\n",
    "def plot_matches(\n",
    "    peak_df_list,\n",
    "    query_masses, \n",
    "    ion_names,\n",
    "    plot_height = 800\n",
    "):\n",
    "    spec_masses_list = []\n",
    "    spec_intens_list = []\n",
    "    for i in range(len(peak_df_list)):\n",
    "        spec_masses = peak_df_list[i].mz.values\n",
    "        _slices = (spec_masses>=query_masses.min()-3)&(spec_masses<=query_masses.max()+3)\n",
    "        spec_masses_list.append(spec_masses[_slices])\n",
    "        spec_intens_list.append(peak_df_list[i].intensity.values[_slices])\n",
    "    return plot_multi_spectra(\n",
    "        spec_masses_list, spec_intens_list, \n",
    "        query_masses, query_ion_names=ion_names,\n",
    "        query_mass_tols=query_masses*10*1e-6,\n",
    "        title=\"\", plot_height=plot_height\n",
    "    )\n",
    "\n",
    "def find_neibor_spec_idxes(\n",
    "    spec_df, rt_sec, \n",
    "    precursor_mz, n\n",
    "):\n",
    "    spec_idx = np.searchsorted(spec_df.rt.values, rt_sec/60)\n",
    "    left_idxes = []\n",
    "    right_idxes = []\n",
    "    for i in range(spec_idx, -1, -1):\n",
    "        if len(left_idxes) > (n//2 if n%2 else n//2-1): break\n",
    "        if (\n",
    "            spec_df.isolation_lower_mz.values[i]<=precursor_mz\n",
    "            and spec_df.isolation_upper_mz.values[i]>= precursor_mz\n",
    "        ):\n",
    "            left_idxes.append(i)\n",
    "    for i in range(spec_idx+1, len(spec_df)):\n",
    "        if len(right_idxes) >= n//2: break\n",
    "        if (\n",
    "            spec_df.isolation_lower_mz.values[i]<=precursor_mz\n",
    "            and spec_df.isolation_upper_mz.values[i]>= precursor_mz\n",
    "        ):\n",
    "            right_idxes.append(i)\n",
    "    return sorted(left_idxes+right_idxes)\n",
    "\n",
    "def get_peak_df_list(\n",
    "    spec_df, peak_df, \n",
    "    rt_sec, precursor_mz,\n",
    "    n = 1\n",
    "):\n",
    "    peak_df_list = []\n",
    "    spec_idxes = find_neibor_spec_idxes(\n",
    "        spec_df, rt_sec, precursor_mz, n\n",
    "    )\n",
    "    for i in spec_idxes:\n",
    "        start = spec_df.peak_start_idx.values[i]\n",
    "        stop = spec_df.peak_stop_idx.values[i]\n",
    "        peak_df_list.append(peak_df.iloc[start:stop,:])\n",
    "    return peak_df_list"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "3272.532"
      ]
     },
     "execution_count": 6,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "i_psm = 0\n",
    "psm_rt_sec = psm_df.rt.values[i_psm]*60\n",
    "psm_mz = psm_df.precursor_mz.values[i_psm]\n",
    "psm_seq = psm_df.sequence.values[i_psm]\n",
    "psm_mods = psm_df.mods.values[i_psm]\n",
    "psm_sites = psm_df.mod_sites.values[i_psm]\n",
    "psm_charge = psm_df.charge.values[i_psm]\n",
    "psm_rt_sec"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {},
   "outputs": [],
   "source": [
    "fig = plot_xic(\n",
    "    ms1_df, peak_df, \n",
    "    psm_mz+np.arange(-1,7)*1.0033/psm_charge,\n",
    "    rt_sec=psm_rt_sec,\n",
    "    query_ion_names=[f\"M{i}\" for i in np.arange(-1,7,dtype=int)],\n",
    "    precursor_mz=0,\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "array([425.26486186, 425.76651186, 426.26816186, 426.76981186,\n",
       "       427.27146186, 427.77311186, 428.27476186, 428.77641186])"
      ]
     },
     "execution_count": 8,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "psm_mz+np.arange(-1,7)*1.0033/psm_charge"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 9,
   "metadata": {},
   "outputs": [],
   "source": [
    "fig = plot_matches(\n",
    "    peak_df_list=get_peak_df_list(\n",
    "        ms1_df, peak_df,\n",
    "        psm_rt_sec, \n",
    "        precursor_mz=-1.0,\n",
    "        n=3\n",
    "    ),\n",
    "    query_masses=psm_mz+np.arange(-1,7)*1.0033/psm_charge,\n",
    "    ion_names=[f\"M{i}\" for i in np.arange(-1,7,dtype=int)],\n",
    "    plot_height=800\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "metadata": {},
   "outputs": [],
   "source": [
    "fig = plot_psm_xic(\n",
    "    spec_df, peak_df, \n",
    "    psm_seq, psm_mods, psm_sites, psm_charge,\n",
    "    psm_rt_sec, include_isotopes=True\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "metadata": {},
   "outputs": [],
   "source": [
    "fig = plot_psms(\n",
    "    get_peak_df_list(\n",
    "        spec_df, peak_df,\n",
    "        psm_rt_sec, \n",
    "        psm_mz,\n",
    "        n=3\n",
    "    ),\n",
    "    psm_seq, psm_mods, psm_sites, psm_charge,\n",
    "    plot_height=800\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>intensity</th>\n",
       "      <th>mz</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>26325795</th>\n",
       "      <td>1.340309e+06</td>\n",
       "      <td>101.071152</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26325796</th>\n",
       "      <td>8.808889e+05</td>\n",
       "      <td>103.053886</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26325797</th>\n",
       "      <td>1.274483e+06</td>\n",
       "      <td>104.053070</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26325798</th>\n",
       "      <td>5.006362e+05</td>\n",
       "      <td>106.500206</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26325799</th>\n",
       "      <td>9.967048e+05</td>\n",
       "      <td>109.731781</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26326066</th>\n",
       "      <td>9.956638e+06</td>\n",
       "      <td>723.452393</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26326067</th>\n",
       "      <td>8.864892e+06</td>\n",
       "      <td>724.444397</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26326068</th>\n",
       "      <td>2.661402e+06</td>\n",
       "      <td>725.436951</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26326069</th>\n",
       "      <td>2.712479e+06</td>\n",
       "      <td>730.404236</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26326070</th>\n",
       "      <td>9.344985e+05</td>\n",
       "      <td>731.411865</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>276 rows × 2 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "             intensity          mz\n",
       "26325795  1.340309e+06  101.071152\n",
       "26325796  8.808889e+05  103.053886\n",
       "26325797  1.274483e+06  104.053070\n",
       "26325798  5.006362e+05  106.500206\n",
       "26325799  9.967048e+05  109.731781\n",
       "...                ...         ...\n",
       "26326066  9.956638e+06  723.452393\n",
       "26326067  8.864892e+06  724.444397\n",
       "26326068  2.661402e+06  725.436951\n",
       "26326069  2.712479e+06  730.404236\n",
       "26326070  9.344985e+05  731.411865\n",
       "\n",
       "[276 rows x 2 columns]"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "one_peak_df = get_peak_df_list(\n",
    "    spec_df, peak_df, psm_rt_sec, psm_mz, n=1\n",
    ")[0]\n",
    "one_peak_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "metadata": {},
   "outputs": [],
   "source": [
    "fig = plot_one_psm(\n",
    "    one_peak_df, psm_seq, psm_mods, psm_sites, psm_charge,\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>raw_name</th>\n",
       "      <th>sequence</th>\n",
       "      <th>charge</th>\n",
       "      <th>rt</th>\n",
       "      <th>rt_start</th>\n",
       "      <th>rt_stop</th>\n",
       "      <th>mobility</th>\n",
       "      <th>proteins</th>\n",
       "      <th>uniprot_ids</th>\n",
       "      <th>genes</th>\n",
       "      <th>scan_num</th>\n",
       "      <th>score</th>\n",
       "      <th>fdr</th>\n",
       "      <th>diann_spec_idx</th>\n",
       "      <th>mods</th>\n",
       "      <th>mod_sites</th>\n",
       "      <th>nAA</th>\n",
       "      <th>rt_norm</th>\n",
       "      <th>precursor_mz</th>\n",
       "      <th>ccs</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>25</th>\n",
       "      <td>PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da...</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>4</td>\n",
       "      <td>55.0662</td>\n",
       "      <td>54.8758</td>\n",
       "      <td>55.2564</td>\n",
       "      <td>0</td>\n",
