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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:pneumonia
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Accession:DOID:552 term browser browse the term
Definition:Infection of the lung often accompanied by inflammation.
Synonyms:exact_synonym: Experimental Lung Inflammation;   Experimental Lung Inflammations;   Lobar Pneumonia;   Lobar Pneumonias;   Lung Inflammation;   Lung Inflammations;   Pneumonias;   Pneumonitides;   Pneumonitis;   Pulmonary Inflammation;   Pulmonary Inflammations;   acute pneumonia
 primary_id: MESH:D011014
 alt_id: RDO:0001311
 xref: NCI:C3333
For additional species annotation, visit the Alliance of Genome Resources.

show annotations for term's descendants           Sort by:
 
pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abcf1 ATP binding cassette subfamily F member 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr20:3,309,914...3,322,828
Ensembl chr20:3,309,899...3,322,825 		JBrowse link
G Abo ABO, alpha 1-3-N-acetylgalactosaminyltransferase and alpha 1-3-galactosyltransferase severity ISO DNA:polymorphism:cds:allele A (human) RGD PMID:4375858 RGD:39938844 NCBI chr 3:4,374,679...4,394,374
Ensembl chr 3:4,374,602...4,394,428 		JBrowse link
G Ace angiotensin I converting enzyme disease_progression ISO associated with Hypertension RGD PMID:17727310, PMID:19455553, PMID:20051911 RGD:4140922, RGD:4140918, RGD:4140916 NCBI chr10:94,170,766...94,213,831
Ensembl chr10:94,170,766...94,187,822 		JBrowse link
G Adora1 adenosine A1 receptor ISO RGD PMID:15630442 RGD:5129098 NCBI chr13:51,042,111...51,076,913
Ensembl chr13:51,042,248...51,076,852 		JBrowse link
G Adora2a adenosine A2a receptor ISO associated with Lung Injury
associated with Anemia, Sickle Cell		 RGD PMID:18703794, PMID:17601796, PMID:20798237 RGD:4890364, RGD:4890376, RGD:4890358 NCBI chr20:14,265,251...14,282,873
Ensembl chr20:14,265,252...14,282,873 		JBrowse link
G Adrb2 adrenoceptor beta 2 IDA RGD PMID:19925785 RGD:4145041 NCBI chr18:57,513,792...57,515,834
Ensembl chr18:57,513,793...57,515,834 		JBrowse link
G Agt angiotensinogen ISO CTD Direct Evidence: therapeutic CTD PMID:28960804 NCBI chr19:57,321,594...57,333,460
Ensembl chr19:57,321,640...57,333,433 		JBrowse link
G Ahr aryl hydrocarbon receptor ISO CTD Direct Evidence: marker/mechanism CTD PMID:23337360 NCBI chr 6:54,963,990...55,001,806
Ensembl chr 6:54,963,990...55,001,464 		JBrowse link
G Alb albumin disease_progression ISO RGD PMID:23286966 RGD:11035283 NCBI chr14:19,176,275...19,191,793
Ensembl chr14:19,176,277...19,191,863 		JBrowse link
G Bdkrb2 bradykinin receptor B2 ISO RGD PMID:15021973 RGD:4891030 NCBI chr 6:129,399,468...129,429,676
Ensembl chr 6:129,399,468...129,429,676 		JBrowse link
G C3 complement C3 IDA RGD PMID:10886251 RGD:5129562 NCBI chr 9:9,721,137...9,747,084
Ensembl chr 9:9,721,105...9,747,167 		JBrowse link
G C3ar1 complement C3a receptor 1 ISO associated with Respiratory Syncytial Virus Infections RGD PMID:17079327 RGD:5129688 NCBI chr 4:155,681,767...155,691,240
Ensembl chr 4:155,684,029...155,690,869 		JBrowse link
G C5 complement C5 ISO associated with Respiratory Syncytial Virus Infections RGD PMID:17079327, PMID:3631740 RGD:5129688, RGD:5130161 NCBI chr 3:14,049,993...14,113,931
NCBI chr 3:14,206,466...14,229,141
Ensembl chr 3:14,049,995...14,229,080 		JBrowse link
G Casp1 caspase 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 8:2,605,743...2,614,637
Ensembl chr 8:2,604,962...2,614,631 		JBrowse link
G Ccl11 C-C motif chemokine ligand 11 IMP
ISO
IEP		 CTD Direct Evidence: marker/mechanism
mRNA, protein:increased expression:lung, respiratory system fluid/secretion		 CTD PMID:21625544, PMID:10595930, PMID:11290805 RGD:4145450, RGD:4145445 NCBI chr10:69,434,965...69,439,566
Ensembl chr10:69,434,941...69,439,575 		JBrowse link
G Ccl12 chemokine (C-C motif) ligand 12 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr10:69,476,866...69,478,416
Ensembl chr10:69,476,775...69,478,462 		JBrowse link
