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
Accession: DOID:0050339
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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CCR5
C-C motif chemokine receptor 5
ISO
RGD
PMID:16118671
RGD:8549760
NCBI chr 3:46,370,142...46,376,206
Ensembl chr 3:46,370,946...46,376,206
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CD40
CD40 molecule
ISO
RGD
PMID:20102413
RGD:5132268
NCBI chr20:46,118,314...46,129,858
Ensembl chr20:46,118,271...46,129,863
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FOXP3
forkhead box P3
treatment
IEP
RGD
PMID:30832593
RGD:38455984
NCBI chr X:49,250,438...49,264,710
Ensembl chr X:49,250,438...49,264,800
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ICAM1
intercellular adhesion molecule 1
ISO
mRNA:increased expression:lung (mouse)
RGD
PMID:19728926
RGD:4145507
NCBI chr19:10,271,120...10,286,615
Ensembl chr19:10,271,093...10,286,615
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IDO1
indoleamine 2,3-dioxygenase 1
treatment
IEP ISO
mRNA:increased expression:lung (mouse)
RGD
PMID:30832593 PMID:31249813
RGD:38455984 , RGD:39938856
NCBI chr 8:39,913,891...39,928,790
Ensembl chr 8:39,902,275...39,928,790
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IFNG
interferon gamma
EXP
CTD Direct Evidence: marker/mechanism
CTD
PMID:19203382
NCBI chr12:68,154,768...68,159,740
Ensembl chr12:68,154,768...68,159,740
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IL13
interleukin 13
ISO
RGD
PMID:21573182
RGD:5684365
NCBI chr 5:132,656,522...132,661,110
Ensembl chr 5:132,656,263...132,661,110
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IL17A
interleukin 17A
ISO
associated with Bronchial Hyprractivity; mRNA:increased expression:lung
RGD
PMID:20228193 PMID:19812198
RGD:4888528 , RGD:4889101
NCBI chr 6:52,186,375...52,190,638
Ensembl chr 6:52,186,375...52,190,638
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MIR21
microRNA 21
ISO
associated with asthma;RNA:increased expression:lung
RGD
PMID:27448447
RGD:41404696
NCBI chr17:59,841,266...59,841,337
Ensembl chr17:59,841,266...59,841,337
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TGFB1
transforming growth factor beta 1
treatment
IEP
RGD
PMID:30832593
RGD:38455984
NCBI chr19:41,330,323...41,353,922
Ensembl chr19:41,301,587...41,353,922
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TNF
tumor necrosis factor
EXP
CTD Direct Evidence: marker/mechanism
CTD
PMID:19203382
NCBI chr 6:31,575,565...31,578,336
Ensembl chr 6:31,575,565...31,578,336
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CD274
CD274 molecule
ISO
mRNA:increased expression:lung
RGD
PMID:26378990
RGD:41412180
NCBI chr 9:5,450,542...5,470,554
Ensembl chr 9:5,450,503...5,470,566
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PDCD1
programmed cell death 1
ISO
mRNA:increased expression:lung
RGD
PMID:26378990
RGD:41412180
NCBI chr 2:241,849,884...241,858,894
Ensembl chr 2:241,849,884...241,858,894
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PIK3CD
phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta
severity
ISO
RGD
PMID:29893841
RGD:40890270
NCBI chr 1:9,627,258...9,729,114
Ensembl chr 1:9,629,889...9,729,114
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GSN
gelsolin
IEP
protein:decreased expression:blood serum (human)
RGD
PMID:9142022
RGD:329333022
NCBI chr 9:121,201,483...121,332,842
Ensembl chr 9:121,207,794...121,332,843
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A2M
alpha-2-macroglobulin
treatment
ISO
RGD
PMID:2424486
RGD:10046036
NCBI chr12:9,067,708...9,116,229
Ensembl chr12:9,067,664...9,116,229
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ACE
angiotensin I converting enzyme
severity
IAGP
DNA:SNP, insertion/deletion:promoter, intron: (rs4291, rs4646994)
RGD
PMID:28336767
RGD:39939121
NCBI chr17:63,477,061...63,498,373
Ensembl chr17:63,477,061...63,498,380
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ADK
adenosine kinase
ISO
RGD
PMID:8207212
RGD:6482670
NCBI chr10:74,151,221...74,709,290
Ensembl chr10:74,151,202...74,709,963