       "      <td>EGFR_HUMAN</td>\n",
       "      <td>P00533</td>\n",
       "      <td>EGFR</td>\n",
       "      <td>42061</td>\n",
       "      <td>0.999181</td>\n",
       "      <td>0.000122</td>\n",
       "      <td>42060</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>22</td>\n",
       "      <td>0.410663</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26</th>\n",
       "      <td>PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da...</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>4</td>\n",
       "      <td>56.6580</td>\n",
       "      <td>56.4649</td>\n",
       "      <td>56.8483</td>\n",
       "      <td>0</td>\n",
       "      <td>EGFR_HUMAN</td>\n",
       "      <td>P00533</td>\n",
       "      <td>EGFR</td>\n",
       "      <td>43311</td>\n",
       "      <td>0.999037</td>\n",
       "      <td>0.000122</td>\n",
       "      <td>43310</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>5</td>\n",
       "      <td>22</td>\n",
       "      <td>0.422534</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>28</th>\n",
       "      <td>PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da...</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>4</td>\n",
       "      <td>53.3473</td>\n",
       "      <td>53.1569</td>\n",
       "      <td>53.5375</td>\n",
       "      <td>0</td>\n",
       "      <td>EGFR_HUMAN</td>\n",
       "      <td>P00533</td>\n",
       "      <td>EGFR</td>\n",
       "      <td>40711</td>\n",
       "      <td>0.999703</td>\n",
       "      <td>0.000122</td>\n",
       "      <td>40710</td>\n",
       "      <td>Phospho@Y</td>\n",
       "      <td>11</td>\n",
       "      <td>22</td>\n",
       "      <td>0.397844</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.0</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "                                             raw_name                sequence  \\\n",
       "25  PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da...  RPAGSVQNPVYHNQPLNPAPSR   \n",
       "26  PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da...  RPAGSVQNPVYHNQPLNPAPSR   \n",
       "28  PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da...  RPAGSVQNPVYHNQPLNPAPSR   \n",
       "\n",
       "    charge       rt  rt_start  rt_stop  mobility    proteins uniprot_ids  \\\n",
       "25       4  55.0662   54.8758  55.2564         0  EGFR_HUMAN      P00533   \n",
       "26       4  56.6580   56.4649  56.8483         0  EGFR_HUMAN      P00533   \n",
       "28       4  53.3473   53.1569  53.5375         0  EGFR_HUMAN      P00533   \n",
       "\n",
       "   genes  scan_num     score       fdr  diann_spec_idx       mods mod_sites  \\\n",
       "25  EGFR     42061  0.999181  0.000122           42060  Phospho@S        21   \n",
       "26  EGFR     43311  0.999037  0.000122           43310  Phospho@S         5   \n",
       "28  EGFR     40711  0.999703  0.000122           40710  Phospho@Y        11   \n",
       "\n",
       "    nAA   rt_norm  precursor_mz  ccs  \n",
       "25   22  0.410663    620.555215  0.0  \n",
       "26   22  0.422534    620.555215  0.0  \n",
       "28   22  0.397844    620.555215  0.0  "
      ]
     },
     "execution_count": 14,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "from io import StringIO\n",
    "from alphabase.psm_reader.dia_psm_reader import DiannReader\n",
    "diann_tsv = StringIO(\"\"\"File.Name\tRun\tProtein.Group\tProtein.Ids\tProtein.Names\tGenes\tPG.Quantity\tPG.Normalised\tPG.MaxLFQ\tGenes.Quantity\tGenes.Normalised\tGenes.MaxLFQ\tGenes.MaxLFQ.Unique\tModified.Sequence\tStripped.Sequence\tPrecursor.Id\tPrecursor.Charge\tQ.Value\tPEP\tGlobal.Q.Value\tProtein.Q.Value\tPG.Q.Value\tGlobal.PG.Q.Value\tGG.Q.Value\tTranslated.Q.Value\tProteotypic\tPrecursor.Quantity\tPrecursor.Normalised\tPrecursor.Translated\tTranslated.Quality\tMs1.Translated\tQuantity.Quality\tRT\tRT.Start\tRT.Stop\tiRT\tPredicted.RT\tPredicted.iRT\tFirst.Protein.Description\tLib.Q.Value\tLib.PG.Q.Value\tMs1.Profile.Corr\tMs1.Area\tEvidence\tSpectrum.Similarity\tAveragine\tMass.Evidence\tCScore\tDecoy.Evidence\tDecoy.CScore\tFragment.Quant.Raw\tFragment.Quant.Corrected\tFragment.Correlations\tMS2.Scan\tPTM.Informative\tPTM.Specific\tPTM.Localising\tPTM.Q.Value\tPTM.Site.Confidence\tLib.PTM.Site.Confidence\tIM\tiIM\tPredicted.IM\tPredicted.iIM\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ9HC35\tQ9HC35\tEMAL4_HUMAN\tEML4\t1.28E+09\t1.42E+09\t1.42E+09\t1.28E+09\t1.42E+09\t1.42E+09\t1.42E+09\tAS(UniMod:21)PS(UniMod:21)PQPSSQPLQIHR\tASPSPQPSSQPLQIHR\tAS(UniMod:21)PS(UniMod:21)PQPSSQPLQIHR3\t3\t0.000121981\t0.00139716\t0.0462428\t0.0193517\t0.0316187\t0.0285451\t0.0311762\t0\t1\t1.28E+09\t1.42E+09\t1.43E+09\t\t4.63E+09\t0.996908\t70.8559\t70.6657\t71.0461\t31.1924\t70.6011\t31.5089\tEchinoderm microtubule-associated protein-like 4\t0.00578035\t0.00302847\t0.999106\t4.14E+09\t6.88164\t0.412143\t1\t1.95864\t0.999469\t0\t-1.00E+07\t7.78271e+08;1.05786e+08;2.17913e+08;2.81389e+08;3.66234e+07;1.26213e+08;1.28052e+08;1.53452e+08;0;1.09372e+07;6.43991e+07;3.36183e+07;\t7.78271e+08;1.05786e+08;2.17913e+08;2.81389e+08;3.66234e+07;1.26213e+08;1.28052e+08;1.53452e+08;0;1.09372e+07;6.43991e+07;3.36183e+07;\t0.997254;0.992551;0.995765;0.996833;0.988268;0.99385;0.998888;0.99429;0;0.979148;0.996498;0.992253;\t54463\t2.95266\t1.98754\t1.97762\t0.00306437\t1\t0.999997\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP51812\tP51812\tKS6A3_HUMAN\tRPS6KA3\t4.22E+09\t5.36E+09\t4.76E+09\t4.22E+09\t5.36E+09\t4.76E+09\t4.76E+09\tDS(UniMod:21)PGIPPSANAHQLFR\tDSPGIPPSANAHQLFR\tDS(UniMod:21)PGIPPSANAHQLFR2\t2\t0.000121981\t0.0523016\t0.0462428\t0.00347464\t0.0114247\t0.00952381\t0.0114247\t0\t1\t4.22E+09\t5.36E+09\t5.39E+09\t\t6.83E+09\t0.99976\t85.4181\t85.2279\t85.6083\t47.2975\t85.0691\t47.7478\tRibosomal protein S6 kinase alpha-3\t0.00527369\t0.000726744\t0.961025\t5.35E+09\t6.25368\t0.243242\t1\t0.962445\t0.980516\t0\t-1.00E+07\t2.1541e+09;1.73376e+09;3.33602e+08;7.19389e+08;1.93161e+08;3.71291e+08;4.66152e+08;\t2.1541e+09;1.73376e+09;3.33602e+08;7.19389e+08;1.93161e+08;3.71291e+08;4.66152e+08;\t0.999772;0.999762;0.999669;0.999343;0.999831;0.999312;0.999667;\t65889\t2.87\t2.87\t3.82429\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tELVEPLT(UniMod:21)PSGEAPNQALLR\tELVEPLTPSGEAPNQALLR\tELVEPLT(UniMod:21)PSGEAPNQALLR3\t3\t0.000121981\t0.00200996\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t2.07E+09\t2.17E+09\t2.18E+09\t\t6.67E+09\t0.996948\t116.551\t116.359\t116.742\t81.9973\t116.425\t82.1595\tEpidermal growth factor receptor\t0.00527369\t0.000726744\t0.998467\t6.34E+09\t6.94764\t0.373072\t1\t1.98782\t0.999237\t2.57327\t0.0467309\t1.39743e+09;2.84715e+08;3.88512e+08;4.52097e+08;2.94145e+08;9.80788e+07;2.7564e+08;2.54396e+08;6.42027e+07;3.71867e+07;3.98419e+07;7.8942e+07;\t1.39743e+09;2.84715e+08;3.88512e+08;4.52097e+08;2.94145e+08;9.80788e+07;2.7564e+08;2.54396e+08;6.42027e+07;3.71867e+07;3.98419e+07;7.8942e+07;\t0.997166;0.997014;0.996116;0.995988;0.995926;0.998611;0.995568;0.996667;0.995319;0.991921;0.994533;0.998045;\t90320\t2.98382\t0.995412\t0\t0.0056573\t1\t0.999999\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP04626\tP04626\tERBB2_HUMAN\tERBB2\t5.06E+09\t5.49E+09\t1.14E+10\t5.06E+09\t5.49E+09\t1.14E+10\t1.14E+10\tFVVIQNEDLGPAS(UniMod:21)PLDSTFYR\tFVVIQNEDLGPASPLDSTFYR\tFVVIQNEDLGPAS(UniMod:21)PLDSTFYR3\t3\t0.000121981\t0.000855449\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t3.29E+07\t2.71E+07\t2.73E+07\t\t8.45E+07\t0.966061\t133.376\t133.184\t133.568\t113.874\t133.352\t114.136\tReceptor tyrosine-protein kinase erbB-2\t0.00527369\t0.000726744\t0.986845\t1.02E+08\t6.28237\t0.690744\t1\t0\t0.999675\t1.98446\t0.0035166\t1.14194e+07;1.36192e+07;7.84862e+06;5.30538e+06;7.27861e+06;1.35077e+07;7.25349e+06;2.18478e+06;1.65061e+06;322945;5.34977e+06;601271;\t1.14194e+07;1.36192e+07;7.84862e+06;5.30538e+06;7.27861e+06;1.35077e+07;7.25349e+06;2.18478e+06;1.65061e+06;322945;5.34977e+06;601271;\t0.963153;0.966559;0.969428;0.959478;0.972368;0.96222;0.973558;0.939636;0.939477;0.877311;0.962829;0.898813;\t103531\t5.57695\t0\t4.75539\t0.00306437\t1\t0.999548\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ92934\tQ92934\tBAD_HUMAN\tBAD\t1.53E+10\t1.94E+10\t2.27E+10\t1.53E+10\t1.94E+10\t2.27E+10\t2.27E+10\tGLGPS(UniMod:21)PAGDGPSGSGK\tGLGPSPAGDGPSGSGK\tGLGPS(UniMod:21)PAGDGPSGSGK2\t2\t0.000121981\t0.00313559\t0.0462428\t0.00287356\t0.00688468\t0.00134589\t0.00688468\t0\t1\t6.51E+06\t7.29E+06\t7.32E+06\t\t3.41E+07\t0.991937\t40.616\t40.4253\t40.8065\t-12.6755\t40.4103\t-12.111\tBcl2-associated