G Ccl17 C-C motif chemokine ligand 17 IEP
ISO		 mRNA:increased expression:lung
CTD Direct Evidence: marker/mechanism		 CTD PMID:21625544, PMID:15993846 RGD:2306304 NCBI chr19:10,619,220...10,620,671
Ensembl chr19:10,619,220...10,620,671 		JBrowse link
G Ccl19 C-C motif chemokine ligand 19 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 5:58,181,025...58,182,969
Ensembl chr 5:58,181,026...58,183,017 		JBrowse link
G Ccl2 C-C motif chemokine ligand 2 ISO protein:increased expression:respiratory system fluid/secretion
CTD Direct Evidence: marker/mechanism		 CTD PMID:21625544, PMID:19648283 RGD:4891461 NCBI chr10:69,412,065...69,413,863
Ensembl chr10:69,412,017...69,413,870 		JBrowse link
G Ccl20 C-C motif chemokine ligand 20 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 9:88,918,359...88,921,017
Ensembl chr 9:88,918,433...88,921,001 		JBrowse link
G Ccl22 C-C motif chemokine ligand 22 IEP mRNA:increased expression:lung RGD PMID:15993846 RGD:2306304 NCBI chr19:10,674,189...10,681,145
Ensembl chr19:10,674,189...10,681,145 		JBrowse link
G Ccl24 C-C motif chemokine ligand 24 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr12:24,131,529...24,152,626
Ensembl chr12:24,148,567...24,152,625 		JBrowse link
G Ccl3 C-C motif chemokine ligand 3 ISO mRNA:increased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr10:70,869,516...70,871,066
Ensembl chr10:70,869,513...70,871,066 		JBrowse link
G Ccl4 C-C motif chemokine ligand 4 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr10:70,870,926...70,886,357
Ensembl chr10:70,884,531...70,886,355 		JBrowse link
G Ccl7 C-C motif chemokine ligand 7 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544, PMID:15191918 RGD:5130985 NCBI chr10:69,423,083...69,424,933
Ensembl chr10:69,423,086...69,424,979 		JBrowse link
G Ccr1 C-C motif chemokine receptor 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544, PMID:20870892 RGD:5688175 NCBI chr 8:132,996,646...133,002,201
Ensembl chr 8:132,996,649...133,002,201 		JBrowse link
G Ccr2 C-C motif chemokine receptor 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544, PMID:14615370, PMID:17284325 RGD:4145068, RGD:8661704
G Ccr3 C-C motif chemokine receptor 3 ISO mRNA:increased expression:lung RGD PMID:19762220 RGD:4145622 NCBI chr 8:133,026,539...133,040,999
Ensembl chr 8:133,029,625...133,040,997 		JBrowse link
G Ccr5 C-C motif chemokine receptor 5 ISO Idiopathic Pneumonia Syndrome; mRNA:increased expression:lung (mouse) RGD PMID:15546955 RGD:4892103 NCBI chr 8:133,192,398...133,215,599
Ensembl chr 8:133,197,032...133,215,614 		JBrowse link
G Ccr6 C-C motif chemokine receptor 6 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 1:53,063,380...53,087,519
Ensembl chr 1:53,065,025...53,087,474 		JBrowse link
G Ccr7 C-C motif chemokine receptor 7 ISO mRNA, protein:increased expression:lung RGD PMID:16394278 RGD:5130919 NCBI chr10:87,057,335...87,067,444
Ensembl chr10:87,057,136...87,067,456 		JBrowse link
G Ccr9 C-C motif chemokine receptor 9 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 8:132,827,325...132,842,130
Ensembl chr 8:132,828,091...132,842,130 		JBrowse link
G Cd14 CD14 molecule ISO protein:increased expression:multiple RGD PMID:20302606 RGD:4144794 NCBI chr18:29,560,341...29,562,290
Ensembl chr18:29,560,365...29,562,153 		JBrowse link
G Cd40lg CD40 ligand ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr  X:159,703,703...159,714,886
Ensembl chr  X:159,703,578...159,716,562 		JBrowse link
G Crhr2 corticotropin releasing hormone receptor 2 ISO RGD PMID:16855006 RGD:5130933 NCBI chr 4:85,286,371...85,329,374
Ensembl chr 4:85,286,372...85,329,362 		JBrowse link
G Crp C-reactive protein severity
disease_progression		 ISO RGD PMID:21258955, PMID:21439658 RGD:5131283, RGD:5131291 NCBI chr13:91,080,448...91,081,358
Ensembl chr13:91,054,974...91,093,713 		JBrowse link
G Csf2 colony stimulating factor 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:11732872, PMID:19633061 RGD:4142837 NCBI chr10:39,602,089...39,604,070
