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November 2024 release (#8305)
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@sabrinatoro
sabrinatoro authored Nov 5, 2024
1 parent 39da5ee commit 9f1db0b
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Showing 96 changed files with 66,515 additions and 63,826 deletions.
945 changes: 552 additions & 393 deletions imports/equivalencies.json
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465 changes: 250 additions & 215 deletions imports/equivalencies.obo
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1,389 changes: 846 additions & 543 deletions imports/equivalencies.owl
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248 changes: 196 additions & 52 deletions imports/merged_import.owl
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384 changes: 260 additions & 124 deletions reports/basic-report.tsv
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12 changes: 6 additions & 6 deletions reports/class-count-by-prefix.tsv
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@ prefix numberOfClasses
"ENVO" 460
"MAXO" 115
"CHR" 310
"MONDO" 29628
"MONDO" 29699
"ECTO" 421
"IAO" 27
"NCIT" 84
Expand All @@ -12,14 +12,14 @@ prefix numberOfClasses
"UBERON" 5348
"RO" 2
"NBO" 116
"" 4017
"" 4070
"FOODON" 201
"HsapDv" 86
"HP" 4820
"GO" 4068
"GO" 4073
"OGMS" 5
"MFOMD" 12
"NCBITaxon" 1868
"CL" 1196
"NCBITaxon" 1869
"CL" 1200
"CHEBI" 1214
"PATO" 399
"PATO" 401
133 changes: 109 additions & 24 deletions reports/class-stats.tsv
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59,079 changes: 29,666 additions & 29,413 deletions reports/edges.tsv
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3 changes: 3 additions & 0 deletions reports/obsoletes.tsv
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Expand Up @@ -11,6 +11,7 @@ CL:0000548 CL:0000000
CL:0002371 CL:0000000
CL:0002609 CL:0010012
CL:0008030
CL:0010003 CL:0000322
CL:0017505 PATO:0040072
CL:1000416 CL:0002324
CL:2000082 CL:2000045
Expand Down Expand Up @@ -1918,6 +1919,7 @@ MONDO:0010530 "MONDO:0001046"
MONDO:0010582
MONDO:0010593 "MONDO:0015942"
MONDO:0010594
MONDO:0010595 "MONDO:0056795"
MONDO:0010601 "MONDO:0007690"
MONDO:0010601 "MONDO:0010720"
MONDO:0010609 "MONDO:0016294"
Expand Down Expand Up @@ -2220,6 +2222,7 @@ MONDO:0015412
MONDO:0015415
MONDO:0015418
MONDO:0015423 "MONDO:0006468"
MONDO:0015424 "MONDO:0009253"
MONDO:0015429 "MONDO:0022737"
MONDO:0015442 "MONDO:0003582"
MONDO:0015444 "MONDO:0007340"
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4 changes: 1 addition & 3 deletions reports/obsoletion-candidates.tsv
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Expand Up @@ -41,14 +41,12 @@ MONDO:0009068 "cytochrome-c oxidase deficiency disease"
MONDO:0009453 "immune deficiency disease"
MONDO:0009455 "immunodeficiency, partial combined, with absence of HLA Determinants and beta-2-microglobulin from lymphocytes"
MONDO:0009714 "myosclerosis"
MONDO:0010595 "Sertoli cell-only syndrome"
MONDO:0011893 "autosomal dominant nonsyndromic hearing loss 52"
MONDO:0015083 "nuclear oculomotor paralysis"
MONDO:0015174 "autoimmune enteropathy type 3"
MONDO:0015256 "blepharoptosis-cleft palate-ectrodactyly-dental anomalies syndrome"
MONDO:0015257 "sino-auricular heart block"
MONDO:0015422 "orofaciodigital syndrome type 13"
MONDO:0015424 "lethal chondrodysplasia, Moerman type"
MONDO:0015468 "craniosynostosis-cataract syndrome"
MONDO:0015559 "lymphoadenopathic mastocytosis with eosinophilia"
MONDO:0015907 "epimetaphyseal skeletal dysplasia"
Expand Down Expand Up @@ -363,6 +361,7 @@ MONDO:0042965 "Machado-Joseph disease type 5"
MONDO:0042973 "familial osteosclerosis"
MONDO:0043108 "infantile striato thalamic degeneration"
MONDO:0044201 "T+ B+ severe combined immunodeficiency"
MONDO:0044715 "metopic ridging-ptosis-facial dysmorphism syndrome"
MONDO:0044763 "diarrheal disease secondary to decreased bowel motility"
MONDO:0044880 "cystic tumor of the pancreas"
MONDO:0045004 "skeletal ligament disorder"