agonist of cell death\t0.0055909\t0.000726744\t0.589672\t3.03E+07\t4.13779\t0.592122\t0.240899\t0.69242\t0.99881\t0\t-1.00E+07\t2.06512e+06;1.78421e+06;2.12395e+06;2.31903e+06;18105.7;93514.2;147697;126736;454994;733295;599742;111278;\t2.06512e+06;1.78421e+06;2.12395e+06;2.31903e+06;18105.7;93514.2;147697;126736;454994;733295;599742;111278;\t0.990714;0.994815;0.994079;0.991066;0.548801;0.75717;0.85637;0.904124;0.974671;0.99442;0.970208;0.803894;\t30721\t4.47942\t0.69242\t4.34856\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tA1L390\tA1L390\tPKHG3_HUMAN\tPLEKHG3\t6.46E+09\t8.06E+09\t8.06E+09\t6.46E+09\t8.06E+09\t8.06E+09\t8.06E+09\tGPLS(UniMod:21)PFNSR\tGPLSPFNSR\tGPLS(UniMod:21)PFNSR2\t2\t0.000121981\t0.0014358\t0.0462428\t0.0175791\t0.0303624\t0.0274964\t0.0298873\t0\t1\t6.46E+09\t8.06E+09\t8.10E+09\t\t3.84E+10\t0.995877\t88.1768\t87.9866\t88.367\t50.8349\t88.0699\t50.9242\tPleckstrin homology domain-containing family G member 3\t0.00527369\t0.0035879\t0.994693\t3.06E+10\t6.93909\t0.592169\t1\t0.997696\t0.999455\t0\t-1.00E+07\t5.42829e+09;4.68757e+09;3.12453e+09;7.95225e+08;1.07547e+09;2.3603e+08;1.9109e+08;4.81676e+08;3.54325e+08;9.67875e+08;2.39515e+08;6.63392e+08;\t5.42829e+09;4.68757e+09;3.12453e+09;7.95225e+08;1.07547e+09;2.3603e+08;1.9109e+08;4.81676e+08;3.54325e+08;9.67875e+08;2.39515e+08;6.63392e+08;\t0.995611;0.995036;0.995661;0.997416;0.994389;0.996813;0.993405;0.992345;0.996545;0.995504;0.995;0.99643;\t68052\t8.95802\t0.998466\t2.99173\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tGS(UniMod:21)HQIS(UniMod:21)LDNPDYQQDFFPK\tGSHQISLDNPDYQQDFFPK\tGS(UniMod:21)HQIS(UniMod:21)LDNPDYQQDFFPK3\t3\t0.000121981\t0.000991406\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t3.36E+08\t3.26E+08\t3.28E+08\t\t4.77E+09\t0.997032\t122.033\t121.842\t122.224\t88.7154\t121.949\t88.8383\tEpidermal growth factor receptor\t0.00527369\t0.000726744\t0.998132\t4.89E+09\t6.91355\t0.63774\t1\t0.995856\t0.999623\t0\t-1.00E+07\t3.51485e+07;1.35706e+08;1.28546e+08;8.59755e+07;7.16731e+07;5.24731e+07;1.78268e+08;1.09213e+08;1.48945e+08;7.45589e+07;0;1.06696e+08;\t3.51485e+07;1.35706e+08;1.28546e+08;8.59755e+07;7.16731e+07;5.24731e+07;1.78268e+08;1.09213e+08;1.48945e+08;7.45589e+07;0;1.06696e+08;\t0.994397;0.996886;0.996519;0.995493;0.998228;0.997672;0.997864;0.997761;0.997755;0.998097;0;0.998039;\t94629\t0.996432\t0.996432\t3.98096\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tGSHQIS(UniMod:21)LDNPDY(UniMod:21)QQDFFPK\tGSHQISLDNPDYQQDFFPK\tGSHQIS(UniMod:21)LDNPDY(UniMod:21)QQDFFPK3\t3\t0.000121981\t0.00204578\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t8.32E+08\t8.90E+08\t8.94E+08\t\t6.43E+09\t0.996215\t113.002\t112.806\t113.193\t77.9075\t112.902\t78.0198\tEpidermal growth factor receptor\t0.00527369\t0.000726744\t0.997256\t5.99E+09\t6.93421\t0.738733\t1\t1.97444\t0.999223\t1.05417\t0.0177746\t1.33156e+08;2.46358e+08;8.66749e+07;2.42543e+08;1.87084e+08;4.02334e+08;9.81221e+07;4.00501e+07;6.5754e+07;1.66031e+08;3.75625e+07;2.438e+08;\t1.33156e+08;2.46358e+08;8.66749e+07;2.42543e+08;1.87084e+08;4.02334e+08;9.81221e+07;4.00501e+07;6.5754e+07;1.66031e+08;3.75625e+07;2.438e+08;\t0.995275;0.994405;0.995895;0.994935;0.996053;0.997062;0.993566;0.986538;0.991666;0.987601;0.988208;0.967388;\t87529\t1.97444\t0\t3.97018\t0.00919311\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP29353\tP29353\tSHC1_HUMAN\tSHC1\t2.20E+09\t2.12E+09\t2.17E+09\t2.20E+09\t2.12E+09\t2.17E+09\t2.17E+09\tHGS(UniMod:21)FVNKPTR\tHGSFVNKPTR\tHGS(UniMod:21)FVNKPTR2\t2\t0.000121981\t0.00123274\t0.0462428\t0.00287356\t0.00714286\t0.00134589\t0.00714286\t0\t1\t968344\t1.06E+06\t1.07E+06\t\t1.19E+07\t0.896212\t34.7996\t34.6003\t34.9948\t-26.965\t34.7368\t-26.7701\tSHC-transforming protein 1\t0.00578035\t0.000726744\t0.904044\t1.08E+07\t3.97942\t0.536237\t1\t0.801347\t0.999532\t0.848487\t0.00410173\t352164;424801;191379;66765.6;133099;24809.8;80500.6;75514.6;33671.9;92533.9;49826.5;0;\t352164;424801;191379;66765.6;133099;24809.8;80500.6;75514.6;33671.9;92533.9;49826.5;0;\t0.885348;0.910836;0.883742;0.80942;0.809038;0.416527;0.806734;0.792099;0.802044;0.659793;0.805833;0;\t26161\t4.75607\t0.801347\t3.4437\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP08238\tP08238;Q58FF8\tHS90B_HUMAN\tHSP90AB1\t5.06E+08\t5.72E+08\t5.76E+08\t5.06E+08\t5.72E+08\t5.76E+08\t\tIEDVGS(UniMod:21)DEEDDSGK\tIEDVGSDEEDDSGK\tIEDVGS(UniMod:21)DEEDDSGK2\t2\t0.000121981\t0.00188143\t0.0462428\t0.00287356\t0.00766284\t0.00134589\t0.00766284\t0\t0\t2.86E+08\t2.95E+08\t2.96E+08\t\t9.08E+08\t0.986435\t49.2309\t49.04\t49.4214\t3.40663\t49.3322\t3.26734\tHeat shock protein HSP 90-beta\t0.00527369\t0.000726744\t0.994469\t8.77E+08\t6.68934\t0.578169\t1\t0.985016\t0.999286\t0\t-1.00E+07\t1.42963e+08;1.01301e+08;4.14949e+07;2.7018e+07;4.76928e+06;3.016e+06;2.138e+07;2.42629e+07;1.95531e+07;0;2.67103e+07;2.17968e+07;\t1.42963e+08;1.01301e+08;4.14949e+07;2.7018e+07;4.76928e+06;3.016e+06;2.138e+07;2.42629e+07;1.95531e+07;0;2.67103e+07;2.17968e+07;\t0.98657;0.986394;0.986066;0.986282;0.986659;0.969015;0.987757;0.987798;0.990282;0;0.991909;0.987835;\t37478\t6.8877\t0\t2.96506\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP12931\tP12931\tSRC_HUMAN\tSRC\t9.08E+09\t9.79E+09\t1.62E+10\t9.08E+09\t9.79E+09\t1.62E+10\t1.55E+10\tLDSGGFY(UniMod:21)ITSR\tLDSGGFYITSR\tLDSGGFY(UniMod:21)ITSR2\t2\t0.000121981\t0.000810709\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t4.94E+09\t5.89E+09\t5.92E+09\t\t2.02E+10\t0.99332\t90.1665\t89.9761\t90.3623\t53.0145\t89.9535\t53.2638\tProto-oncogene tyrosine-protein kinase Src\t0.00527369\t0.000726744\t0.983315\t1.69E+10\t6.90808\t0.774918\t1\t0\t0.999692\t0\t-1.00E+07\t1.53939e+09;2.17004e+09;1.36808e+09;1.40454e+09;7.48142e+08;9.19635e+08;1.04816e+09;2.67816e+08;9.56555e+08;5.70861e+08;3.33428e+07;9.12118e+07;\t1.53939e+09;2.17004e+09;1.36808e+09;1.40454e+09;7.48142e+08;9.19635e+08;1.04816e+09;2.67816e+08;9.56555e+08;5.70861e+08;3.33428e+07;9.12118e+07;\t0.993336;0.993288;0.993121;0.993562;0.993405;0.99289;0.99327;0.99053;0.993107;0.99272;0.985882;0.99051;\t69614\t9.93577\t0\t0\t0.00306437\t1\t0.999999\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP42224\tP42224\tSTAT1_HUMAN\tSTAT1\t9.47E+09\t7.77E+09\t8.69E+09\t9.47E+09\t7.77E+09\t8.69E+09\t8.69E+09\tLLGPNAS(UniMod:21)PDGLIPWTR\tLLGPNASPDGLIPWTR\tLLGPNAS(UniMod:21)PDGLIPWTR2\t2\t0.000121981\t0.00115344\t0.0462428\t0.00347464\t0.00984781\t0.0031746\t0.00984781\t0\t1\t9.47E+09\t7.77E+09\t7.80E+09\t\t1.77E+10\t0.980571\t134.091\t133.898\t134.283\t117.403\t134.04\t117.593\tSignal transducer and activator of transcription 1-alpha/beta\t0.00527369\t0.000726744\t0.974933\t2.15E+10\t6.52245\t0.3576\t0.18907\t1.95889\t0.999562\t4.04956\t0.494493\t6.93677e+09;2.9782e+09;4.23011e+08;2.11326e+09;9.30218e+08;1.13952e+09;9.69602e+08;3.834e+08;3.491e+08;2.21804e+08;7.43661e+07;6.73242e+06;\t6.93677e+09;2.9782e+09;4.23011e+08;2.11326e+09;9.30218e+08;1.13952e+09;9.69602e+08;3.834e+08;3.491e+08;2.21804e+08;7.43661e+07;6.73242e+06;\t0.981172;0.973169;0.99108;0.976492;0.977752;0.972066;0.977635;0.981669;0.980694;0.987596;0.993393;0.535291;\t104089\t7.25518\t1.95889\t3.88946\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP42224\tP42224\tSTAT1_HUMAN\tSTAT1\t9.47E+09\t7.77E+09\t8.69E+09\t9.47E+09\t7.77E+09\t8.69E+09\t8.69E+09\tLLGPNAS(UniMod:21)PDGLIPWTR\tLLGPNASPDGLIPWTR\tLLGPNAS(UniMod:21)PDGLIPWTR3\t3\t0.000121981\t0.0145217\t0.0462428\t0.00347464\t0.00984781\t0.0031746\t0.00984781\t0\t1\t3.76E+08\t3.08E+08\t3.10E+08\t\t7.46E+08\t0.986177\t134.054\t133.861\t134.246\t117.546\t134.066\t117.403\tSignal transducer and activator of transcription 1-alpha/beta\t0.00527369\t0.000726744\t0.985114\t9.06E+08\t6.69095\t0.250129\t1\t1.96342\t0.994513\t2.14152\t0.00714637\t3.126e+08;1.44398e+07;2.9808e+07;3.34144e+07;5.30976e+07;5.20039e+06;1.43475e+06;\t3.126e+08;1.44398e+07;2.9808e+07;3.34144e+07;5.30976e+07;5.20039e+06;1.43475e+06;\t0.986037;0.985006;0.986298;0.987377;0.984055;0.986775;0.985478;\t104059\t3.93176\t3.93176\t2.94994\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tMHLPS(UniMod:21)PTDSNFYR\tMHLPSPTDSNFYR\tMHLPS(UniMod:21)PTDSNFYR2\t2\t0.000121981\t0.000895481\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t1.35E+10\t1.72E+10\t1.73E+10\t\t2.76E+10\t0.998024\t85.8534\t85.6632\t86.0483\t48.2212\t85.8802\t48.2398\tEpidermal