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ADM
adrenomedullin
ISO
RGD
PMID:17318497 PMID:17766482
RGD:1625310 , RGD:1642599
NCBI chr11:10,305,073...10,307,397
Ensembl chr11:10,305,073...10,307,397
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ADRB2
adrenoceptor beta 2
disease_progression treatment
IAGP IDA
DNA:polymorphism: :rs1042717(human)
RGD
PMID:19850944 PMID:16076286
RGD:8548487 , RGD:8548529
NCBI chr 5:148,826,611...148,828,623
Ensembl chr 5:148,826,611...148,828,623
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AGER
advanced glycosylation end-product specific receptor
ISO
RGD
PMID:21270403
RGD:6767566
NCBI chr 6:32,180,969...32,184,253
Ensembl chr 6:32,180,968...32,184,322
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AQP1
aquaporin 1 (Colton blood group)
EXP
CTD Direct Evidence: marker/mechanism
CTD
PMID:24028651
NCBI chr 7:30,911,853...30,925,516
Ensembl chr 7:30,911,853...30,925,517
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C5AR1
complement C5a receptor 1
EXP
CTD Direct Evidence: marker/mechanism
CTD
PMID:18063050
NCBI chr19:47,307,477...47,322,066
Ensembl chr19:47,290,023...47,322,066
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CCKBR
cholecystokinin B receptor
ISO
mRNA:increased expression:myocardium
RGD
PMID:15948246
RGD:2311332
NCBI chr11:6,259,838...6,272,127
Ensembl chr11:6,259,806...6,272,127
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CCL2
C-C motif chemokine ligand 2
disease_progression
IEP
RGD
PMID:28834779
RGD:14995949
NCBI chr17:34,255,285...34,257,203
Ensembl chr17:34,255,274...34,257,208
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CD274
CD274 molecule
severity
IEP
protein:increased expression:serum protein:increased expression:lymphocyte, mononcyte
RGD
PMID:29702526 PMID:26063974
RGD:40822808 , RGD:41410786
NCBI chr 9:5,450,542...5,470,554
Ensembl chr 9:5,450,503...5,470,566
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ELANE
elastase, neutrophil expressed
treatment
ISO
RGD
PMID:18323746
RGD:10450579
NCBI chr19:852,303...856,243
Ensembl chr19:851,014...856,247
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ENO2
enolase 2
ISO
proteiin:increased expression:serum
RGD
PMID:17083782
RGD:2293748
NCBI chr12:6,914,580...6,923,697
Ensembl chr12:6,913,745...6,923,698
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F2
coagulation factor II, thrombin
severity
IEP
protein:decreased expression:blood plasma (human)
RGD
PMID:2788582
RGD:40822807
NCBI chr11:46,719,213...46,739,506
Ensembl chr11:46,719,196...46,739,506
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FANCC
FA complementation group C
ISO
RGD
PMID:17404312
RGD:11045879
NCBI chr 9:95,099,054...95,317,709
Ensembl chr 9:95,099,054...95,426,796
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GC
GC vitamin D binding protein
EXP
CTD Direct Evidence: marker/mechanism
CTD
PMID:17852808
NCBI chr 4:71,741,693...71,805,520
Ensembl chr 4:71,741,696...71,804,041
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GRK2
G protein-coupled receptor kinase 2
IEP
mRNA:decreased expression:polymorphonuclear leukocyte
RGD
PMID:24465168
RGD:126848796
NCBI chr11:67,266,473...67,286,556
Ensembl chr11:67,266,473...67,286,556
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HLA-DRA
major histocompatibility complex, class II, DR alpha
disease_progression
IEP EXP
associated with Burns CTD Direct Evidence: marker/mechanism
CTD RGD
PMID:28771573 PMID:17568330 PMID:15644645
RGD:5490160 , RGD:5490203
NCBI chr 6:32,439,887...32,445,046
Ensembl chr 6:32,439,878...32,445,046
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HLA-DRB1
major histocompatibility complex, class II, DR beta 1
IEP
mRNA:decreased expression:blood
RGD
PMID:15644645
RGD:5490203
NCBI chr 6:32,578,775...32,589,848
Ensembl chr 6:32,577,902...32,589,848
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HMOX1
heme oxygenase 1
ISO
RGD
PMID:18208666
RGD:4145362
NCBI chr22:35,381,096...35,394,207
Ensembl chr22:35,380,361...35,394,214
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HSPA1B