Expand All @@ -374,7 +373,6 @@ MONDO:0100020 "atypical childhood epilepsy with centrotemporal spikes"
MONDO:0100021 "photosensitive occipital lobe epilepsy"
MONDO:0100022 "neonatal/infantile epilepsy syndrome"
MONDO:0100026 "myoclonic encephalopathy in non-progressive disorder"
MONDO:0100029 "antibody mediated epilepsy"
MONDO:0100030 "adolescent/adult-onset epilepsy syndrome"
MONDO:0100052 "acetazolamide-responsive hereditary episodic ataxia"
MONDO:0100066 "TH-deficient progressive infantile encephalopathy"
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55 changes: 53 additions & 2 deletions reports/root-classes.tsv
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@@ -1,36 +1,87 @@
c n
http://identifiers.org/ncbigene/281917
GO:0005575 "cellular_component"
SO:0000110 "sequence_feature"
http://identifiers.org/ncbigene/509837
http://identifiers.org/ncbigene/100472661
NCBITaxon:61379
BFO:0000001 "entity"@en
http://identifiers.org/ncbigene/489479
NCIT:C7057 "Disease, Disorder or Finding"
http://identifiers.org/ncbigene/100127354
http://identifiers.org/ncbigene/534319
http://identifiers.org/ncbigene/407142
http://identifiers.org/ncbigene/479346
MAXO:0000001 "medical action"@en
http://identifiers.org/ncbigene/475010
FOODON:03411047 "grain or seed-producing plant"@en
http://identifiers.org/ncbigene/102138674
http://identifiers.org/ncbigene/102135998
http://identifiers.org/ncbigene/397323
FOODON:03411564 "organism by alternate grouping"@en
http://identifiers.org/ncbigene/100049347
http://identifiers.org/ncbigene/476649
SO:0000400 "sequence_attribute"
http://identifiers.org/ncbigene/478798
FOODON:03411013 "plant used for producing extract or concentrate"@en
http://identifiers.org/ncbigene/397036
http://identifiers.org/ncbigene/476336
FOODON:03420178 "seed part"@en
http://identifiers.org/ncbigene/476548
http://identifiers.org/ncbigene/119881609
NCBITaxon:77151
http://identifiers.org/ncbigene/782170
http://identifiers.org/ncbigene/282179
HP:0000001 "All"
CHEBI:50906 "role"
http://identifiers.org/ncbigene/101833915
http://identifiers.org/ncbigene/574011
http://identifiers.org/ncbigene/100427716
http://identifiers.org/ncbigene/103347222
http://identifiers.org/ncbigene/488635
http://identifiers.org/ncbigene/101926677
NBO:0000243 "behavioral phenotype"
http://identifiers.org/ncbigene/100423163
http://identifiers.org/ncbigene/403407
NCBITaxon:60468
FOODON:03420167 "fruit part"@en
http://identifiers.org/ncbigene/101926433
http://identifiers.org/ncbigene/507654
NCBITaxon:151758
http://identifiers.org/ncbigene/100401034
CHEBI:24431 "chemical entity"
NCBITaxon:9646
NCIT:C43431 "Activity"
NCIT:C17828 "Biological Process"
CHEBI:36342 "subatomic particle"
NCBITaxon:1 "root"
http://identifiers.org/ncbigene/480409
http://identifiers.org/ncbigene/100407052
http://identifiers.org/ncbigene/478239
NCIT:C12219 "Anatomic Structure, System, or Substance"
GO:0008150 "biological_process"
http://identifiers.org/ncbigene/100298265
http://identifiers.org/ncbigene/477604
http://identifiers.org/ncbigene/484949
http://identifiers.org/ncbigene/780411
http://identifiers.org/ncbigene/488853
http://identifiers.org/ncbigene/100520674
http://identifiers.org/ncbigene/397663
http://identifiers.org/ncbigene/483706
GO:0003674 "molecular_function"
NCIT:C20181 "Conceptual Entity"
http://identifiers.org/ncbigene/479129
HsapDv:0000000 "life cycle stage"
SO:0001260 "sequence_collection"
NCIT:C12913 "Abnormal Cell"
http://identifiers.org/ncbigene/100626812
http://identifiers.org/ncbigene/403159
http://identifiers.org/ncbigene/100345295
http://identifiers.org/ncbigene/100739753
http://identifiers.org/ncbigene/100393557
http://identifiers.org/ncbigene/483870
http://identifiers.org/ncbigene/488381
http://identifiers.org/ncbigene/474985
http://identifiers.org/ncbigene/525795
http://identifiers.org/ncbigene/101150212
http://identifiers.org/ncbigene/397276
http://identifiers.org/ncbigene/479277
MONDO:0021178 "injury"
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