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obophenotype / bio-attribute-ontology

source files for OBA (Ontology of Biological Attributes)
https://obophenotype.github.io/bio-attribute-ontology
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Umbrella ticket for EFO/GWAS clinical temporal measurement-related traits #105

Open rays22 opened 2 years ago

rays22 commented 2 years ago

Create separate tickets for creating DOS-DP trait patterns related to

These trait patterns would be used by GWAS.

rays22 commented 1 year ago

There are 29 EFO Clinical temporal measurement combined terms to align with OBA :

  CLINICAL-TEMPORAL-TERM CLIN-TEMP-TERM-ID DISEASE-TERM DISEASE-TERM-ID MONDO_HP-TERM-ID SUGGESTED-COMBINED-TERM PMIDS
1 age at onset EFO_0004847 cannabis use EFO_0007585 MONDO:0005689 age at onset of cannabis use 25987507|30003630
2 age at onset EFO_0004847 smoking initiation EFO_0005670 MONDO:0008575 age at smoking initiation 24665060|31089300
3 age at diagnosis EFO_0004918 cardiac arrhythmia EFO_0004269 MONDO:0007263 age at onset of cardiac arrhythmia 32589924
4 age at diagnosis EFO_0004918 hernia of the abdominal wall HP_0004299 HP:0004299 age at onset of hernia of the abdominal wall 32589924
5 disease prognosis measurement EFO_0007936 urinary bladder carcinoma MONDO_0004986 MONDO:0004986 urinary bladder carcinoma prognosis measurement 31277774
6 disease prognosis measurement EFO_0007936 Crohn's disease EFO_0000384 MONDO:0005011 Crohn's disease prognosis measurement 28067912|29905830
7 disease prognosis measurement EFO_0007936 non-small cell lung carcinoma EFO_0003060 MONDO:0005233 non-small cell lung carcinoma prognosis measurement 34002017
8 disease progression measurement EFO_0008336 HIV infection EFO_0000764 MONDO:0005109 HIV progression measurement 28132517
9 disease progression measurement EFO_0008336 non-small cell lung carcinoma EFO_0003060 MONDO:0005233 non-small-cell lung cancer progression measurement 30207284
10 disease progression measurement EFO_0008336 rheumatoid arthritis EFO_0000685 MONDO:0008383 rheumatoid arthritis progression measurement 29065906
11 disease progression measurement EFO_0008336 adolescent idiopathic scoliosis EFO_0005423 MONDO:0005488 adolescent idiopathic scoliosis progression measurement 29016859
12 disease progression measurement EFO_0008336 age-related macular degeneration EFO_0001365 MONDO:0005150 age-related macular degeneration progression measurement 29346644|33751636
13 disease progression measurement EFO_0008336 cerebral microbleeds EFO_0010059 ?? cerebral microbleed progression measurement 31209788
14 disease progression measurement EFO_0008336 Churg-Strauss syndrome EFO_0007208 MONDO:0015943 Churg-Strauss syndrome progression measurement 32009195
15 disease progression measurement EFO_0008336 colorectal cancer EFO_0005842 MONDO:0005575 colorectal cancer progression measurement 30738427
16 disease progression measurement EFO_0008336 Crohn's disease EFO_0000384 MONDO:0005011 Crohn's disease progression measurement 30801121
17 disease progression measurement EFO_0008336 Duchenne muscular dystrophy Orphanet_98896 MONDO:0010679 Duchenne muscular dystrophy progression measurement 30014611
18 disease progression measurement EFO_0008336 Huntington disease Orphanet_399 MONDO:0007739 Huntington disease progression measurement 28642124
19 disease progression measurement EFO_0008336 Parkinson disease MONDO_0005180 MONDO:0005180 Parkinson disease progression measurement 33111402|33958783
20 disease progression measurement EFO_0008336 periprosthetic osteolysis EFO_0009761 ??HP:0002797 periprosthetic osteolysis progression measurement 30794219
21 disease progression measurement EFO_0008336 urinary bladder carcinoma MONDO_0004986 MONDO:0004986 bladder carcinoma progression measurement 31277774
22 disease recurrence EFO_0004952 malaria EFO_0001068 MONDO:0005136 malaria recurrence 31667592|32433338
23 disease recurrence EFO_0004952 multiple sclerosis MONDO_0005301 MONDO:0005301 multiple sclerosis recurrence 28739605|33704824
24 family history EFO_0000493 coronary artery disease EFO_0001645 MONDO:0005010 family history of coronary artery disease 33766035
25 illness severity status EFO_0007863 hand, foot and mouth disease EFO_0007294 MONDO:0005779 hand, foot and mouth disease severity measurement 32634583
26 remission EFO_0009785 non-alcoholic steatohepatitis EFO_1001249 MONDO:0007027 non-alcoholic steatohepatitis remission 31832568
27 remission EFO_0009785 asthma MONDO_0004979 MONDO:0004979 asthma remission 29786918
28 remission EFO_0009785 hepatitis C virus infection EFO_0003047 MONDO:0005231 hepatitis C virus remission 30593799|33119750
29 remission EFO_0009785 unipolar depression EFO_0003761 MONDO:0002009 unipolar depression remission 33589590