diff --git a/midas-data.owl b/midas-data.owl
index 46df9d7..5e8cb44 100644
--- a/midas-data.owl
+++ b/midas-data.owl
@@ -17,10 +17,10 @@
xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"
xmlns:apollo_sv="http://purl.obolibrary.org/obo/apollo_sv.owl/">
-
+
An ontology of midas data types.
Testing automated release process by editing the midas-data-edit.owl file.
- 2023-08-23
+ 2024-02-27
@@ -577,6 +577,121 @@ By "similar vaccines" we typically mean same pathogen, but could be si
+
+
+
+
+ A count of cases in an epidemic that is about the entire temporal interval occupied by the epidemic.
+ William R. Hogan
+ A count of cases from the beginning of the epidemic until recently.
+ The count is also nearly always geographically localized, for example, the case count for the state of Pennsylvania or the case count for Waukesha County, Wisconsin.
+ cumulative epidemic case count
+
+
+
+
+
+
+
+
+ A count of cases in an epidemic that is about a proper part of the temporal interval occupied by the epidemic.
+ William R. Hogan
+ A count of cases in an epidemic that spans a shorter interval, such as a particular day or a week.
+ Incident case counts are measured according to regular intervals, typically day or week.
+ The count is also nearly always geographically localized, for example, the case count for the state of Pennsylvania or the case count for Waukesha County, Wisconsin.
+ incident epidemic case count
+
+
+
+
+
+
+
+
+ A count of infections in a population where the infections are an occurrent part of the same epidemic, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic infection count
+
+
+
+
+
+
+
+
+ A count of infections in a population where the infections are an occurrent part of the same epidemic, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic infection count
+
+
+
+
+
+
+
+
+ A count of deaths in a population where the deaths are an occurrent part of the same epidemic, the deaths are attributed to the epidemic disease, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic death count
+
+
+
+
+
+
+
+
+ A count of deaths in a population where the deaths are an occurrent part of the same epidemic, the deaths are attributed to the epidemic disease, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic death count
+
+
+
+
+
+
+
+
+ A count of hospitalizations in a population where the hospitalizations are an occurrent part of the same epidemic, the hospitalizations are attributed to the epidemic disease, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic hospitalization count
+
+
+
+
+
+
+
+
+ A count of hospitalizations in a population where the hospitalizations are an occurrent part of the same epidemic, the hospitalizations are attributed to the epidemic disease, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic hospitalization count
+
+
+
+
+
+
+
+
+ A count of vaccinations in a population where the vaccinations are an occurrent part of the same epidemic, the vaccinations are against the type of pathogen causing the epidemic, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic vaccination count
+
+
+
+
+
+
+
+
+ A count of vaccinations in a population where the vaccinations are an occurrent part of the same epidemic, the vaccinations are against the type of pathogen causing the epidemic, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic vaccination count
+
+
+
+
@@ -746,6 +861,22 @@ interpreted by or directly executed by a processing unit.
+
+
+
+
+ A quality that inheres in an organism population and is the number of organisms in the population that have antibod
+y specific for an infectious agent in their serum at a specified time.
+ Albert Goldfain
+ Alexander Diehl
+ Lindsay Cowell
+ Prevalence is sometimes defined as a proportion with total population size in the denominator. A particular instance of infectious
+agent seroprevalence will depend on a type of infectious agent and a population. Actual measures of seroprevalence are based only on tested individuals and usually specify a geographic location. Other constraints may include population demographics.
+ infectious agent seroprevalence
+
+
+
+
diff --git a/src/ontology/imports/apollo-sv_import.owl b/src/ontology/imports/apollo-sv_import.owl
index 00fb540..4a27cfe 100644
--- a/src/ontology/imports/apollo-sv_import.owl
+++ b/src/ontology/imports/apollo-sv_import.owl
@@ -27,7 +27,7 @@
082D5D78-D916-457E-B4FD-365F86F45B30
When citing Apollo-SV, use the permanent URL of the ontology: http://purl.obolibrary.org/obo/apollo_sv.owl. When referencing a specific component of the Apollo-SV such as a class, object property, annotation property, or individual, use the component's Uniform Resource Identifier (URI).
2023-01-10
- 2023-06-02
+ 2024-02-23
@@ -407,6 +407,111 @@ By "similar vaccines" we typically mean same pathogen, but could be si
sewage surveillance data
wastewater surveillance data set
+
+
+
+
+
+
+ A count of cases in an epidemic that is about the entire temporal interval occupied by the epidemic.
+ William R. Hogan
+ A count of cases from the beginning of the epidemic until recently.
+ The count is also nearly always geographically localized, for example, the case count for the state of Pennsylvania or the case count for Waukesha County, Wisconsin.