growth factor receptor\t0.00527369\t0.000726744\t0.996068\t2.16E+10\t6.94924\t0.178532\t1\t1.99459\t0.99966\t0\t-1.00E+07\t6.53208e+09;4.93871e+09;1.48797e+08;2.03702e+09;1.82557e+09;3.80869e+08;3.78154e+08;4.17643e+07;9.40819e+07;1.29178e+08;\t6.53208e+09;4.93871e+09;1.48797e+08;2.03702e+09;1.82557e+09;3.80869e+08;3.78154e+08;4.17643e+07;9.40819e+07;1.29178e+08;\t0.9984;0.997906;0.998025;0.9971;0.997412;0.996665;0.997114;0.972113;0.979946;0.997526;\t66232\t6.89086\t0.995739\t0.997507\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tRPAGS(UniMod:21)VQNPVYHNQPLNPAPSR\tRPAGSVQNPVYHNQPLNPAPSR\tRPAGS(UniMod:21)VQNPVYHNQPLNPAPSR4\t4\t0.000121981\t0.00253595\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t4.29E+08\t4.41E+08\t4.43E+08\t\t2.06E+09\t0.996742\t56.658\t56.4649\t56.8483\t15.8124\t57.8185\t14.1606\tEpidermal growth factor receptor\t0.00575718\t0.000726744\t0.96949\t1.99E+09\t6.83732\t0.416158\t1\t3.93268\t0.999037\t0\t-1.00E+07\t2.3119e+08;1.08527e+08;1.19493e+08;1.29915e+07;6.38061e+06;8.97679e+07;3.57855e+07;1.60975e+07;0;5.06314e+07;1.55167e+07;2.29398e+07;\t2.3119e+08;1.08527e+08;1.19493e+08;1.29915e+07;6.38061e+06;8.97679e+07;3.57855e+07;1.60975e+07;0;5.06314e+07;1.55167e+07;2.29398e+07;\t0.996873;0.996366;0.996901;0.995883;0.991943;0.996858;0.995435;0.993512;0;0.995448;0.99685;0.997362;\t43311\t5.96255\t3.9759\t0.973689\t0.00306437\t1\t0.997002\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tRPAGSVQNPVY(UniMod:21)HNQPLNPAPSR\tRPAGSVQNPVYHNQPLNPAPSR\tRPAGSVQNPVY(UniMod:21)HNQPLNPAPSR4\t4\t0.000121981\t0.000780883\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t1.18E+08\t1.21E+08\t1.21E+08\t\t4.84E+08\t0.999317\t53.3473\t53.1569\t53.5375\t9.25819\t53.7679\t8.65368\tEpidermal growth factor receptor\t0.00527369\t0.000726744\t0.982029\t4.72E+08\t6.64382\t0.479501\t1\t3.73589\t0.999703\t0\t-1.00E+07\t6.76507e+07;3.45469e+07;8.02227e+06;2.80141e+07;2.45204e+07;2.63194e+07;2.42051e+07;2.23306e+06;2.67832e+07;5.11963e+06;1.80025e+07;4.12139e+06;\t6.76507e+07;3.45469e+07;8.02227e+06;2.80141e+07;2.45204e+07;2.63194e+07;2.42051e+07;2.23306e+06;2.67832e+07;5.11963e+06;1.80025e+07;4.12139e+06;\t0.99919;0.999122;0.990396;0.999473;0.999337;0.999627;0.999001;0.989138;0.998986;0.995303;0.999432;0.99378;\t40711\t3.73589\t0\t0\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP00533\tP00533\tEGFR_HUMAN\tEGFR\t1.35E+10\t1.72E+10\t1.44E+10\t1.35E+10\t1.72E+10\t1.44E+10\t1.44E+10\tRPAGSVQNPVYHNQPLNPAPS(UniMod:21)R\tRPAGSVQNPVYHNQPLNPAPSR\tRPAGSVQNPVYHNQPLNPAPS(UniMod:21)R4\t4\t0.000121981\t0.00215797\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t3.38E+08\t3.49E+08\t3.51E+08\t\t1.39E+09\t0.998015\t55.0662\t54.8758\t55.2564\t13.7334\t56.2893\t11.5271\tEpidermal growth factor receptor\t0.00527369\t0.000726744\t0.992004\t1.34E+09\t6.88761\t0.589119\t1\t2.59454\t0.999181\t0\t-1.00E+07\t3.92131e+07;1.73747e+08;7.28097e+07;9.17325e+07;6.9619e+07;1.50757e+07;5.84763e+07;5.9109e+07;7.19407e+07;4.49272e+06;3.2577e+06;1.63388e+07;\t3.92131e+07;1.73747e+08;7.28097e+07;9.17325e+07;6.9619e+07;1.50757e+07;5.84763e+07;5.9109e+07;7.19407e+07;4.49272e+06;3.2577e+06;1.63388e+07;\t0.997108;0.998505;0.998182;0.996954;0.998716;0.99728;0.999089;0.998173;0.998842;0.910026;0.763138;0.995777;\t42061\t5.47926\t4.61441\t0.991266\t0.00306437\t1\t0.999993\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tA2RU67\tA2RU67\tF234B_HUMAN\tFAM234B\t2.42E+08\t3.01E+08\t3.01E+08\t2.42E+08\t3.01E+08\t3.01E+08\t3.01E+08\tSPLGEAPEPDS(UniMod:21)DAEVAEAAK\tSPLGEAPEPDSDAEVAEAAK\tSPLGEAPEPDS(UniMod:21)DAEVAEAAK3\t3\t0.000121981\t0.00870877\t0.0462428\t0.0175791\t0.0303624\t0.0274964\t0.0298873\t0\t1\t2.42E+08\t3.01E+08\t3.03E+08\t\t1.86E+09\t0.991122\t85.0709\t84.8807\t85.2657\t47.1269\t84.9155\t47.358\tProtein FAM234B\t0.00527369\t0.0035879\t0.991255\t1.48E+09\t6.78623\t0.64605\t1\t0.990469\t0.996702\t0\t-1.00E+07\t5.17154e+07;6.28805e+07;1.20599e+08;1.1791e+07;7.51079e+07;5.81525e+07;8.79988e+07;5.27343e+07;2.81957e+07;3.25727e+07;4.50875e+07;3.92617e+07;\t5.17154e+07;6.28805e+07;1.20599e+08;1.1791e+07;7.51079e+07;5.81525e+07;8.79988e+07;5.27343e+07;2.81957e+07;3.25727e+07;4.50875e+07;3.92617e+07;\t0.990614;0.992274;0.991707;0.981419;0.992105;0.988662;0.991194;0.990624;0.991109;0.992939;0.991865;0.991821;\t65618\t3.94778\t3.94778\t3.96632\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ9NQU5\tQ9NQU5\tPAK6_HUMAN\tPAK6\t1.68E+09\t1.84E+09\t1.90E+09\t1.68E+09\t1.84E+09\t1.90E+09\t1.90E+09\tTWHAQISTSNLY(UniMod:21)LPQDPTVAK\tTWHAQISTSNLYLPQDPTVAK\tTWHAQISTSNLY(UniMod:21)LPQDPTVAK3\t3\t0.000121981\t0.000796895\t0.0462428\t0.00347464\t0.0114247\t0.00968992\t0.0114247\t0\t1\t1.68E+09\t1.84E+09\t1.85E+09\t\t5.68E+09\t0.996346\t101.866\t101.676\t102.056\t65.5819\t101.787\t65.7605\tSerine/threonine-protein kinase PAK 6\t0.00527369\t0.00126743\t0.994304\t5.18E+09\t6.94284\t0.33531\t1\t1.98907\t0.999697\t0\t-1.00E+07\t7.52617e+08;7.74178e+08;1.9009e+08;1.57136e+08;7.36965e+07;2.89103e+08;1.76465e+08;1.05938e+08;1.73681e+08;2.82369e+08;5.48166e+07;1.69698e+07;\t7.52617e+08;7.74178e+08;1.9009e+08;1.57136e+08;7.36965e+07;2.89103e+08;1.76465e+08;1.05938e+08;1.73681e+08;2.82369e+08;5.48166e+07;1.69698e+07;\t0.996169;0.996499;0.993844;0.996434;0.996402;0.995875;0.995043;0.996523;0.995772;0.995972;0.993187;0.965101;\t78781\t1.98907\t0\t0\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ9NQU5\tQ9NQU5\tPAK6_HUMAN\tPAK6\t1.68E+09\t1.84E+09\t1.90E+09\t1.68E+09\t1.84E+09\t1.90E+09\t1.90E+09\tTWHAQISTSNLY(UniMod:21)LPQDPTVAK\tTWHAQISTSNLYLPQDPTVAK\tTWHAQISTSNLY(UniMod:21)LPQDPTVAK4\t4\t0.000121981\t0.000859688\t0.0462428\t0.00347464\t0.0114247\t0.00968992\t0.0114247\t0\t1\t1.59E+07\t1.74E+07\t1.75E+07\t\t4.76E+07\t0.992811\t101.842\t101.652\t102.032\t65.5964\t101.805\t65.7444\tSerine/threonine-protein kinase PAK 6\t0.00578035\t0.00126743\t0.955677\t4.34E+07\t6.27578\t0.513838\t1\t0.788221\t0.999673\t0\t-1.00E+07\t3.43777e+06;535355;7.92229e+06;1.79549e+06;2.99333e+06;5.01257e+06;653296;894347;482091;0;370056;70570.6;\t3.43777e+06;535355;7.92229e+06;1.79549e+06;2.99333e+06;5.01257e+06;653296;894347;482091;0;370056;70570.6;\t0.993887;0.822379;0.993835;0.994468;0.992643;0.991291;0.906968;0.96936;0.914614;0;0.966389;0.810024;\t78761\t0.788221\t0\t0\t0.00306437\t1\t0.807591\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP14923\tP14923\tPLAK_HUMAN\tJUP\t4.21E+08\t4.37E+08\t5.08E+08\t4.21E+08\t4.37E+08\t5.08E+08\t5.08E+08\tVS(UniMod:21)VELTNSLFK\tVSVELTNSLFK\tVS(UniMod:21)VELTNSLFK2\t2\t0.000121981\t0.00717543\t0.0462428\t0.00347464\t0.0114247\t0.00968992\t0.0114247\t0\t1\t4.21E+08\t4.37E+08\t4.39E+08\t\t2.61E+09\t0.992357\t118.578\t118.387\t118.768\t84.1531\t118.469\t84.23\tJunction plakoglobin\t0.00527369\t0.00126743\t0.996037\t2.50E+09\t5.89918\t0.540265\t1\t0.995655\t0.997281\t0\t-1.00E+07\t1.24445e+08;1.56762e+08;1.39756e+08;0;6.08875e+07;2.19352e+07;4.11239e+07;5.23533e+07;0;3.19907e+07;3.07795e+07;0;\t1.24445e+08;1.56762e+08;1.39756e+08;0;6.08875e+07;2.19352e+07;4.11239e+07;5.23533e+07;0;3.19907e+07;3.07795e+07;0;\t0.992971;0.99278;0.991336;0;0.99312;0.9938;0.995264;0.99362;0;0.991948;0.994435;0;\t91915\t1.99208\t0.996427\t4.96597\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP40763\tP40763\tSTAT3_HUMAN\tSTAT3\t1.66E+09\t1.70E+09\t1.78E+09\t1.66E+09\t1.70E+09\t1.78E+09\t1.78E+09\tYCRPESQEHPEADPGSAAPY(UniMod:21)LK\tYCRPESQEHPEADPGSAAPYLK\tYCRPESQEHPEADPGSAAPY(UniMod:21)LK3\t3\t0.000121981\t0.00108357\t0.0462428\t0.00287356\t0.00714286\t0.00134589\t0.00714286\t0\t1\t1.66E+09\t1.70E+09\t1.70E+09\t\t4.37E+09\t0.99512\t56.3659\t56.1756\t56.5564\t13.8786\t56.381\t13.6998\tSignal transducer and activator of transcription 