heat shock protein family A (Hsp70) member 1B
susceptibility
IAGP
associated wit community-acquired pneumonia;DNA:SNP: :1267A>G (human)
RGD
PMID:12771604
RGD:5147601
NCBI chr 6:31,827,738...31,830,254
Ensembl chr 6:31,827,738...31,830,254
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IDO1
indoleamine 2,3-dioxygenase 1
severity
IEP
protein:increased activity, increased expression:plasma, heart (human)
RGD
PMID:21765346
RGD:39939075
NCBI chr 8:39,913,891...39,928,790
Ensembl chr 8:39,902,275...39,928,790
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IFNG
interferon gamma
IEP
protein:increased expression:plasma
RGD
PMID:25403265
RGD:38455982
NCBI chr12:68,154,768...68,159,740
Ensembl chr12:68,154,768...68,159,740
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IL10
interleukin 10
severity onset
IDA ISO IEP
protein:increased expression:lung (mouse) protein:increased expression:plasma
RGD
PMID:12117955 PMID:12117955 PMID:28659355 PMID:25403265 PMID:7593621
RGD:1598471 , RGD:1598471 , RGD:40890272 , RGD:38455982 , RGD:11049456
NCBI chr 1:206,767,602...206,772,494
Ensembl chr 1:206,767,602...206,774,541
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IL19
interleukin 19
IEP
protein:increased expression:serum
RGD
PMID:18246602
RGD:5037232
NCBI chr 1:206,770,773...206,842,981
Ensembl chr 1:206,770,764...206,842,981
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IL1B
interleukin 1 beta
severity
ISO
protein:increased expression:lung (mouse)
RGD
PMID:28659355
RGD:40890272
NCBI chr 2:112,829,751...112,836,779
Ensembl chr 2:112,829,751...112,836,816
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IL1RN
interleukin 1 receptor antagonist
treatment susceptibility
IMP IAGP
human gene in a mouse model associated with Precursor Cell Lymphoblastic Leukemia-Lymphoma;DNA:polymorphism::
RGD
PMID:15516267 PMID:23014359
RGD:8551736 , RGD:11522756
NCBI chr 2:113,099,360...113,134,014
Ensembl chr 2:113,099,315...113,134,016
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IL20RA
interleukin 20 receptor subunit alpha
ISO
mRNA:increased expression:multiple
RGD
PMID:18246602
RGD:5037232
NCBI chr 6:136,999,971...137,044,965
Ensembl chr 6:136,999,971...137,045,180
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IL20RB
interleukin 20 receptor subunit beta
ISO
mRNA:increased expression:multiple
RGD
PMID:18246602
RGD:5037232
NCBI chr 3:136,957,983...137,011,085
Ensembl chr 3:136,946,230...137,011,085
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IL27
interleukin 27
ISO
protein, mRNA:increased expression:blood serum, spleen (mouse)
RGD
PMID:20435892
RGD:126790535
NCBI chr16:28,499,362...28,506,834
Ensembl chr16:28,499,362...28,512,051
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IL6
interleukin 6
treatment
ISO
RGD
PMID:2124237
RGD:11060276
NCBI chr 7:22,727,200...22,731,998
Ensembl chr 7:22,725,884...22,732,002
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MBL2
mannose binding lectin 2
susceptibility
IAGP
associated with acute pyelonephritis;DNA:SNPs, missense mutations, haplotypes:promoter, cds:multiple
RGD
PMID:17202308
RGD:6903268
NCBI chr10:52,765,380...52,772,784
Ensembl chr10:52,765,380...52,772,784
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MC2R
melanocortin 2 receptor
ISO
protein:increased expression:liver (rat)
RGD
PMID:2822467
RGD:6484558
NCBI chr18:13,882,044...13,915,707
Ensembl chr18:13,882,044...13,915,707
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MIF
macrophage migration inhibitory factor
ISO
RGD
PMID:17381395 PMID:17565848
RGD:4891013 , RGD:1641978
NCBI chr22:23,894,383...23,895,223
Ensembl chr22:23,894,383...23,895,227
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MIR155
microRNA 155
IEP
RGD
PMID:29979224
RGD:21081538
NCBI chr21:25,573,980...25,574,044
Ensembl chr21:25,573,980...25,574,044
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MIR21
microRNA 21
exacerbates ameliorates
ISO
RGD
PMID:28437377 PMID:31189875
RGD:41404641 , RGD:41404698
NCBI chr17:59,841,266...59,841,337
Ensembl chr17:59,841,266...59,841,337