+ cumulative epidemic case count
+
+
+
+
+
+
+
+ A count of cases in an epidemic that is about a proper part of the temporal interval occupied by the epidemic.
+ William R. Hogan
+ A count of cases in an epidemic that spans a shorter interval, such as a particular day or a week.
+ Incident case counts are measured according to regular intervals, typically day or week.
+ The count is also nearly always geographically localized, for example, the case count for the state of Pennsylvania or the case count for Waukesha County, Wisconsin.
+ incident epidemic case count
+
+
+
+
+
+
+
+ A count of infections in a population where the infections are an occurrent part of the same epidemic, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic infection count
+
+
+
+
+
+
+
+ A count of infections in a population where the infections are an occurrent part of the same epidemic, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic infection count
+
+
+
+
+
+
+
+ A count of deaths in a population where the deaths are an occurrent part of the same epidemic, the deaths are attributed to the epidemic disease, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic death count
+
+
+
+
+
+
+
+ A count of deaths in a population where the deaths are an occurrent part of the same epidemic, the deaths are attributed to the epidemic disease, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic death count
+
+
+
+
+
+
+
+ A count of hospitalizations in a population where the hospitalizations are an occurrent part of the same epidemic, the hospitalizations are attributed to the epidemic disease, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic hospitalization count
+
+
+
+
+
+
+
+ A count of hospitalizations in a population where the hospitalizations are an occurrent part of the same epidemic, the hospitalizations are attributed to the epidemic disease, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic hospitalization count
+
+
+
+
+
+
+
+ A count of vaccinations in a population where the vaccinations are an occurrent part of the same epidemic, the vaccinations are against the type of pathogen causing the epidemic, and the temporal region over which the count is made is the region occupied by the entire epidemic.
+ William R. Hogan
+ cumulative epidemic vaccination count
+
+
+
+
+
+
+
+ A count of vaccinations in a population where the vaccinations are an occurrent part of the same epidemic, the vaccinations are against the type of pathogen causing the epidemic, and the temporal region over which the count is made is a proper part of the region occupied by the entire epidemic.
+ William R. Hogan
+ incident epidemic vaccination count
+
diff --git a/src/ontology/imports/ncbitaxon_import.owl b/src/ontology/imports/ncbitaxon_import.owl
index d46af9a..0dd43f9 100644
--- a/src/ontology/imports/ncbitaxon_import.owl
+++ b/src/ontology/imports/ncbitaxon_import.owl
@@ -7,7 +7,7 @@
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#">
- 2023-06-20
+ 2023-12-12
diff --git a/src/ontology/imports/seed.txt b/src/ontology/imports/seed.txt
index 3f87c06..ad308f6 100644
--- a/src/ontology/imports/seed.txt
+++ b/src/ontology/imports/seed.txt
@@ -20,6 +20,16 @@ APOLLO_SV:00000610
APOLLO_SV:00000613
APOLLO_SV:00000614
APOLLO_SV:00000618
+APOLLO_SV:00000622
+APOLLO_SV:00000623
+APOLLO_SV:00000631
+APOLLO_SV:00000632
+APOLLO_SV:00000633
+APOLLO_SV:00000634
+APOLLO_SV:00000629
+APOLLO_SV:00000630
+APOLLO_SV:00000635
+APOLLO_SV:00000636
NCBITaxon:11676
NCBITaxon:5820
NCBITaxon:1773
@@ -47,3 +57,4 @@ MONDO:0005502
MONDO:0002282
MONDO:0018661
MONDO:0001577
+IDO:0000488
diff --git a/src/ontology/midas-data-edit.owl b/src/ontology/midas-data-edit.owl
index 1b158c1..78f8e28 100644
--- a/src/ontology/midas-data-edit.owl
+++ b/src/ontology/midas-data-edit.owl
@@ -416,6 +416,86 @@
+
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+
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+
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+
+
+
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+
+
+
+
+
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+
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+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
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+
+
@@ -585,6 +665,22 @@ interpreted by or directly executed by a processing unit.
+
+
+
+
+ A quality that inheres in an organism population and is the number of organisms in the population that have antibod
+y specific for an infectious agent in their serum at a specified time.
+ Albert Goldfain
+ Alexander Diehl
+ Lindsay Cowell
+ Prevalence is sometimes defined as a proportion with total population size in the denominator. A particular instance of infectious
+agent seroprevalence will depend on a type of infectious agent and a population. Actual measures of seroprevalence are based only on tested individuals and usually specify a geographic location. Other constraints may include population demographics.
+ infectious agent seroprevalence
+
+
+
+
@@ -1686,5 +1782,5 @@ last accessed: 14/01/2014
-
+