3\t0.00527369\t0.000726744\t0.993459\t4.25E+09\t6.89854\t0.528445\t1\t6.8983\t0.999588\t0\t-1.00E+07\t3.89254e+08;3.03572e+08;8.56581e+08;4.98023e+08;5.31546e+07;1.66685e+08;1.57386e+07;5.25325e+08;1.30719e+08;1.01187e+08;5.45812e+07;1.5791e+08;\t3.89254e+08;3.03572e+08;8.56581e+08;4.98023e+08;5.31546e+07;1.66685e+08;1.57386e+07;5.25325e+08;1.30719e+08;1.01187e+08;5.45812e+07;1.5791e+08;\t0.995007;0.994841;0.995269;0.995033;0.989901;0.993689;0.981665;0.994914;0.991512;0.992976;0.987903;0.995743;\t43084\t6.8983\t1.99473\t1.9699\t0.00774156\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP40763\tP40763\tSTAT3_HUMAN\tSTAT3\t1.66E+09\t1.70E+09\t1.78E+09\t1.66E+09\t1.70E+09\t1.78E+09\t1.78E+09\tYCRPESQEHPEADPGSAAPY(UniMod:21)LK\tYCRPESQEHPEADPGSAAPYLK\tYCRPESQEHPEADPGSAAPY(UniMod:21)LK4\t4\t0.000121981\t0.00218406\t0.0462428\t0.00287356\t0.00714286\t0.00134589\t0.00714286\t0\t1\t2.31E+08\t2.36E+08\t2.38E+08\t\t4.52E+08\t0.993971\t56.3403\t56.15\t56.5308\t13.9387\t56.4197\t13.6588\tSignal transducer and activator of transcription 3\t0.00527369\t0.000726744\t0.993362\t4.40E+08\t5.90589\t0.415495\t1\t1.87184\t0.999171\t0\t-1.00E+07\t1.13927e+08;8.64984e+07;7.96811e+06;879839;3.06695e+07;7.22033e+06;2.18393e+07;6.68485e+07;1.08188e+06;0;6.1567e+06;0;\t1.13927e+08;8.64984e+07;7.96811e+06;879839;3.06695e+07;7.22033e+06;2.18393e+07;6.68485e+07;1.08188e+06;0;6.1567e+06;0;\t0.995179;0.992294;0.989635;0.284324;0.994213;0.995953;0.995868;0.995344;0.931626;0;0.995111;0;\t43063\t3.98535\t3.98535\t1.87184\t0.00306437\t1\t1\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP29353\tP29353\tSHC1_HUMAN\tSHC1\t2.20E+09\t2.12E+09\t2.17E+09\t2.20E+09\t2.12E+09\t2.17E+09\t2.17E+09\tELFDDPSY(UniMod:21)VNVQNLDK\tELFDDPSYVNVQNLDK\tELFDDPSY(UniMod:21)VNVQNLDK3\t3\t0.000121981\t0.00191411\t0.0462428\t0.00287356\t0.00714286\t0.00134589\t0.00714286\t0\t1\t7.80E+06\t8.05E+06\t8.09E+06\t\t6.81E+07\t0.993003\t120.803\t120.613\t120.994\t86.9271\t120.707\t87.0481\tSHC-transforming protein 1\t0.00527369\t0.000726744\t0.996958\t6.57E+07\t6.83601\t0.54387\t1\t2.94852\t0.999273\t0\t-1.00E+07\t3.04955e+06;2.55682e+06;2.19722e+06;501218;3.44439e+06;1.0806e+06;2.42864e+06;652363;1.03898e+06;1.02707e+06;892002;1.45634e+06;\t3.04955e+06;2.55682e+06;2.19722e+06;501218;3.44439e+06;1.0806e+06;2.42864e+06;652363;1.03898e+06;1.02707e+06;892002;1.45634e+06;\t0.992167;0.994242;0.992723;0.987755;0.993972;0.986675;0.993026;0.988138;0.986763;0.99564;0.980052;0.996002;\t93665\t2.94852\t0\t0.984613\t0.00306437\t0.999999\t0.696041\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP42345\tP42345\tMTOR_HUMAN\tMTOR\t6.38E+09\t6.97E+09\t6.12E+09\t6.38E+09\t6.97E+09\t6.12E+09\t6.12E+09\tET(UniMod:21)SFNQAYGR\tETSFNQAYGR\tET(UniMod:21)SFNQAYGR2\t2\t0.000121981\t0.000842891\t0.0462428\t0.00287356\t0.00688468\t0.00134589\t0.00688468\t0\t1\t2.14E+08\t2.21E+08\t2.22E+08\t\t1.22E+09\t0.990087\t55.895\t55.7047\t56.0853\t12.8902\t55.8086\t12.9324\tSerine/threonine-protein kinase mTOR\t0.00527369\t0.000726744\t0.995833\t1.18E+09\t6.81382\t0.61071\t1\t0.974852\t0.99968\t0\t-1.00E+07\t1.41272e+08;1.1571e+08;9.65968e+07;7.01033e+07;4.73506e+07;4.09883e+07;4.2218e+07;3.35007e+07;4.1875e+06;1.3505e+07;9.22973e+06;9.29415e+06;\t1.41272e+08;1.1571e+08;9.65968e+07;7.01033e+07;4.73506e+07;4.09883e+07;4.2218e+07;3.35007e+07;4.1875e+06;1.3505e+07;9.22973e+06;9.29415e+06;\t0.985174;0.989808;0.991545;0.989764;0.987589;0.986524;0.988963;0.986743;0.971678;0.993447;0.975761;0.979174;\t42712\t2.92711\t0\t0.989068\t0.00306437\t0.999999\t0.999999\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP04626\tP04626\tERBB2_HUMAN\tERBB2\t5.06E+09\t5.49E+09\t1.14E+10\t5.06E+09\t5.49E+09\t1.14E+10\t1.14E+10\tLLQETELVEPLT(UniMod:21)PSGAMPNQAQMR\tLLQETELVEPLTPSGAMPNQAQMR\tLLQETELVEPLT(UniMod:21)PSGAMPNQAQMR3\t3\t0.000121981\t0.00152202\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t3.30E+09\t3.05E+09\t3.06E+09\t\t5.80E+09\t0.994212\t124.277\t124.085\t124.468\t92.1505\t124.263\t92.1818\tReceptor tyrosine-protein kinase erbB-2\t0.00527369\t0.000726744\t0.997914\t6.26E+09\t6.82008\t0.253509\t1\t0.97542\t0.999422\t0\t-1.00E+07\t2.2868e+09;1.62035e+08;1.74172e+07;6.9441e+08;3.18832e+08;9.73918e+07;5.29842e+08;2.12765e+08;4.74127e+08;5.38968e+07;3.2797e+07;1.66167e+08;\t2.2868e+09;1.62035e+08;1.74172e+07;6.9441e+08;3.18832e+08;9.73918e+07;5.29842e+08;2.12765e+08;4.74127e+08;5.38968e+07;3.2797e+07;1.66167e+08;\t0.994669;0.99527;0.986173;0.993559;0.992353;0.988628;0.992627;0.987387;0.994252;0.991011;0.979799;0.994245;\t96391\t2.96038\t0\t0\t0.00306437\t0.999999\t0.999999\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tP04626\tP04626\tERBB2_HUMAN\tERBB2\t5.06E+09\t5.49E+09\t1.14E+10\t5.06E+09\t5.49E+09\t1.14E+10\t1.14E+10\tLLQETELVEPLT(UniMod:21)PSGAMPNQAQMR\tLLQETELVEPLTPSGAMPNQAQMR\tLLQETELVEPLT(UniMod:21)PSGAMPNQAQMR4\t4\t0.000121981\t0.000905529\t0.0462428\t0.00217865\t0.002331\t0.00134589\t0.002331\t0\t1\t3.84E+07\t3.54E+07\t3.56E+07\t\t5.36E+07\t0.994574\t124.313\t124.121\t124.504\t92.1078\t124.234\t92.2339\tReceptor tyrosine-protein kinase erbB-2\t0.00527369\t0.000726744\t0.988561\t5.78E+07\t6.90091\t0.347201\t1\t0\t0.999656\t0\t-1.00E+07\t2.06853e+07;3.80984e+06;9.05547e+06;8.6167e+06;6.70391e+06;1.20683e+06;2.67867e+06;596599;1.46053e+06;5.03437e+06;471417;173069;\t2.06853e+07;3.80984e+06;9.05547e+06;8.6167e+06;6.70391e+06;1.20683e+06;2.67867e+06;596599;1.46053e+06;5.03437e+06;471417;173069;\t0.994351;0.992977;0.996084;0.993525;0.995215;0.995064;0.993572;0.947207;0.993636;0.993364;0.966968;0.86049;\t96418\t0.949027\t0\t0\t0.00306437\t0.999999\t0.817767\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ9Y243\tQ9Y243\tAKT3_HUMAN\tAKT3\t2.53E+07\t2.19E+07\t2.19E+07\t2.53E+07\t2.19E+07\t2.19E+07\t2.19E+07\tYFDEEFTAQTITIT(UniMod:21)PPEK\tYFDEEFTAQTITITPPEK\tYFDEEFTAQTITIT(UniMod:21)PPEK3\t3\t0.000121981\t0.00542001\t0.0462428\t0.0175791\t0.0303624\t0.0274964\t0.0298873\t0\t1\t2.53E+07\t2.19E+07\t2.20E+07\t\t4.01E+07\t0.997115\t128.014\t127.822\t128.205\t97.9251\t127.658\t98.748\tRAC-gamma serine/threonine-protein kinase\t0.00527369\t0.00555298\t0.959289\t4.61E+07\t6.05458\t0.310138\t1\t0\t0.997945\t1.60203\t0.125708\t1.692e+07;3.03252e+06;3.99751e+06;6.10308e+06;688218;2.28138e+06;679250;245986;725849;1.03312e+06;1.59846e+06;1.44338e+06;\t1.692e+07;3.03252e+06;3.99751e+06;6.10308e+06;688218;2.28138e+06;679250;245986;725849;1.03312e+06;1.59846e+06;1.44338e+06;\t0.996499;0.996812;0.996262;0.99788;0.986666;0.999632;0.987055;0.816242;0.984358;0.989641;0.994322;0.991687;\t99323\t8.21817\t3.69782\t0\t0.00306437\t0.999995\t0\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ92934\tQ92934\tBAD_HUMAN\tBAD\t1.53E+10\t1.94E+10\t2.27E+10\t1.53E+10\t1.94E+10\t2.27E+10\t2.27E+10\tS(UniMod:21)AGTATQMR\tSAGTATQMR\tS(UniMod:21)AGTATQMR2\t2\t0.000121981\t0.00149846\t0.0462428\t0.00287356\t0.00688468\t0.00134589\t0.00688468\t0\t1\t1.66E+07\t1.82E+07\t1.83E+07\t\t4.77E+07\t0.969639\t36.1894\t35.9989\t36.3799\t-22.7509\t35.9851\t-22.9108\tBcl2-associated agonist of cell death\t0.00578035\t0.000726744\t0.972986\t4.32E+07\t5.80837\t0.541347\t0.0836911\t0\t0.999431\t0\t-1.00E+07\t8.34974e+06;4.54139e+06;3.6747e+06;2.98941e+06;531943;1.02777e+06;166633;110924;689007;150391;\t8.34974e+06;4.54139e+06;3.6747e+06;2.98941e+06;531943;1.02777e+06;166633;110924;689007;150391;\t0.976732;0.960064;0.965355;0.955499;0.852467;0.903735;0;0.286183;0.907329;0.639162;\t27250\t0\t0\t4.35529\t0.00774156\t0.999987\t0.999342\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tQ9UJM3\tQ9UJM3\tERRFI_HUMAN\tERRFI1\t6.85E+09\t7.62E+09\t7.93E+09\t6.85E+09\t7.62E+09\t7.93E+09\t7.93E+09\tVSSTHY(UniMod:21)YLLPERPPYLDK\tVSSTHYYLLPERPPYLDK\tVSSTHY(UniMod:21)YLLPERPPYLDK4\t4\t0.000121981\t0.000862514\t0.0462428\t0.00287356\t0.00688468\t0.00134589\t0.00688468\t0\t1\t1.47E+08\t1.87E+08\t1.88E+08\t\t1.76E+09\t0.992385\t87.7333\t87.5431\t87.928\t50.704\t87.9613\t50.4046\tERBB receptor feedback inhibitor 1\t0.0055909\t0.000726744\t0.944861\t1.37E+09\t5.05981\t0.360346\t1\t1.93701\t0.999672\t0\t-1.00E+07\t1.15243e+06;4.50514e+07;285847;9.19508e+07;4.42722e+06;9.88607e+06;6.36655e+06;2.22439e+07;938528;3.32432e+06;0;3.42804e+07;\t1.15243e+06;4.50514e+07;285847;9.19508e+07;4.42722e+06;9.88607e+06;6.36655e+06;2.22439e+07;938528;3.32432e+06;0;3.42804e+07;\t0.881155;0.995464;0.469532;0.99029;0.99532;0.997836;0.986297;0.989174;0.884219;0.940909;0;0.989701;\t67706\t4.66053\t0\t0\t0.00306437\t0.999938\t0.894529\t0\t0\t0\t0\n",
