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RGD DISEASE ONTOLOGY - ANNOTATIONS

RGD uses the Human Disease Ontology (DO, https://disease-ontology.org/) for disease curation across species. RGD automatically downloads each new release of the ontology on a monthly basis. Some additional terms which are required for RGD's curation purposes but are not currently covered in the official version of DO have been added. As corresponding terms are added to DO, these custom terms are retired and the DO terms substituted in existing annotations and subsequently used for curation.
Term:commensal bacterial infectious disease
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Accession:DOID:0050339 term browser browse the term
Definition:A bacterial infectious disease that results_in infection by bacteria which are part of the normal human flora when one or more of the defense mechanisms designed to restrict them from the usually sterile internal tissues are breached by accident, by intent (surgery), or by an underlying metabolic or an infectious disorder. (DO)
Synonyms:primary_id: RDO:9002545

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chlamydia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cd40 CD40 molecule ISO RGD PMID:20102413 RGD:5132268 NCBI chrNW_004936514:6,936,915...6,947,246
Ensembl chrNW_004936514:6,936,572...6,947,280 		JBrowse link
G Foxp3 forkhead box P3 treatment ISO RGD PMID:30832593 RGD:38455984 NCBI chrNW_004936721:1,118,376...1,125,282
Ensembl chrNW_004936721:1,118,782...1,132,308 		JBrowse link
G Icam1 intercellular adhesion molecule 1 ISO mRNA:increased expression:lung (mouse) RGD PMID:19728926 RGD:4145507 NCBI chrNW_004936659:616,570...627,172
Ensembl chrNW_004936659:616,752...627,174 		JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 treatment ISO mRNA:increased expression:lung (mouse) RGD PMID:30832593 PMID:31249813 RGD:38455984 RGD:39938856 NCBI chrNW_004936843:658,058...672,662
Ensembl chrNW_004936843:657,979...672,700 		JBrowse link
G Ifng interferon gamma ISO CTD Direct Evidence: marker/mechanism CTD PMID:19203382 NCBI chrNW_004936545:6,139,130...6,144,543
Ensembl chrNW_004936545:6,139,116...6,148,452 		JBrowse link
G Il13 interleukin 13 ISO RGD PMID:21573182 RGD:5684365 NCBI chrNW_004936647:2,529,933...2,532,503
Ensembl chrNW_004936647:2,530,491...2,532,373 		JBrowse link
G Il17a interleukin 17A ISO associated with Bronchial Hyprractivity; mRNA:increased expression:lung RGD PMID:19812198 PMID:20228193 RGD:4888528 RGD:4889101 NCBI chrNW_004936476:8,621,860...8,625,008
Ensembl chrNW_004936476:8,621,860...8,625,008 		JBrowse link
G Tgfb1 transforming growth factor beta 1 treatment ISO RGD PMID:30832593 RGD:38455984 NCBI chrNW_004936661:3,742,080...3,758,266
Ensembl chrNW_004936661:3,742,066...3,758,272 		JBrowse link
G Tnf tumor necrosis factor ISO CTD Direct Evidence: marker/mechanism CTD PMID:19203382 NCBI chrNW_004936727:1,936,066...1,937,766
Ensembl chrNW_004936727:1,936,066...1,937,766 		JBrowse link
Chlamydia pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cd274 CD274 molecule ISO mRNA:increased expression:lung RGD PMID:26378990 RGD:41412180 NCBI chrNW_004936539:132,870...145,288
Ensembl chrNW_004936539:132,868...143,602 		JBrowse link
G Pdcd1 programmed cell death 1 ISO mRNA:increased expression:lung RGD PMID:26378990 RGD:41412180 NCBI chrNW_004936745:152,571...163,712
Ensembl chrNW_004936745:152,612...161,587 		JBrowse link