Ensembl chr10:39,602,089...39,604,070 		JBrowse link
G Csf3r colony stimulating factor 3 receptor ISO mRNA:increased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr 5:144,031,353...144,051,966
Ensembl chr 5:144,031,402...144,051,600 		JBrowse link
G Csk C-terminal Src kinase ISO RGD PMID:14975240 RGD:5134363 NCBI chr 8:62,405,714...62,424,707
Ensembl chr 8:62,405,715...62,424,303 		JBrowse link
G Cx3cl1 C-X3-C motif chemokine ligand 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr19:10,644,267...10,654,861
Ensembl chr19:10,644,244...10,653,800 		JBrowse link
G Cxcl1 C-X-C motif chemokine ligand 1 IEP
ISO		 mRNA, protein:increased expression:lung
CTD Direct Evidence: marker/mechanism		 CTD PMID:21625544, PMID:20728373 RGD:5134959 NCBI chr14:18,743,678...18,745,457
Ensembl chr14:18,743,685...18,745,457 		JBrowse link
G Cxcl10 C-X-C motif chemokine ligand 10 ISO associated with Lupus Erythematosus, Systemic;mRNA:increased expression:lung RGD PMID:15265940, PMID:14979941 RGD:5135445, RGD:5135491 NCBI chr14:17,210,733...17,212,930
Ensembl chr14:17,210,733...17,212,930 		JBrowse link
G Cxcl2 C-X-C motif chemokine ligand 2 IEP
ISO		 mRNA, protein:increased expression:lung
mRNA:increased expression:lung		 RGD PMID:20728373, PMID:18367723 RGD:5134959, RGD:5135235 NCBI chr14:18,731,346...18,733,391
Ensembl chr14:18,731,378...18,733,391 		JBrowse link
G Cxcl3 C-X-C motif chemokine ligand 3 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr14:18,820,168...18,839,659
Ensembl chr14:18,820,168...18,839,595 		JBrowse link
G Cxcl6 C-X-C motif chemokine ligand 6 ISO protein:increased expression:sputum RGD PMID:18410262 RGD:5135259 NCBI chr14:18,860,201...18,920,839
Ensembl chr14:18,860,264...18,862,407 		JBrowse link
G Cxcl9 C-X-C motif chemokine ligand 9 ISO protein:increased expression:serum
CTD Direct Evidence: marker/mechanism		 CTD PMID:21625544, PMID:17052299, PMID:15265940 RGD:5135440, RGD:5135445 NCBI chr14:17,228,832...17,233,743
Ensembl chr14:17,228,856...17,234,712 		JBrowse link
G Cxcr2 C-X-C motif chemokine receptor 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 9:81,427,275...81,435,065
Ensembl chr 9:81,427,730...81,434,102 		JBrowse link
G Cxcr3 C-X-C motif chemokine receptor 3 ISO CTD Direct Evidence: marker/mechanism
associated with Lupus Erythematosus, Systemic;mRNA:increased expression:lung		 CTD PMID:21625544, PMID:15265940, PMID:14979941 RGD:5135445, RGD:5135491 NCBI chr  X:71,614,346...71,616,997
Ensembl chr  X:71,614,346...71,616,997 		JBrowse link
G Cyp1a1 cytochrome P450, family 1, subfamily a, polypeptide 1 susceptibility ISO DNA:polymorphism (human) RGD PMID:15928955 RGD:4142512 NCBI chr 8:62,472,087...62,478,122
Ensembl chr 8:62,472,095...62,478,147 		JBrowse link
G Cyp2e1 cytochrome P450, family 2, subfamily e, polypeptide 1 ISO protein:increased expression:alveolus, epithelial cell
DNA:polymorphism (human)		 RGD PMID:14698565, PMID:15928955 RGD:4892223, RGD:4142512 NCBI chr 1:213,511,892...213,522,195
Ensembl chr 1:213,511,874...213,535,542 		JBrowse link
G Defb1 defensin beta 1 ISO protein:increased expression:serum RGD PMID:17000097 RGD:4892262 NCBI chr16:75,294,385...75,309,127
Ensembl chr16:75,294,376...75,309,176 		JBrowse link
G Des desmin ISO ClinVar Annotator: match by term: pneumonitis ClinVar PMID:24033266 PMID:24503780 PMID:25741868 PMID:26265630 PMID:26724190 PMID:28341588 PMID:28492532 NCBI chr 9:82,556,574...82,564,288
Ensembl chr 9:82,556,573...82,564,294 		JBrowse link
G Edn1 endothelin 1 severity ISO protein:increased secretion:plasma (human) RGD PMID:20529344 RGD:4144879 NCBI chr17:22,136,814...22,143,745
Ensembl chr17:22,137,324...22,143,324 		JBrowse link
G Egf epidermal growth factor resistance ISO RGD PMID:21701422 RGD:6906904 NCBI chr 2:68,820,616...68,895,537 JBrowse link
G Egr1 early growth response 1 ISO CTD Direct Evidence: therapeutic CTD PMID:29787794 NCBI chr18:27,657,903...27,660,101
Ensembl chr18:27,657,628...27,661,429 		JBrowse link