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MIR494
microRNA 494
severity
IEP
RGD
PMID:30783439
RGD:150527846
NCBI chr14:101,029,634...101,029,714
Ensembl chr14:101,029,634...101,029,714
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MT-ND1
mitochondrially encoded NADH:ubiquinone oxidoreductase core subunit 1
susceptibility
IAGP
associated with Burns; DNA:missense mutation:cds:m.4216T>C (human)
RGD
PMID:19487983
RGD:5148017
NCBI chr MT:3,307...4,262
Ensembl chr MT:3,307...4,262
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NFKBIA
NFKB inhibitor alpha
treatment
ISO
RGD
PMID:11961112
RGD:126928137
NCBI chr14:35,401,513...35,404,749
Ensembl chr14:35,401,079...35,404,749
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NOS2
nitric oxide synthase 2
ISO EXP
CTD Direct Evidence: marker/mechanism
CTD RGD
PMID:8745224 PMID:16601845
RGD:1580268
NCBI chr17:27,756,766...27,800,529
Ensembl chr17:27,756,766...27,800,529
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NPPC
natriuretic peptide C
IEP
protein:increased expression:plasma
RGD
PMID:8117275
RGD:1642297
NCBI chr 2:231,921,809...231,926,396
Ensembl chr 2:231,921,809...231,926,396
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OGG1
8-oxoguanine DNA glycosylase
ISO
RGD
PMID:15677345
RGD:8657146
NCBI chr 3:9,749,952...9,783,108
Ensembl chr 3:9,749,944...9,788,219
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PARP1
poly(ADP-ribose) polymerase 1
ISO
RGD
PMID:12445868
RGD:10414070
NCBI chr 1:226,360,691...226,408,093
Ensembl chr 1:226,360,210...226,408,154
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PDCD1
programmed cell death 1
severity
IEP
protein:increased expression:serum protein:increased expression:lymphocyte, mononcyte
RGD
PMID:29702526 PMID:26063974
RGD:40822808 , RGD:41410786
NCBI chr 2:241,849,884...241,858,894
Ensembl chr 2:241,849,884...241,858,894
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PIK3CD
phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta
severity
ISO
RGD
PMID:28659355
RGD:40890272
NCBI chr 1:9,627,258...9,729,114
Ensembl chr 1:9,629,889...9,729,114
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PLAUR
plasminogen activator, urokinase receptor
ISO
RGD
PMID:20693875
RGD:6484122
NCBI chr19:43,646,095...43,670,169
Ensembl chr19:43,646,095...43,670,547
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PROC
protein C, inactivator of coagulation factors Va and VIIIa
treatment
ISO IDA
RGD
PMID:19320827 PMID:21850534
RGD:11100015 , RGD:11100041
NCBI chr 2:127,418,427...127,429,242
Ensembl chr 2:127,418,427...127,429,242
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PTX3
pentraxin 3
IEP
protein:increased expression:plasma (human)
RGD
PMID:30687307
RGD:38508896
NCBI chr 3:157,436,850...157,443,633
Ensembl chr 3:157,436,850...157,443,633
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REN
renin
exacerbates
IEP
protein:increased activity:blood plasma (human)
RGD
PMID:31723628
RGD:125097502
NCBI chr 1:204,154,819...204,166,337
Ensembl chr 1:204,154,819...204,190,324
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SELL
selectin L
ISO
protein:increased expression:plasma
RGD
PMID:19375498
RGD:5685700
NCBI chr 1:169,690,667...169,711,620
Ensembl chr 1:169,690,665...169,711,702
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SERPINC1
serpin family C member 1
treatment
IDA
RGD
PMID:16732381
RGD:1599323
NCBI chr 1:173,903,800...173,917,327
Ensembl chr 1:173,903,800...173,917,327
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SERPINE1
serpin family E member 1
susceptibility
IAGP
associated with Pneumonia; DNA:polymorphism:promoter:rs1799768 (human)
RGD
PMID:20429897
RGD:4144828
NCBI chr 7:101,127,104...101,139,247
Ensembl chr 7:101,127,104...101,139,247
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SERPINF1
serpin family F member 1
severity
IEP
protein:decreased expression:plasma (human)
RGD
PMID:6158114
RGD:36174004
NCBI chr17:1,762,060...1,777,565
Ensembl chr17:1,762,029...1,777,565
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SERPING1