G Pik3cd phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta severity ISO RGD PMID:29893841 RGD:40890270 NCBI chrNW_004936623:3,672,201...3,696,959 JBrowse link
gas gangrene term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gsn gelsolin ISO protein:decreased expression:blood serum (human) RGD PMID:9142022 RGD:329333022 NCBI chrNW_004936487:9,749,755...9,802,787
Ensembl chrNW_004936487:9,764,944...9,802,841 		JBrowse link
toxic shock syndrome term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Adk adenosine kinase ISO RGD PMID:8207212 RGD:6482670 NCBI chrNW_004936521:4,560,078...5,023,780
Ensembl chrNW_004936521:4,557,971...5,023,800 		JBrowse link
G Adm adrenomedullin ISO RGD PMID:17318497 PMID:17766482 RGD:1625310 RGD:1642599 NCBI chrNW_004936528:8,005,223...8,007,586
Ensembl chrNW_004936528:8,005,189...8,007,643 		JBrowse link
G Adrb2 adrenoceptor beta 2 treatment
disease_progression 		ISO DNA:polymorphism: :rs1042717(human) RGD PMID:16076286 PMID:19850944 RGD:8548487 RGD:8548529 NCBI chrNW_004936504:5,985,407...5,987,453
Ensembl chrNW_004936504:5,985,960...5,987,210 		JBrowse link
G Ager advanced glycosylation end-product specific receptor ISO RGD PMID:21270403 RGD:6767566 NCBI chrNW_004936727:1,418,342...1,422,005
Ensembl chrNW_004936727:1,418,799...1,422,147 		JBrowse link
G Aqp1 aquaporin 1 (Colton blood group) ISO CTD Direct Evidence: marker/mechanism CTD PMID:24028651 NCBI chrNW_004936478:7,146,997...7,160,369
Ensembl chrNW_004936478:7,147,027...7,160,401 		JBrowse link
G C5ar1 complement C5a receptor 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:18063050 NCBI chrNW_004936664:1,026,216...1,033,438
Ensembl chrNW_004936664:1,032,304...1,033,374 		JBrowse link
G Cckbr cholecystokinin B receptor ISO mRNA:increased expression:myocardium RGD PMID:15948246 RGD:2311332 NCBI chrNW_004936842:329,551...341,491
Ensembl chrNW_004936842:329,376...341,808 		JBrowse link
G Cd274 CD274 molecule severity ISO protein:increased expression:serum
protein:increased expression:lymphocyte, mononcyte 		RGD PMID:26063974 PMID:29702526 RGD:40822808 RGD:41410786 NCBI chrNW_004936539:132,870...145,288
Ensembl chrNW_004936539:132,868...143,602 		JBrowse link
G Eno2 enolase 2 ISO proteiin:increased expression:serum RGD PMID:17083782 RGD:2293748 NCBI chrNW_004936709:904,647...913,445
Ensembl chrNW_004936709:904,031...913,451 		JBrowse link
G F2 coagulation factor II, thrombin severity ISO protein:decreased expression:blood plasma (human) RGD PMID:2788582 RGD:40822807 NCBI chrNW_004936562:2,371,725...2,388,617
Ensembl chrNW_004936562:2,372,044...2,388,650 		JBrowse link
G Fancc FA complementation group C ISO RGD PMID:17404312 RGD:11045879 NCBI chrNW_004936626:3,980,311...4,147,042
Ensembl chrNW_004936626:3,982,647...4,159,976 		JBrowse link
G Gc GC vitamin D binding protein ISO CTD Direct Evidence: marker/mechanism CTD PMID:17852808 NCBI chrNW_004936598:3,220,029...3,256,091
Ensembl chrNW_004936598:3,219,991...3,261,629 		JBrowse link
G Grk2 G protein-coupled receptor kinase 2 ISO mRNA:decreased expression:polymorphonuclear leukocyte RGD PMID:24465168 RGD:126848796 NCBI chrNW_004936599:2,437,061...2,456,141
Ensembl chrNW_004936599:2,437,032...2,456,147 		JBrowse link
G Hmox1 heme oxygenase 1 ISO RGD PMID:18208666 RGD:4145362 NCBI chrNW_004936492:5,042,353...5,049,216
Ensembl chrNW_004936492:5,042,330...5,049,311 		JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 severity ISO protein:increased activity, increased expression:plasma, heart (human) RGD PMID:21765346 RGD:39939075 NCBI chrNW_004936843:658,058...672,662