G Fcgr3a Fc fragment of IgG receptor IIIa treatment ISO associated with Hodgkin Disease;DNA:SNP:exon:p.F158V (rs396991) (human) RGD PMID:20423913 RGD:11352258 NCBI chr13:89,385,775...89,396,047
Ensembl chr13:89,385,859...89,396,051 		JBrowse link
G Hdc histidine decarboxylase ISO RGD PMID:14556983 RGD:5143922 NCBI chr 3:119,057,524...119,075,599
Ensembl chr 3:119,057,517...119,075,619 		JBrowse link
G Hmox1 heme oxygenase 1 susceptibility ISO CTD Direct Evidence: marker/mechanism CTD PMID:16582079, PMID:16582079 RGD:1601608 NCBI chr19:14,508,634...14,515,455
Ensembl chr19:14,508,616...14,515,456 		JBrowse link
G Icam1 intercellular adhesion molecule 1 treatment IEP associated with Reperfusion Injury RGD PMID:22882462 RGD:8547727 NCBI chr 8:22,035,287...22,047,049
Ensembl chr 8:22,035,256...22,047,059 		JBrowse link
G Ifnar1 interferon alpha and beta receptor subunit 1 resistance ISO Cryptococcus (yeast) pneumonia RGD PMID:18566423, PMID:18566423 RGD:5490275, RGD:5490275 NCBI chr11:31,640,407...31,666,839
Ensembl chr11:31,640,407...31,664,061 		JBrowse link
G Ifng interferon gamma ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419 		JBrowse link
G Ikbkb inhibitor of nuclear factor kappa B kinase subunit beta treatment IMP
ISO		 CTD Direct Evidence: marker/mechanism CTD PMID:31095431, PMID:20080200 RGD:7495767 NCBI chr16:74,177,233...74,230,809
Ensembl chr16:74,177,215...74,230,815 		JBrowse link
G Il10 interleukin 10 disease_progression ISO protein:increased expression:blood RGD PMID:20595152 RGD:4140400 NCBI chr13:47,738,933...47,743,392
Ensembl chr13:47,739,526...47,743,392 		JBrowse link
G Il13 interleukin 13 ISO associated with Respiratory Distress Syndrome, Newborn; protein:increased expression:bronchoalveolar lavage fluid
CTD Direct Evidence: marker/mechanism		 CTD PMID:21625544, PMID:19695190 RGD:4145774 NCBI chr10:38,982,909...38,985,466
Ensembl chr10:38,982,909...38,985,466 		JBrowse link
G Il13ra2 interleukin 13 receptor subunit alpha 2 ISO mRNA:increased expression:lung, fibroblast RGD PMID:15161635 RGD:4890021 NCBI chr  X:118,443,955...118,514,716
Ensembl chr  X:118,443,823...118,513,061 		JBrowse link
G Il17a interleukin 17A ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544, PMID:20498020, PMID:22848348 RGD:4888524, RGD:9068417 NCBI chr 9:26,841,299...26,844,786
Ensembl chr 9:26,841,299...26,844,786 		JBrowse link
G Il18 interleukin 18 ISO
IEP		 protein:increased expression:serum
CTD Direct Evidence: marker/mechanism
associated with reperfusion injury
mRNA, protein:increased expression:lung,bronchoalveolar fluid		 CTD PMID:21625544, PMID:15955140, PMID:16052682, PMID:11739527, PMID:17400729 RGD:4889836, RGD:4889825, RGD:729357, RGD:4889590 NCBI chr 8:55,009,666...55,016,286
Ensembl chr 8:54,993,859...55,016,299 		JBrowse link
G Il1a interleukin 1 alpha IEP mRNA:increased expression:lung RGD PMID:8806881 RGD:7794765 NCBI chr 3:121,824,712...121,836,122
Ensembl chr 3:121,825,412...121,836,086 		JBrowse link
G Il1b interleukin 1 beta ISO
IEP		 CTD Direct Evidence: marker/mechanism
mRNA:increased expression:lung
protein:increased expression:lung
mRNA, protein:increased expression:lung		 CTD PMID:21625544, PMID:20007584, PMID:20476872, PMID:19901996, PMID:19825784, PMID:20155581 RGD:4142812, RGD:4142536, RGD:4143211, RGD:4142831, RGD:4142827 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726 		JBrowse link
G Il1r1 interleukin 1 receptor type 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 9:46,962,291...47,038,139
Ensembl chr 9:46,962,288...47,036,670 		JBrowse link
G Il1r2 interleukin 1 receptor type 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 9:46,840,646...46,881,241
Ensembl chr 9:46,840,992...46,881,264 		JBrowse link
G Il1rn interleukin 1 receptor antagonist no_association
disease_progression		 ISO
IEP		 mRNA:increased expression:lung
mRNA:increased expression:bronchioalveolar lavage fluid, neutrophil (rat)
DNA:polymorphism (human)
DNA:polymorphism:intron (human)		 RGD PMID:17569781, PMID:1385928, PMID:16369129, PMID:19900796, PMID:18838927 RGD:4142871, RGD:8551846, RGD:4143213, RGD:4143204, RGD:4142865 NCBI chr 3:1,449,778...1,468,624