    "E:\\2021-PXD019797-Reta-DIAGPS-Lumos\\Syn166\\PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw\tPhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101\tO15014\tO15014\tZN609_HUMAN\tZNF609\t3.53E+09\t3.82E+09\t3.82E+09\t3.53E+09\t3.82E+09\t3.82E+09\t3.82E+09\tAPS(UniMod:21)LTDLVK\tAPSLTDLVK\tAPS(UniMod:21)LTDLVK2\t2\t0.000121981\t0.00416115\t0.0462428\t0.00347464\t0.0114247\t0.00952381\t0.0114247\t0\t1\t3.53E+09\t3.82E+09\t3.84E+09\t\t3.19E+10\t0.997565\t100.936\t100.74\t101.126\t64.7975\t100.833\t64.949\tZinc finger protein 609\t0.00527369\t0.000726744\t0.978601\t2.94E+10\t6.40952\t0.479961\t1\t0.968706\t0.998422\t3.81511\t0.0448672\t1.04899e+09;1.75936e+09;5.18141e+08;2.97775e+08;3.25377e+08;7.26418e+08;4.90327e+08;5.90536e+08;2.82432e+08;0;2.68659e+08;\t1.04899e+09;1.75936e+09;5.18141e+08;2.97775e+08;3.25377e+08;7.26418e+08;4.90327e+08;5.90536e+08;2.82432e+08;0;2.68659e+08;\t0.996537;0.997939;0.997048;0.99718;0.996659;0.998142;0.998186;0.997868;0.997603;0;0.998129;\t78051\t6.76005\t0\t1.94713\t0.00306437\t0.999931\t0.999997\t0\t0\t0\t0\n",
    "\"\"\")\n",
    "phos_df = DiannReader().load(diann_tsv)\n",
    "phos_df = phos_df.query(\"sequence == 'RPAGSVQNPVYHNQPLNPAPSR'\")\n",
    "phos_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>charge</th>\n",
       "      <th>injection_time</th>\n",
       "      <th>isolation_lower_mz</th>\n",
       "      <th>isolation_upper_mz</th>\n",
       "      <th>ms_level</th>\n",
       "      <th>nce</th>\n",
       "      <th>peak_start_idx</th>\n",
       "      <th>peak_stop_idx</th>\n",
       "      <th>precursor_mz</th>\n",
       "      <th>rt</th>\n",
       "      <th>spec_idx</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>0</td>\n",
       "      <td>14.627</td>\n",
       "      <td>-1.000000</td>\n",
       "      <td>-1.000000</td>\n",
       "      <td>1</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0</td>\n",
       "      <td>844</td>\n",
       "      <td>-1.000000</td>\n",
       "      <td>0.000436</td>\n",
       "      <td>0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>0</td>\n",
       "      <td>50.000</td>\n",
       "      <td>500.502502</td>\n",
       "      <td>510.502502</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>844</td>\n",
       "      <td>980</td>\n",
       "      <td>505.502502</td>\n",
       "      <td>0.001647</td>\n",
       "      <td>1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>510.507507</td>\n",
       "      <td>520.507507</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>980</td>\n",
       "      <td>1114</td>\n",
       "      <td>515.507507</td>\n",
       "      <td>0.003949</td>\n",
       "      <td>2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>520.512512</td>\n",
       "      <td>530.512512</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>1114</td>\n",
       "      <td>1285</td>\n",
       "      <td>525.512512</td>\n",
       "      <td>0.005236</td>\n",
       "      <td>3</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>530.517517</td>\n",
       "      <td>540.517517</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>1285</td>\n",
       "      <td>1505</td>\n",
       "      <td>535.517517</td>\n",
       "      <td>0.006518</td>\n",
       "      <td>4</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>126169</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>950.727478</td>\n",
       "      <td>960.727478</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>72044012</td>\n",
       "      <td>72044045</td>\n",
       "      <td>955.727478</td>\n",
       "      <td>159.997733</td>\n",
       "      <td>126169</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>126170</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>960.732483</td>\n",
       "      <td>970.732483</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>72044045</td>\n",
       "      <td>72044098</td>\n",
       "      <td>965.732483</td>\n",
       "      <td>159.999014</td>\n",
       "      <td>126170</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>126171</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>970.737488</td>\n",
       "      <td>980.737488</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>72044098</td>\n",
       "      <td>72044129</td>\n",
       "      <td>975.737488</td>\n",
       "      <td>160.000297</td>\n",
       "      <td>126171</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>126172</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>980.742493</td>\n",
       "      <td>990.742493</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>72044129</td>\n",
       "      <td>72044160</td>\n",
       "      <td>985.742493</td>\n",
       "      <td>160.001581</td>\n",
       "      <td>126172</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>126173</th>\n",
       "      <td>0</td>\n",
       "      <td>55.500</td>\n",
       "      <td>990.747498</td>\n",
       "      <td>1000.747498</td>\n",
       "      <td>2</td>\n",
       "      <td>30.0</td>\n",
       "      <td>72044160</td>\n",
       "      <td>72044182</td>\n",
       "      <td>995.747498</td>\n",
       "      <td>160.002864</td>\n",
       "      <td>126173</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>126174 rows × 11 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "        charge  injection_time  isolation_lower_mz  isolation_upper_mz  \\\n",
       "0            0          14.627           -1.000000           -1.000000   \n",
       "1            0          50.000          500.502502          510.502502   \n",
       "2            0          55.500          510.507507          520.507507   \n",
       "3            0          55.500          520.512512          530.512512   \n",
       "4            0          55.500          530.517517          540.517517   \n",
       "...        ...             ...                 ...                 ...   \n",
       "126169       0          55.500          950.727478          960.727478   \n",
       "126170       0          55.500          960.732483          970.732483   \n",
       "126171       0          55.500          970.737488          980.737488   \n",
       "126172       0          55.500          980.742493          990.742493   \n",
       "126173       0          55.500          990.747498         1000.747498   \n",
       "\n",
       "        ms_level   nce  peak_start_idx  peak_stop_idx  precursor_mz  \\\n",
       "0              1   0.0               0            844     -1.000000   \n",
       "1              2  30.0             844            980    505.502502   \n",
       "2              2  30.0             980           1114    515.507507   \n",
       "3              2  30.0            1114           1285    525.512512   \n",
       "4              2  30.0            1285           1505    535.517517   \n",
       "...          ...   ...             ...            ...           ...   \n",
       "126169         2  30.0        72044012       72044045    955.727478   \n",
       "126170         2  30.0        72044045       72044098    965.732483   \n",
       "126171         2  30.0        72044098       72044129    975.737488   \n",
       "126172         2  30.0        72044129       72044160    985.742493   \n",
       "126173         2  30.0        72044160       72044182    995.747498   \n",
       "\n",
       "                rt  spec_idx  \n",
       "0         0.000436         0  \n",
       "1         0.001647         1  \n",
       "2         0.003949         2  \n",
       "3         0.005236         3  \n",
       "4         0.006518         4  \n",
       "...            ...       ...  \n",
       "126169  159.997733    126169  \n",
       "126170  159.999014    126170  \n",
       "126171  160.000297    126171  \n",
       "126172  160.001581    126172  \n",
       "126173  160.002864    126173  \n",
       "\n",
       "[126174 rows x 11 columns]"
      ]
     },
     "execution_count": 15,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "raw_file = \"/Users/wenfengzeng/data/orbi_dia/synphos/PhosphoPooledSynth1xdY_DIA60K10Da30K500_1000Da_160min50cm_19031101.raw.hdf\"\n",
    "\n",
    "phos_raw = MSData_Base(save_as_hdf=False)\n",
    "phos_raw.load_hdf(raw_file)\n",
    "phos_spec_df = phos_raw.spectrum_df\n",
    "phos_peak_df = phos_raw.peak_df\n",
    "phos_spec_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "3303.972"
      ]
     },
     "execution_count": 16,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "i_phos = 0\n",