Ensembl chrNW_004936843:657,979...672,700 		JBrowse link
G Ifng interferon gamma ISO protein:increased expression:plasma RGD PMID:25403265 RGD:38455982 NCBI chrNW_004936545:6,139,130...6,144,543
Ensembl chrNW_004936545:6,139,116...6,148,452 		JBrowse link
G Il10 interleukin 10 onset
severity 		ISO protein:increased expression:plasma
protein:increased expression:lung (mouse) 		RGD PMID:7593621 PMID:12117955 PMID:25403265 PMID:28659355 RGD:11049456 RGD:1598471 RGD:38455982 RGD:40890272 NCBI chrNW_004936557:5,834,874...5,838,502
Ensembl chrNW_004936557:5,834,874...5,838,502 		JBrowse link
G Il19 interleukin 19 ISO protein:increased expression:serum RGD PMID:18246602 RGD:5037232 NCBI chrNW_004936557:5,765,093...5,769,853
Ensembl chrNW_004936557:5,765,093...5,769,853 		JBrowse link
G Il1b interleukin 1 beta severity ISO protein:increased expression:lung (mouse) RGD PMID:28659355 RGD:40890272 NCBI chrNW_004936783:1,251,678...1,256,807
Ensembl chrNW_004936783:1,252,158...1,257,165 		JBrowse link
G Il1rn interleukin 1 receptor antagonist susceptibility
treatment 		ISO associated with Precursor Cell Lymphoblastic Leukemia-Lymphoma;DNA:polymorphism::
human gene in a mouse model 		RGD PMID:15516267 PMID:23014359 RGD:11522756 RGD:8551736 NCBI chrNW_004936783:1,447,158...1,466,331
Ensembl chrNW_004936783:1,447,106...1,466,340 		JBrowse link
G Il20ra interleukin 20 receptor subunit alpha ISO mRNA:increased expression:multiple RGD PMID:18246602 RGD:5037232 NCBI chrNW_004936560:4,384,126...4,397,971
Ensembl chrNW_004936560:4,384,512...4,420,567 		JBrowse link
G Il27 interleukin 27 ISO protein, mRNA:increased expression:blood serum, spleen (mouse) RGD PMID:20435892 RGD:126790535 NCBI chrNW_004936501:11,972,715...11,978,152
Ensembl chrNW_004936501:11,973,385...11,976,583 		JBrowse link
G Il6 interleukin 6 treatment ISO RGD PMID:2124237 RGD:11060276 NCBI chrNW_004936549:7,015,595...7,016,246 JBrowse link
G LOC101955831 heat shock 70 kDa protein 1 susceptibility ISO associated wit community-acquired pneumonia;DNA:SNP: :1267A>G (human) RGD PMID:12771604 RGD:5147601 NCBI chrNW_004936727:1,718,952...1,721,691 JBrowse link
G LOC101959212 alpha-2-macroglobulin treatment ISO RGD PMID:2424486 RGD:10046036 NCBI chrNW_004936870:424,832...468,303
Ensembl chrNW_004936870:424,951...468,167 		JBrowse link
G LOC101961846 neutrophil elastase treatment ISO RGD PMID:18323746 RGD:10450579 NCBI chrNW_004936588:345,678...347,420
Ensembl chrNW_004936588:345,678...347,413 		JBrowse link
G LOC101968921 angiotensin-converting enzyme severity ISO DNA:SNP, insertion/deletion:promoter, intron: (rs4291, rs4646994) RGD PMID:28336767 RGD:39939121 NCBI chrNW_004936541:4,157,847...4,178,156
Ensembl chrNW_004936541:4,157,393...4,178,177 		JBrowse link
G LOC101969065 mamu class II histocompatibility antigen, DR alpha chain disease_progression ISO CTD Direct Evidence: marker/mechanism
associated with Burns 		CTD
RGD		 PMID:15644645 PMID:17568330 PMID:28771573 RGD:5490160 RGD:5490203 NCBI chrNW_004936727:540,225...544,968
Ensembl chrNW_004936727:540,217...545,036 		JBrowse link
G Mc2r melanocortin 2 receptor ISO protein:increased expression:liver (rat) RGD PMID:2822467 RGD:6484558 NCBI chrNW_004936626:3,253,100...3,254,002
Ensembl chrNW_004936626:3,253,112...3,253,999 		JBrowse link
G Mif macrophage migration inhibitory factor ISO RGD PMID:17381395 PMID:17565848 RGD:1641978 RGD:4891013 NCBI chrNW_004936619:1,207,058...1,208,010
Ensembl chrNW_004936619:1,203,746...1,208,442 		JBrowse link