serpin family G member 1
treatment
IDA
RGD
PMID:8172580
RGD:8661646
NCBI chr11:57,597,685...57,614,848
Ensembl chr11:57,597,387...57,619,171
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SFTPB
surfactant protein B
IAGP
associated with Pneumonia;DNA:polymorphism: :1580C>T (human)
RGD
PMID:15190959
RGD:4143404
NCBI chr 2:85,657,307...85,668,741
Ensembl chr 2:85,657,314...85,668,741
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SOCS1
suppressor of cytokine signaling 1
severity
ISO
RGD
PMID:19469017
RGD:150573701
NCBI chr16:11,254,417...11,256,204
Ensembl chr16:11,254,417...11,256,204
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TBXA2R
thromboxane A2 receptor
treatment
ISO
RGD
PMID:7816742
RGD:11059599
NCBI chr19:3,594,507...3,606,875
Ensembl chr19:3,594,507...3,606,875
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TFPI
tissue factor pathway inhibitor
treatment
IDA
RGD
PMID:11776329
RGD:11062085
NCBI chr 2:187,464,230...187,554,435
Ensembl chr 2:187,464,230...187,565,760
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THPO
thrombopoietin
IEP
protein:increased expression:serum:
RGD
PMID:20467749
RGD:10449021
NCBI chr 3:184,371,935...184,379,688
Ensembl chr 3:184,371,935...184,381,968
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TNF
tumor necrosis factor
treatment
ISO EXP
protein:increased expression:peritoneal macrophage, cell surface (rat) CTD Direct Evidence: marker/mechanism
CTD RGD
PMID:20054000 PMID:2213560 PMID:12622907
RGD:10449465 , RGD:1598936
NCBI chr 6:31,575,565...31,578,336
Ensembl chr 6:31,575,565...31,578,336
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TREM1
triggering receptor expressed on myeloid cells 1
IEP
mRNA:decreased expression:polymorphonuclear leukocyte
RGD
PMID:24465168
RGD:126848796
NCBI chr 6:41,267,385...41,286,682
Ensembl chr 6:41,267,100...41,286,682
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ZC3H12A
zinc finger CCCH-type containing 12A
ISO
RGD
PMID:23422584
RGD:39938961
NCBI chr 1:37,474,580...37,484,377
Ensembl chr 1:37,474,580...37,484,377
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CXCL8
C-X-C motif chemokine ligand 8
susceptibility
IAGP
DNA:SNP:promoter:g.-251A>T (rs4073) (human)
RGD
PMID:20015396
RGD:150520200
NCBI chr 4:73,740,569...73,743,716
Ensembl chr 4:73,740,519...73,743,716
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HLA-B
major histocompatibility complex, class I, B
IAGP
DNA:polymorphism:cds:HLA-B*14 (human, Tanzanian)
RGD
PMID:18824733
RGD:7364877
NCBI chr 6:31,353,875...31,357,179
Ensembl chr 6:31,353,872...31,367,067
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IL10
interleukin 10
no_association severity
IEP IAGP
protein:increased expression:tear DNA:SNP:promoter:−1082G>A (human) DNA:SNP:promoter:−819T>C, −592A>C (human) DNA:SNP, haplotype:promoter:−1082G>A (human) DNA:haplotype: :
RGD
PMID:18628987 PMID:11023480 PMID:11023480 PMID:15789056 PMID:17947295
RGD:7365037 , RGD:7365085 , RGD:7365085 , RGD:7365072 , RGD:7365053
NCBI chr 1:206,767,602...206,772,494
Ensembl chr 1:206,767,602...206,774,541
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IL17A
interleukin 17A
IEP
mRNA:increased expression:conjunctiva (human)
RGD
PMID:21911461
RGD:9068420
NCBI chr 6:52,186,375...52,190,638
Ensembl chr 6:52,186,375...52,190,638
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TNF
tumor necrosis factor
IAGP
DNA:SNP, haplotypes:promoter:−308G>A (human)
RGD
PMID:17330135
RGD:8548830
NCBI chr 6:31,575,565...31,578,336
Ensembl chr 6:31,575,565...31,578,336
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COL1A1
collagen type I alpha 1 chain
IEP
mRNA:decreased expression:tarsal conjunctiva (human)
RGD
PMID:20375326
RGD:8552676
NCBI chr17:50,184,101...50,201,631
Ensembl chr17:50,184,101...50,201,632
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CD163
CD163 molecule
IEP
protein:increased expression:duodenum, macrophage (human)
RGD
PMID:19664628
RGD:149735573
NCBI chr12:7,470,811...7,503,777
Ensembl chr12:7,470,811...7,503,893
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