    "phos_rt_sec = phos_df.rt.values[i_phos]*60\n",
    "xic_rt_sec = phos_df.rt.values[0]*60\n",
    "phos_mz = phos_df.precursor_mz.values[i_phos]\n",
    "phos_seq = phos_df.sequence.values[i_phos]\n",
    "phos_mods = phos_df.mods.values[i_phos]\n",
    "phos_sites = phos_df.mod_sites.values[i_phos]\n",
    "phos_charge = phos_df.charge.values[i_phos]\n",
    "phos_rt_sec"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 17,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "25    21\n",
       "26     5\n",
       "28    11\n",
       "Name: mod_sites, dtype: object"
      ]
     },
     "execution_count": 17,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "phos_df.mod_sites"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 18,
   "metadata": {},
   "outputs": [],
   "source": [
    "site_specific_idxes = np.arange(10,20)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 19,
   "metadata": {},
   "outputs": [],
   "source": [
    "one_peak_df = get_peak_df_list(\n",
    "    phos_spec_df, phos_peak_df, \n",
    "    phos_rt_sec, phos_mz, n=1\n",
    ")[0]\n",
    "fig = plot_one_psm(\n",
    "    one_peak_df, \n",
    "    phos_seq, phos_mods, phos_sites, \n",
    "    phos_charge,\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "metadata": {},
   "outputs": [],
   "source": [
    "xic_plotter.rt_sec_win = 360\n",
    "fig = plot_psm_xic(\n",
    "    spec_df, peak_df, \n",
    "    phos_seq, phos_mods, phos_sites, phos_charge,\n",
    "    xic_rt_sec, include_isotopes=True\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "metadata": {},
   "outputs": [],
   "source": [
    "plot_df = make_psm_plot_df_for_peptide(\n",
    "    one_peak_df.mz.values,\n",
    "    one_peak_df.intensity.values,\n",
    "    phos_seq, phos_mods, phos_sites, \n",
    "    phos_charge,\n",
    ")\n",
    "site_specific_idxes = np.arange(4,10)\n",
    "plot_df[\"color\"] = \"lightblue\"\n",
    "plot_df.loc[plot_df.fragment_site.isin(site_specific_idxes),\"color\"] = \"red\"\n",
    "fig = psm_plotter.plot(\n",
    "    plot_df, phos_seq, \n",
    "    plot_df.modified_sequence.values[0],\n",
    "    plot_unmatched_peaks=True\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 22,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>modified_sequence</th>\n",
       "      <th>mz</th>\n",
       "      <th>intensity</th>\n",
       "      <th>fragment_site</th>\n",
       "      <th>ppm_err</th>\n",
       "      <th>mass_err</th>\n",
       "      <th>ion_name</th>\n",
       "      <th>mod_sites</th>\n",
       "      <th>color</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>110.071243</td>\n",
       "      <td>1.006920e+07</td>\n",
       "      <td>-1</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>-</td>\n",
       "      <td>21</td>\n",
       "      <td>lightgrey</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>111.074463</td>\n",
       "      <td>4.443796e+05</td>\n",
       "      <td>-1</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>-</td>\n",
       "      <td>21</td>\n",
       "      <td>lightgrey</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>112.087112</td>\n",
       "      <td>6.159941e+05</td>\n",
       "      <td>-1</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>-</td>\n",
       "      <td>21</td>\n",
       "      <td>lightgrey</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>113.070869</td>\n",
       "      <td>1.202546e+05</td>\n",
       "      <td>-1</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>-</td>\n",
       "      <td>21</td>\n",
       "      <td>lightgrey</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>114.102188</td>\n",
       "      <td>1.011716e+05</td>\n",
       "      <td>-1</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>-</td>\n",
       "      <td>21</td>\n",
       "      <td>lightgrey</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>735</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>304.133606</td>\n",
       "      <td>5.126084e+05</td>\n",
       "      <td>16</td>\n",
       "      <td>-2.107196</td>\n",
       "      <td>-0.000641</td>\n",
       "      <td>y5++</td>\n",
       "      <td>21</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>736</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>510.207184</td>\n",
       "      <td>7.633365e+05</td>\n",
       "      <td>17</td>\n",
       "      <td>13.517984</td>\n",
       "      <td>0.006897</td>\n",
       "      <td>y4+</td>\n",
       "      <td>21</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>737</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>439.170074</td>\n",
       "      <td>8.596875e+05</td>\n",
       "      <td>18</td>\n",
       "      <td>-4.099863</td>\n",
       "      <td>-0.001801</td>\n",
       "      <td>y3+</td>\n",
       "      <td>21</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>738</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>220.088669</td>\n",
       "      <td>1.208201e+05</td>\n",
       "      <td>18</td>\n",
       "      <td>-0.207991</td>\n",
       "      <td>-0.000046</td>\n",
       "      <td>y3++</td>\n",
       "      <td>21</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>739</th>\n",
       "      <td>_RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)</td>\n",
       "      <td>175.118958</td>\n",
       "      <td>2.989494e+06</td>\n",
       "      <td>20</td>\n",
       "      <td>-0.348535</td>\n",
       "      <td>-0.000061</td>\n",
       "      <td>y1+</td>\n",
       "      <td>21</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>740 rows × 9 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                     modified_sequence          mz     intensity  \\\n",
       "0    _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  110.071243  1.006920e+07   \n",
       "1    _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  111.074463  4.443796e+05   \n",
       "2    _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  112.087112  6.159941e+05   \n",
       "3    _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  113.070869  1.202546e+05   \n",
       "4    _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  114.102188  1.011716e+05   \n",
       "..                                 ...         ...           ...   \n",
       "735  _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  304.133606  5.126084e+05   \n",
       "736  _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  510.207184  7.633365e+05   \n",
       "737  _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  439.170074  8.596875e+05   \n",
       "738  _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  220.088669  1.208201e+05   \n",
       "739  _RPAGSVQNPVYHNQPLNPAPS[+80]R_(4+)  175.118958  2.989494e+06   \n",
       "\n",
       "     fragment_site    ppm_err  mass_err ion_name mod_sites      color  \n",
       "0               -1   0.000000  0.000000        -        21  lightgrey  \n",
       "1               -1   0.000000  0.000000        -        21  lightgrey  \n",
       "2               -1   0.000000  0.000000        -        21  lightgrey  \n",
       "3               -1   0.000000  0.000000        -        21  lightgrey  \n",
       "4               -1   0.000000  0.000000        -        21  lightgrey  \n",
       "..             ...        ...       ...      ...       ...        ...  \n",
       "735             16  -2.107196 -0.000641     y5++        21  lightblue  \n",
       "736             17  13.517984  0.006897      y4+        21  lightblue  \n",
       "737             18  -4.099863 -0.001801      y3+        21  lightblue  \n",
       "738             18  -0.207991 -0.000046     y3++        21  lightblue  \n",
       "739             20  -0.348535 -0.000061      y1+        21  lightblue  \n",
       "\n",
       "[740 rows x 9 columns]"
      ]
     },
     "execution_count": 22,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "plot_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "metadata": {},
   "outputs": [],
   "source": [
    "xic_plotter.rt_sec_win = 360\n",
    "plot_df = make_query_plot_df_for_peptide(\n",
    "    phos_seq, phos_mods, phos_sites, \n",
    "    phos_charge, xic_rt_sec,\n",
