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Labels from xrefs being used as term label #91

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Robbie1977 opened this issue Aug 1, 2024 · 0 comments
Open

Labels from xrefs being used as term label #91

Robbie1977 opened this issue Aug 1, 2024 · 0 comments
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@Robbie1977
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This Affects GO and SO in VFB:
The SO ones are easiest to spot:

c.label c.label_rdfs[0] c.short_form
56 "wiki" "wild_type"
57 "wiki" "syntenic"
58 "wiki" "orthologous_region"
59 "wiki" "paralogous_region"
60 "wiki" "rolling_circle"
61 "wiki" "insertion_sequence"
62 "wiki" "vault_RNA"
63 "wiki" "Y_RNA"
64 "wiki" "twintron"
65 "wiki" "cytosolic_18S_rRNA"
66 "wiki" "vector_replicon"
67 "wiki" "signal_peptide"
68 "wiki" "restriction_fragment"
69 "wiki" "tmRNA"
70 "wiki" "group_I_intron"
71 "wiki" "Hoogsteen_base_pair"
72 "wiki" "retrotransposed"
73 "wiki" "Shine_Dalgarno_sequence"
74 "wiki" "helitron"
75 "wiki" "intergenic_region"
76 "wiki" "oligo"
77 "wiki" "siRNA"
78 "wiki" "minisatellite"
79 "wiki" "antisense_RNA"
80 "wiki" "polycistronic_mRNA"
81 "wiki" "telomere"
82 "wiki" "insulator"
83 "wiki" "A_box"
84 "Insertion" "insertion"
85 "wiki" "dispersed_repeat"
86 "cytosolic_SSU_rRNA" "small_subunit_rRNA"
87 "wiki" "cytosolic_28S_rRNA"
88 "wiki" "ncRNA"
89 "wiki" "oriT"
90 "wiki" "intein"
91 "wiki" "DNA_motif"
92 "wiki" "cDNA"
93 "wiki" "plasmid_vector"
94 "wiki" "kinetoplast"
95 "wiki" "predicted"
96 "wiki" "genomic_island"
97 "wiki" "G_quartet"
98 "wiki" "satellite_DNA"
99 "wiki" "locus_control_region"
100 "wiki" "K_turn_RNA_motif"
101 "wiki" "nuclear_gene"
102 "wiki" "mt_gene"
103 "wiki" "antisense"
104 "wiki" "probe"
105 "wiki" "aneuploid"
106 "wiki" "hyperploid"
107 "wiki" "operator"
108 "wiki" "transposable_element"
109 "wiki" "promoter"
110 "wiki" "clone"
111 "wiki" "phagemid"
112 "wiki" "fosmid"
113 "wiki" "terminator"
114 "wiki" "exon"
115 "wiki" "genomically_imprinted"
116 "wiki" "RFLP_fragment"
117 "wiki" "retrotransposon"
118 "wiki" "CAAT_signal"
119 "wiki" "TATA_box"
120 "wiki" "minus_10_signal"
121 "wiki" "operon"
122 "wiki" "mature_transcript"
123 "wiki" "mRNA"
124 "wiki" "fusion_gene"
125 "wiki" "microsatellite"
126 "wiki" "snRNA"
127 "wiki" "miRNA"
128 "wiki" "SINE_element"
129 "WIKI" "simple_sequence_length_variation"
130 "wiki" "five_prime_UTR"
131 "wiki" "origin_of_replication"
132 "wiki" "D_loop"
133 "wiki" "integron"
134 "wiki" "floxed"
135 "wiki" "chromosome"
136 "wiki" "telomerase_RNA"
137 "wiki" "U1_snRNA"
138 "wiki" "U2_snRNA"
139 "wiki" "U5_snRNA"
140 "wiki" "U11_snRNA"
141 "wiki" "U12_snRNA"
142 "wiki" "MicF_RNA"
143 "wiki" "OxyS_RNA"
144 "wiki" "spot_42_RNA"
145 "wiki" "ribozyme"
146 "wiki" "cytosolic_5_8S_rRNA"
147 "wiki" "GcvB_RNA"
148 "wiki" "start_codon"
149 "wiki" "direct_repeat"
150 "wiki" "CpG_island"
151 "Tret1" "Tret1-1"
152 "wiki" "synonymous_variant"
153 "wiki" "AFLP_fragment"
154 "VAT" "inframe_insertion"
155 "wiki" "lysidine"
156 "Initiating Methionine" "initiator_codon_variant"
157 "Frameshift" "frameshift_variant"
158 "VAT" "structural_variant"
159 "reference genome sequence" "reference_genome"
160 "wikipedia" "sequence_motif"
161 "wiki" "wobble_base_pair"
162 "wiki" "silent_mutation"
163 "wiki" "epitope"
164 "wiki" "tetraloop"
165 "wiki" "phage_sequence"
166 "wiki" "piRNA"
167 "wiki" "genotype"
168 "wiki" "post_translationally_modified_region"
169 "wiki" "coiled_coil"
170 "wiki" "polypeptide_structural_motif"
171 "wiki" "three_ten_helix"
172 "wiki" "beta_strand"
173 "wiki" "pi_helix"
174 "wiki" "alpha_helix"
175 "wiki" "TNA_oligo"
176 "wiki" "GNA_oligo"
177 "wiki" "AU_rich_element"
178 "wiki" "LNA_oligo"
179 "wiki" "translational_frameshift"
180 "wiki" "group_III_intron"
181 "wiki" "autopolyploid"
182 "wiki" "polyploid"
183 "wiki" "assembly"
184 "wiki" "mobile"
185 "wiki" "amino_acid"
186 "wiki" "base"
187 "wiki" "pseudouridine"
188 "wiki" "primer_binding_site"
189 "wiki" "gene_cassette"
190 "wiki" "regulatory_region"

@Clare72 has spotted this before having the label on the xrefs seems to cause this issue on scRNAseq data

Robbie1977 added a commit to VirtualFlyBrain/vfb-pipeline-polishing that referenced this issue Aug 1, 2024
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