Ensembl chr 3:1,452,644...1,468,614 		JBrowse link
G Il27 interleukin 27 ISO RGD PMID:19124731 RGD:5128483 NCBI chr 1:198,003,615...198,010,112
Ensembl chr 1:198,003,683...198,008,893 		JBrowse link
G Il2rb interleukin 2 receptor subunit beta ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 7:119,701,338...119,716,238
Ensembl chr 7:119,701,251...119,716,238 		JBrowse link
G Il33 interleukin 33 ISO CTD Direct Evidence: marker/mechanism CTD PMID:24453940 NCBI chr 1:248,112,611...248,147,030
Ensembl chr 1:248,132,090...248,147,029 		JBrowse link
G Il4 interleukin 4 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr10:38,963,979...38,969,531
Ensembl chr10:38,963,979...38,969,531 		JBrowse link
G Il4r interleukin 4 receptor ISO mRNA:decreased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr 1:196,942,343...196,967,221
Ensembl chr 1:196,942,364...196,967,220 		JBrowse link
G Il5ra interleukin 5 receptor subunit alpha ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 4:138,796,165...138,834,164
Ensembl chr 4:138,795,327...138,830,117 		JBrowse link
G Il6 interleukin 6 disease_progression ISO protein:increased expression:blood
CTD Direct Evidence: marker/mechanism		 CTD PMID:21625544, PMID:20595152 RGD:4140400 NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807 		JBrowse link
G Il6st interleukin 6 signal transducer ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 2:44,279,199...44,319,427
Ensembl chr 2:44,289,393...44,314,944 		JBrowse link
G Itga2 integrin subunit alpha 2 treatment ISO RGD PMID:11207307 RGD:8693217 NCBI chr 2:46,996,904...47,097,011
Ensembl chr 2:47,000,323...47,096,961 		JBrowse link
G Itga4 integrin subunit alpha 4 treatment IMP RGD PMID:8703473 RGD:9698424 NCBI chr 3:66,178,745...66,265,547
Ensembl chr 3:66,193,059...66,263,960 		JBrowse link
G Itgb2 integrin subunit beta 2 IMP
ISO		 CTD Direct Evidence: marker/mechanism CTD PMID:21625544, PMID:10030843 RGD:6482228 NCBI chr20:11,777,773...11,815,647
Ensembl chr20:11,777,783...11,815,647 		JBrowse link
G Itgb3 integrin subunit beta 3 disease_progression ISO RGD PMID:12746502 RGD:5100478 NCBI chr10:92,667,869...92,783,413
Ensembl chr10:92,667,869...92,783,410 		JBrowse link
G Lias lipoic acid synthetase ISO CTD Direct Evidence: therapeutic CTD PMID:32017981 NCBI chr14:44,507,217...44,524,287
Ensembl chr14:44,507,218...44,524,252 		JBrowse link
G Mbl2 mannose binding lectin 2 ISO protein:increased secretion:lung (human)
protein:increased expression:Bronchoalveolar lavage:		 RGD PMID:18988662, PMID:15249448 RGD:4889459, RGD:8693755 NCBI chr 1:248,435,069...248,442,669
Ensembl chr 1:248,723,397...248,729,962 		JBrowse link
G Mif macrophage migration inhibitory factor severity ISO DNA:repeats:promoter RGD PMID:19346297 RGD:4891058 NCBI chr20:13,715,219...13,732,980
Ensembl chr20:13,732,198...13,732,859 		JBrowse link
G Mir20a microRNA 20a ISO RGD PMID:29115456 RGD:25823151 NCBI chr15:100,180,334...100,180,418
Ensembl chr15:100,180,334...100,180,418 		JBrowse link
G Mmp9 matrix metallopeptidase 9 ISO RGD PMID:18007984 RGD:5130157 NCBI chr 3:161,413,410...161,421,473
Ensembl chr 3:161,413,298...161,421,520 		JBrowse link
G Muc1 mucin 1, cell surface associated ISO protein:increased expression:serum RGD PMID:11802251 RGD:5131281 NCBI chr 2:188,543,137...188,547,874
Ensembl chr 2:188,543,137...188,547,874 		JBrowse link
G Muc2 mucin 2, oligomeric mucus/gel-forming treatment IDA RGD PMID:23590300 RGD:7349359 NCBI chr 1:214,663,929...214,693,197 JBrowse link
G Myd88 MYD88, innate immune signal transduction adaptor ISO CTD Direct Evidence: marker/mechanism CTD PMID:26882889 NCBI chr 8:128,022,512...128,027,462
Ensembl chr 8:128,022,473...128,026,841 		JBrowse link
G Mylk myosin light chain kinase ISO CTD Direct Evidence: marker/mechanism CTD PMID:15863634 NCBI chr11:69,013,060...69,260,039
Ensembl chr11:69,013,050...69,223,158 		JBrowse link