G Nfkbia NFKB inhibitor alpha treatment ISO RGD PMID:11961112 RGD:126928137 NCBI chrNW_004936494:9,537,793...9,541,187
Ensembl chrNW_004936494:9,537,008...9,541,612 		JBrowse link
G Nos2 nitric oxide synthase 2 ISO CTD Direct Evidence: marker/mechanism CTD
RGD		 PMID:8745224 PMID:16601845 RGD:1580268 NCBI chrNW_004936538:4,052,277...4,097,051
Ensembl chrNW_004936538:4,052,448...4,097,051 		JBrowse link
G Nppc natriuretic peptide C ISO protein:increased expression:plasma RGD PMID:8117275 RGD:1642297 NCBI chrNW_004936525:5,092,675...5,099,344
Ensembl chrNW_004936525:5,092,635...5,099,331 		JBrowse link
G Ogg1 8-oxoguanine DNA glycosylase ISO RGD PMID:15677345 RGD:8657146 NCBI chrNW_004936602:3,411,106...3,418,826
Ensembl chrNW_004936602:3,413,282...3,418,831 		JBrowse link
G Parp1 poly(ADP-ribose) polymerase 1 ISO RGD PMID:12445868 RGD:10414070 NCBI chrNW_004936526:3,102,468...3,147,601
Ensembl chrNW_004936526:3,102,039...3,147,642 		JBrowse link
G Pdcd1 programmed cell death 1 severity ISO protein:increased expression:serum
protein:increased expression:lymphocyte, mononcyte 		RGD PMID:26063974 PMID:29702526 RGD:40822808 RGD:41410786 NCBI chrNW_004936745:152,571...163,712
Ensembl chrNW_004936745:152,612...161,587 		JBrowse link
G Pik3cd phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta severity ISO RGD PMID:28659355 RGD:40890272 NCBI chrNW_004936623:3,672,201...3,696,959 JBrowse link
G Plaur plasminogen activator, urokinase receptor ISO RGD PMID:20693875 RGD:6484122 NCBI chrNW_004936706:840,968...855,552 JBrowse link
G Proc protein C, inactivator of coagulation factors Va and VIIIa treatment ISO RGD PMID:19320827 PMID:21850534 RGD:11100015 RGD:11100041 NCBI chrNW_004936469:43,841,989...43,850,322
Ensembl chrNW_004936469:43,841,989...43,850,304 		JBrowse link
G Ptx3 pentraxin 3 ISO protein:increased expression:plasma (human) RGD PMID:30687307 RGD:38508896 NCBI chrNW_004936519:4,303,549...4,309,143
Ensembl chrNW_004936519:4,303,464...4,309,173 		JBrowse link
G Ren renin exacerbates ISO protein:increased activity:blood plasma (human) RGD PMID:31723628 RGD:125097502 NCBI chrNW_004936567:598,044...607,628
Ensembl chrNW_004936567:598,048...607,497 		JBrowse link
G Sell selectin L ISO protein:increased expression:plasma RGD PMID:19375498 RGD:5685700 NCBI chrNW_004936481:17,022,421...17,032,105
Ensembl chrNW_004936481:17,022,580...17,032,124 		JBrowse link
G Serpinc1 serpin family C member 1 treatment ISO RGD PMID:16732381 RGD:1599323 NCBI chrNW_004936481:13,981,014...13,993,750
Ensembl chrNW_004936481:13,981,019...13,993,634 		JBrowse link
G Serpine1 serpin family E member 1 susceptibility ISO associated with Pneumonia; DNA:polymorphism:promoter:rs1799768 (human) RGD PMID:20429897 RGD:4144828 NCBI chrNW_004936543:1,032,543...1,040,956
Ensembl chrNW_004936543:1,032,794...1,039,123 		JBrowse link
G Serpinf1 serpin family F member 1 severity ISO protein:decreased expression:plasma (human) RGD PMID:6158114 RGD:36174004 NCBI chrNW_004936538:7,885,816...7,898,308
Ensembl chrNW_004936538:7,885,475...7,899,113 		JBrowse link
G Serping1 serpin family G member 1 treatment ISO RGD PMID:8172580 RGD:8661646 NCBI chrNW_004936581:4,911,403...4,924,484
Ensembl chrNW_004936581:4,908,458...4,924,645 		JBrowse link
G Sftpb surfactant protein B ISO associated with Pneumonia;DNA:polymorphism: :1580C>T (human) RGD PMID:15190959 RGD:4143404 NCBI chrNW_004936712:1,614,979...1,621,207
Ensembl chrNW_004936712:1,614,979...1,622,466 		JBrowse link