    "    ms_level=2, include_precursor_isotopes=True\n",
    ")\n",
    "plot_df[\"color\"] = \"lightblue\"\n",
    "plot_df.loc[plot_df.fragment_site.isin(site_specific_idxes),\"color\"] = \"red\"\n",
    "fig = xic_plotter.plot(\n",
    "    phos_spec_df, phos_peak_df, plot_df.sort_values(\"color\"), \n",
    "    title=plot_df.modified_sequence.values[0]\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 24,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>mz</th>\n",
       "      <th>type</th>\n",
       "      <th>loss_type</th>\n",
       "      <th>charge</th>\n",
       "      <th>number</th>\n",
       "      <th>fragment_site</th>\n",
       "      <th>ion_name</th>\n",
       "      <th>sequence</th>\n",
       "      <th>mods</th>\n",
       "      <th>mod_sites</th>\n",
       "      <th>...</th>\n",
       "      <th>rt_sec</th>\n",
       "      <th>precursor_mz</th>\n",
       "      <th>precursor_i_0</th>\n",
       "      <th>precursor_i_1</th>\n",
       "      <th>precursor_i_2</th>\n",
       "      <th>precursor_i_3</th>\n",
       "      <th>precursor_i_4</th>\n",
       "      <th>precursor_i_5</th>\n",
       "      <th>precursor_mono_idx</th>\n",
       "      <th>color</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>157.108383</td>\n",
       "      <td>98</td>\n",
       "      <td>0.0</td>\n",
       "      <td>1.0</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0</td>\n",
       "      <td>b1+</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>2323.097900</td>\n",
       "      <td>121</td>\n",
       "      <td>0.0</td>\n",
       "      <td>1.0</td>\n",
       "      <td>21.0</td>\n",
       "      <td>0</td>\n",
       "      <td>y21+</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>1162.052612</td>\n",
       "      <td>121</td>\n",
       "      <td>0.0</td>\n",
       "      <td>2.0</td>\n",
       "      <td>21.0</td>\n",
       "      <td>0</td>\n",
       "      <td>y21++</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>254.161148</td>\n",
       "      <td>98</td>\n",
       "      <td>0.0</td>\n",
       "      <td>1.0</td>\n",
       "      <td>2.0</td>\n",
       "      <td>1</td>\n",
       "      <td>b2+</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>127.584213</td>\n",
       "      <td>98</td>\n",
       "      <td>0.0</td>\n",
       "      <td>2.0</td>\n",
       "      <td>2.0</td>\n",
       "      <td>1</td>\n",
       "      <td>b2++</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>83</th>\n",
       "      <td>620.806030</td>\n",
       "      <td>77</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>-1</td>\n",
       "      <td>M1</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>84</th>\n",
       "      <td>621.056885</td>\n",
       "      <td>77</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>-1</td>\n",
       "      <td>M2</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>85</th>\n",
       "      <td>621.307678</td>\n",
       "      <td>77</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>-1</td>\n",
       "      <td>M3</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>86</th>\n",
       "      <td>621.558533</td>\n",
       "      <td>77</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>-1</td>\n",
       "      <td>M4</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>87</th>\n",
       "      <td>621.809326</td>\n",
       "      <td>77</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>-1</td>\n",
       "      <td>M5</td>\n",
       "      <td>RPAGSVQNPVYHNQPLNPAPSR</td>\n",
       "      <td>Phospho@S</td>\n",
       "      <td>21</td>\n",
       "      <td>...</td>\n",
       "      <td>3303.972</td>\n",
       "      <td>620.555215</td>\n",
       "      <td>0.261768</td>\n",
       "      <td>0.336085</td>\n",
       "      <td>0.231848</td>\n",
       "      <td>0.113007</td>\n",
       "      <td>0.043388</td>\n",
       "      <td>0.013905</td>\n",
       "      <td>0</td>\n",
       "      <td>lightblue</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>88 rows × 22 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "             mz  type  loss_type  charge  number  fragment_site ion_name  \\\n",
       "0    157.108383    98        0.0     1.0     1.0              0      b1+   \n",
       "1   2323.097900   121        0.0     1.0    21.0              0     y21+   \n",
       "2   1162.052612   121        0.0     2.0    21.0              0    y21++   \n",
       "3    254.161148    98        0.0     1.0     2.0              1      b2+   \n",
       "4    127.584213    98        0.0     2.0     2.0              1     b2++   \n",
       "..          ...   ...        ...     ...     ...            ...      ...   \n",
       "83   620.806030    77        0.0     0.0     0.0             -1       M1   \n",
       "84   621.056885    77        0.0     0.0     0.0             -1       M2   \n",
       "85   621.307678    77        0.0     0.0     0.0             -1       M3   \n",
       "86   621.558533    77        0.0     0.0     0.0             -1       M4   \n",
       "87   621.809326    77        0.0     0.0     0.0             -1       M5   \n",
       "\n",
       "                  sequence       mods mod_sites  ...    rt_sec precursor_mz  \\\n",
       "0   RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "1   RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "2   RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "3   RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "4   RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "..                     ...        ...       ...  ...       ...          ...   \n",
       "83  RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "84  RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "85  RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "86  RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "87  RPAGSVQNPVYHNQPLNPAPSR  Phospho@S        21  ...  3303.972   620.555215   \n",
       "\n",
       "    precursor_i_0  precursor_i_1  precursor_i_2  precursor_i_3  precursor_i_4  \\\n",
       "0        0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "1        0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "2        0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "3        0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "4        0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "..            ...            ...            ...            ...            ...   \n",
       "83       0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "84       0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "85       0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "86       0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "87       0.261768       0.336085       0.231848       0.113007       0.043388   \n",
       "\n",
       "    precursor_i_5  precursor_mono_idx      color  \n",
       "0        0.013905                   0  lightblue  \n",
       "1        0.013905                   0  lightblue  \n",
       "2        0.013905                   0  lightblue  \n",
       "3        0.013905                   0  lightblue  \n",
       "4        0.013905                   0  lightblue  \n",
       "..            ...                 ...        ...  \n",
       "83       0.013905                   0  lightblue  \n",
       "84       0.013905                   0  lightblue  \n",
       "85       0.013905                   0  lightblue  \n",
       "86       0.013905                   0  lightblue  \n",
       "87       0.013905                   0  lightblue  \n",
       "\n",
       "[88 rows x 22 columns]"
      ]
     },
     "execution_count": 24,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "plot_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  }
 ],
 "metadata": {
  "kernelspec": {
   "display_name": "base",
   "language": "python",
   "name": "python3"
  },
  "language_info": {
   "codemirror_mode": {
    "name": "ipython",
    "version": 3
   },
   "file_extension": ".py",
   "mimetype": "text/x-python",
   "name": "python",
   "nbconvert_exporter": "python",
   "pygments_lexer": "ipython3",
   "version": "3.9.12"
  }
 },
 "nbformat": 4,
 "nbformat_minor": 2
}