G Parp1 poly (ADP-ribose) polymerase 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:20561897 NCBI chr13:98,857,255...98,889,444
Ensembl chr13:98,857,177...98,889,716 		JBrowse link
G Pf4 platelet factor 4 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr14:18,848,549...18,849,258
Ensembl chr14:18,848,549...18,849,258 		JBrowse link
G Pomc proopiomelanocortin ISO CTD Direct Evidence: marker/mechanism CTD PMID:6254450 NCBI chr 6:28,382,937...28,388,771
Ensembl chr 6:28,382,962...28,388,967 		JBrowse link
G Reg3b regenerating family member 3 beta IDA RGD PMID:12579542 RGD:9831426 NCBI chr 4:109,467,272...109,470,510
Ensembl chr 4:109,467,272...109,470,510 		JBrowse link
G Serpine1 serpin family E member 1 disease_progression ISO Pneumonia, Ventilator-Associated; protein:increased expression:Bronchoalveolar Lavage Fluid
DNA:polymorphism:promoter:		 RGD PMID:20473240, PMID:19387177 RGD:4143511, RGD:4143525 NCBI chr12:22,641,104...22,651,482
Ensembl chr12:22,641,104...22,651,482 		JBrowse link
G Sftpa1 surfactant protein A1 ISO protein:decreased expression:lung RGD PMID:15967375, PMID:8542113 RGD:4143394, RGD:4143452 NCBI chr16:18,716,019...18,719,404
Ensembl chr16:18,716,019...18,719,403 		JBrowse link
G Sftpb surfactant protein B ISO RGD PMID:12594064, PMID:16024721, PMID:15967375 RGD:4143412, RGD:4143393, RGD:4143394 NCBI chr 4:100,166,855...100,175,941
Ensembl chr 4:100,166,863...100,175,938 		JBrowse link
G Sftpc surfactant protein C ISO RGD PMID:15967375 RGD:4143394 NCBI chr15:52,211,538...52,214,480
Ensembl chr15:52,211,544...52,214,616 		JBrowse link
G Sftpd surfactant protein D ISO associated with Bronchitis;protein:decreased expression:lung RGD PMID:18266831, PMID:17925426, PMID:15967375 RGD:4143517, RGD:4143504, RGD:4143394 NCBI chr16:18,753,535...18,766,100
Ensembl chr16:18,745,458...18,766,174 		JBrowse link
G Sirt1 sirtuin 1 ISO CTD Direct Evidence: therapeutic CTD PMID:24633890 NCBI chr20:26,831,971...26,851,587
Ensembl chr20:26,833,357...26,852,199 		JBrowse link
G Slc11a2 solute carrier family 11 member 2 IMP RGD PMID:21278260 RGD:5688709 NCBI chr 7:142,025,812...142,062,892
Ensembl chr 7:142,025,815...142,063,212 		JBrowse link
G Sod3 superoxide dismutase 3 ISO RGD PMID:16842247 RGD:1581268 NCBI chr14:60,958,583...60,971,143
Ensembl chr14:60,958,592...60,964,324 		JBrowse link
G Spp1 secreted phosphoprotein 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr14:6,673,686...6,679,965
Ensembl chr14:6,673,686...6,679,901 		JBrowse link
G Tgfb1 transforming growth factor, beta 1 severity ISO CTD Direct Evidence: marker/mechanism
protein:increased expression:lung		 CTD PMID:21625544, PMID:19181604, PMID:19965809 RGD:4145141, RGD:4145120 NCBI chr 1:82,480,875...82,497,196
Ensembl chr 1:82,480,195...82,497,199 		JBrowse link
G Tlr2 toll-like receptor 2 susceptibility ISO RGD PMID:19011150 RGD:4145330 NCBI chr 2:182,840,171...182,846,061
Ensembl chr 2:182,840,727...182,846,061 		JBrowse link
G Tlr4 toll-like receptor 4 ISO CTD Direct Evidence: marker/mechanism CTD PMID:26882889, PMID:20357263 RGD:4142858 NCBI chr 5:82,587,424...82,601,056
Ensembl chr 5:82,587,420...82,601,052 		JBrowse link
G Tnc tenascin C ISO protein:increased expression:serum, respiratory system fluid/secretion RGD PMID:19721293 RGD:4889573 NCBI chr 5:79,789,686...79,874,555
Ensembl chr 5:79,789,671...79,874,671 		JBrowse link
G Tnf tumor necrosis factor ISO CTD Direct Evidence: marker/mechanism|therapeutic CTD PMID:21625544 PMID:28917655 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
G Tnfrsf1a TNF receptor superfamily member 1A ISO CTD Direct Evidence: marker/mechanism CTD PMID:21625544 NCBI chr 4:157,864,905...157,877,634
Ensembl chr 4:157,864,969...157,877,633 		JBrowse link
G Tnfrsf1b TNF receptor superfamily member 1B susceptibility ISO Idiopathic Pneumonia Syndrome
CTD Direct Evidence: marker/mechanism
associated with Carcinoma, Non-Small-Cell Lung; DNA:snp:cds:p.M196R rs1061622 (human)		 CTD PMID:21625544, PMID:18664626, PMID:20811626 RGD:5131448, RGD:5131286 NCBI chr 5:163,136,390...163,167,299