G Socs1 suppressor of cytokine signaling 1 severity ISO RGD PMID:19469017 RGD:150573701 NCBI chrNW_004936530:9,312,965...9,315,593
Ensembl chrNW_004936530:9,312,965...9,316,165 		JBrowse link
G Tbxa2r thromboxane A2 receptor treatment ISO RGD PMID:7816742 RGD:11059599 NCBI chrNW_004936588:2,040,712...2,044,635
Ensembl chrNW_004936588:2,040,630...2,045,110 		JBrowse link
G Tfpi tissue factor pathway inhibitor treatment ISO RGD PMID:11776329 RGD:11062085 NCBI chrNW_004936506:10,103,120...10,172,800
Ensembl chrNW_004936506:10,103,139...10,171,863 		JBrowse link
G Thpo thrombopoietin ISO protein:increased expression:serum: RGD PMID:20467749 RGD:10449021 NCBI chrNW_004936578:5,508,669...5,515,984
Ensembl chrNW_004936578:5,509,111...5,515,103 		JBrowse link
G Tnf tumor necrosis factor treatment ISO protein:increased expression:peritoneal macrophage, cell surface (rat)
CTD Direct Evidence: marker/mechanism 		RGD
CTD		 PMID:2213560 PMID:12622907 PMID:20054000 RGD:10449465 RGD:1598936 NCBI chrNW_004936727:1,936,066...1,937,766
Ensembl chrNW_004936727:1,936,066...1,937,766 		JBrowse link
G Trem1 triggering receptor expressed on myeloid cells 1 ISO mRNA:decreased expression:polymorphonuclear leukocyte RGD PMID:24465168 RGD:126848796 NCBI chrNW_004936476:18,577,825...18,583,675
Ensembl chrNW_004936476:18,574,381...18,583,647 		JBrowse link
G Zc3h12a zinc finger CCCH-type containing 12A ISO RGD PMID:23422584 RGD:39938961 NCBI chrNW_004936474:19,714,145...19,722,512
Ensembl chrNW_004936474:19,714,153...19,722,528 		JBrowse link
trachoma term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Il10 interleukin 10 severity
no_association 		ISO DNA:haplotype: :
DNA:SNP:promoter:−819T>C, −592A>C (human)
DNA:SNP, haplotype:promoter:−1082G>A (human)
DNA:SNP:promoter:−1082G>A (human)
protein:increased expression:tear 		RGD PMID:11023480 PMID:15789056 PMID:17947295 PMID:18628987 RGD:7365037 RGD:7365053 RGD:7365072 RGD:7365085 NCBI chrNW_004936557:5,834,874...5,838,502
Ensembl chrNW_004936557:5,834,874...5,838,502 		JBrowse link
G Il17a interleukin 17A ISO mRNA:increased expression:conjunctiva (human) RGD PMID:21911461 RGD:9068420 NCBI chrNW_004936476:8,621,860...8,625,008
Ensembl chrNW_004936476:8,621,860...8,625,008 		JBrowse link
G LOC101964975 interleukin-8 susceptibility ISO DNA:SNP:promoter:g.-251A>T (rs4073) (human) RGD PMID:20015396 RGD:150520200 NCBI chrNW_004936598:1,779,471...1,781,353
Ensembl chrNW_004936598:1,779,471...1,781,353 		JBrowse link
G Tnf tumor necrosis factor ISO DNA:SNP, haplotypes:promoter:−308G>A (human) RGD PMID:17330135 RGD:8548830 NCBI chrNW_004936727:1,936,066...1,937,766
Ensembl chrNW_004936727:1,936,066...1,937,766 		JBrowse link
Trachomatous Trichiasis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Col1a1 collagen type I alpha 1 chain ISO mRNA:decreased expression:tarsal conjunctiva (human) RGD PMID:20375326 RGD:8552676 NCBI chrNW_004936490:11,448,552...11,465,836
Ensembl chrNW_004936490:11,448,654...11,464,444 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  disease 14641
    disease by infectious agent 2007
      Bacterial Infections and Mycoses 989
        bacterial infectious disease 744
          commensal bacterial infectious disease 63
            Lemierre's syndrome 0
            Ritter's disease + 0
            actinobacillosis 0
            actinomycosis + 0
            chlamydia + 15
            gas gangrene 1
            inclusion conjunctivitis 0
            pertussis + 0
            toxic shock syndrome 54
            trachoma + 5
paths to the root