Ensembl chr 5:163,136,390...163,167,299 		JBrowse link
G Tnfsf12 TNF superfamily member 12 ISO mRNA:decreased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr10:56,290,780...56,300,137
Ensembl chr10:56,290,780...56,300,077 		JBrowse link
G Ttr transthyretin ISO ClinVar Annotator: match by term: Pneumonia ClinVar PMID:1351039 PMID:1358785 PMID:1997217 PMID:2002274 PMID:2063870 PMID:2237288 PMID:2320592 PMID:2349941 PMID:2590199 PMID:2646319 PMID:3030336 PMID:3229002 PMID:3627183 PMID:3934968 PMID:7868124 PMID:8698351 PMID:9017939 PMID:10762172 PMID:10842715 PMID:11385707 PMID:11752419 PMID:11752443 PMID:12050338 PMID:12217248 PMID:12874413 PMID:12874414 PMID:14569203 PMID:14640030 PMID:15123043 PMID:15299606 PMID:15820680 PMID:16011990 PMID:16432141 PMID:16631014 PMID:16631015 PMID:17251346 PMID:17503405 PMID:18276611 PMID:18318779 PMID:18830126 PMID:19781421 PMID:20301373 PMID:20435197 PMID:21600538 PMID:22083004 PMID:22184092 PMID:22745357 PMID:22877808 PMID:22995991 PMID:23414091 PMID:23713495 PMID:23716704 PMID:24073013 PMID:24184229 PMID:24474780 PMID:24517438 PMID:24633258 PMID:24818650 PMID:24945718 PMID:25225131 PMID:25395306 PMID:25551524 PMID:25741868 PMID:25819286 PMID:25846356 PMID:26123279 PMID:26428663 PMID:26467025 PMID:26537620 PMID:28492532 NCBI chr18:15,532,963...15,542,180
Ensembl chr18:15,532,963...15,540,177 		JBrowse link
G Vdr vitamin D receptor susceptibility ISO DNA:SNP: :rs2239185(human) RGD PMID:17224129, PMID:25367052 RGD:4889851, RGD:11074745 NCBI chr 7:139,344,452...139,394,138
Ensembl chr 7:139,342,063...139,394,166 		JBrowse link
acute interstitial pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bmp1 bone morphogenetic protein 1 ISO ClinVar Annotator: match by term: Hamman-Rich syndrome ClinVar PMID:24033266 PMID:25741868 NCBI chr15:52,166,401...52,210,786
Ensembl chr15:52,166,401...52,210,746 		JBrowse link
G Sftpc surfactant protein C ISO ClinVar Annotator: match by term: Hamman-Rich syndrome ClinVar PMID:15516475 PMID:19910179 PMID:24033266 PMID:25741868 PMID:28492532 NCBI chr15:52,211,538...52,214,480
Ensembl chr15:52,211,544...52,214,616 		JBrowse link
G Tert telomerase reverse transcriptase ISO ClinVar Annotator: match by term: Hamman-Rich syndrome ClinVar PMID:28492532 NCBI chr 1:32,250,876...32,275,330
Ensembl chr 1:32,251,714...32,272,476 		JBrowse link
aspiration pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ace angiotensin I converting enzyme ISO associated with Cerebrovascular Accident RGD PMID:14990394 RGD:4140926 NCBI chr10:94,170,766...94,213,831
Ensembl chr10:94,170,766...94,187,822 		JBrowse link
G Cxcl1 C-X-C motif chemokine ligand 1 IEP RGD PMID:19515386 RGD:4891456 NCBI chr14:18,743,678...18,745,457
Ensembl chr14:18,743,685...18,745,457 		JBrowse link
G Cxcl2 C-X-C motif chemokine ligand 2 IEP RGD PMID:19515386 RGD:4891456 NCBI chr14:18,731,346...18,733,391
Ensembl chr14:18,731,378...18,733,391 		JBrowse link
G Edn1 endothelin 1 IEP protein:increased secretion:plasma (rat) RGD PMID:19262391 RGD:4145069 NCBI chr17:22,136,814...22,143,745
Ensembl chr17:22,137,324...22,143,324 		JBrowse link
G Flna filamin A ISO ClinVar Annotator: match by term: Aspiration pneumonia ClinVar PMID:28492532 PMID:30311386 NCBI chr  X:156,460,785...156,487,245
Ensembl chr  X:156,463,953...156,487,245 		JBrowse link
G Il1a interleukin 1 alpha IEP protein:increased expression:Bronchoalveolar Lavage Fluid RGD PMID:18042282 RGD:4142854 NCBI chr 3:121,824,712...121,836,122
Ensembl chr 3:121,825,412...121,836,086 		JBrowse link
G Iqsec2 IQ motif and Sec7 domain ArfGEF 2 ISO ClinVar Annotator: match by term: Aspiration pneumonia ClinVar PMID:30311386 NCBI chr  X:22,212,137...22,293,810
Ensembl chr  X:22,212,132...22,294,402 		JBrowse link
G Nos2 nitric oxide synthase 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:15607125 NCBI chr10:66,188,290...66,221,621
Ensembl chr10:66,189,786...66,313,190 		JBrowse link
G Plec plectin ISO ClinVar Annotator: match by term: Aspiration pneumonia ClinVar PMID:28492532 PMID:30311386 NCBI chr 7:117,230,319...117,291,859
Ensembl chr 7:117,230,319...117,289,961 		JBrowse link
G Tnf tumor necrosis factor IEP protein:increased expression:Bronchoalveolar Lavage Fluid RGD PMID:18042282 RGD:4142854 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
bacterial pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abcc1 ATP binding cassette subfamily C member 1 ISO RGD PMID:11238654 RGD:5128828 NCBI chr10:549,537...672,235
Ensembl chr10:549,883...672,196 		JBrowse link
G Ace2 angiotensin I converting enzyme 2 ISO associated with Pseudomonas Infections;mRNA, protein:altered expression, altered activity:lung (mouse) RGD PMID:31645418 RGD:40818279 NCBI chr  X:32,050,734...32,095,860
Ensembl chr  X:32,049,931...32,096,016 		JBrowse link
G Ager advanced glycosylation end product-specific receptor severity ISO RGD PMID:21629785 RGD:6767559 NCBI chr20:4,363,152...4,366,079
Ensembl chr20:4,363,152...4,366,079 		JBrowse link
G C3 complement C3 ISO RGD PMID:16014897 RGD:5129508 NCBI chr 9:9,721,137...9,747,084
Ensembl chr 9:9,721,105...9,747,167 		JBrowse link
G C3ar1 complement C3a receptor 1 ISO RGD PMID:16461429 RGD:5129690 NCBI chr 4:155,681,767...155,691,240
Ensembl chr 4:155,684,029...155,690,869 		JBrowse link
G C5 complement C5 ISO RGD PMID:17975174 RGD:5129707 NCBI chr 3:14,049,993...14,113,931
NCBI chr 3:14,206,466...14,229,141
Ensembl chr 3:14,049,995...14,229,080 		JBrowse link
G Cat catalase IDA protein:decreased expression:lung, plasma RGD PMID:19842849 RGD:5130748 NCBI chr 3:93,379,872...93,412,058
Ensembl chr 3:93,379,874...93,412,058 		JBrowse link
G Ccl19 C-C motif chemokine ligand 19 ISO mRNA, protein:increased expression:lung RGD PMID:20176793 RGD:5130918 NCBI chr 5:58,181,025...58,182,969
Ensembl chr 5:58,181,026...58,183,017 		JBrowse link
G Ccl2 C-C motif chemokine ligand 2 ISO RGD PMID:20042590 RGD:4891443 NCBI chr10:69,412,065...69,413,863
Ensembl chr10:69,412,017...69,413,870 		JBrowse link
G Ccl4 C-C motif chemokine ligand 4 ISO RGD PMID:20483921 RGD:5130905 NCBI chr10:70,870,926...70,886,357
Ensembl chr10:70,884,531...70,886,355 		JBrowse link
G Ccr2 C-C motif chemokine receptor 2 ISO RGD PMID:20042590 RGD:4891443
G Ccr7 C-C motif chemokine receptor 7 ISO RGD PMID:20176793 RGD:5130918 NCBI chr10:87,057,335...87,067,444
Ensembl chr10:87,057,136...87,067,456 		JBrowse link
G Cd14 CD14 molecule ISO RGD PMID:16210672 RGD:4144197 NCBI chr18:29,560,341...29,562,290
Ensembl chr18:29,560,365...29,562,153 		JBrowse link
G Cd40 CD40 molecule ISO RGD PMID:20102413 RGD:5132268 NCBI chr 3:161,519,789...161,534,943
Ensembl chr 3:161,519,743...161,534,704 		JBrowse link
G Cd80 Cd80 molecule ISO RGD PMID:20949109 RGD:4892562 NCBI chr11:64,815,201...64,855,293
Ensembl chr11:64,827,635...64,855,353 		JBrowse link
G Chuk component of inhibitor of nuclear factor kappa B kinase complex ISO RGD PMID:18643924 RGD:5133701 NCBI chr 1:263,848,829...263,884,354
Ensembl chr 1:263,848,884...263,885,169 		JBrowse link
G Csf3 colony stimulating factor 3 disease_progression
treatment		 ISO associated with Peritonitis; RGD PMID:21373266, PMID:12352049 RGD:5133733, RGD:11039437 NCBI chr10:86,616,785...86,619,160
Ensembl chr10:86,616,785...86,619,157 		JBrowse link
G Csf3r colony stimulating factor 3 receptor disease_progression ISO RGD PMID:17185469 RGD:5133739 NCBI chr 5:144,031,353...144,051,966
Ensembl chr 5:144,031,402...144,051,600 		JBrowse link
G Cxcl1 C-X-C motif chemokine ligand 1 ISO
IEP		 RGD PMID:21723409, PMID:11052817 RGD:5135062, RGD:5135234 NCBI chr14:18,743,678...18,745,457
Ensembl chr14:18,743,685...18,745,457 		JBrowse link
G Cxcl10 C-X-C motif chemokine ligand 10 severity ISO RGD PMID:16299319, PMID:15618188 RGD:5135458, RGD:5135459 NCBI chr14:17,210,733...17,212,930
Ensembl chr14:17,210,733...17,212,930 		JBrowse link
G Cxcl11 C-X-C motif chemokine ligand 11 ISO RGD PMID:15618188 RGD:5135459 NCBI chr14:17,195,395...17,198,170
Ensembl chr14:17,195,014...17,198,291 		JBrowse link
G Cxcl2 C-X-C motif chemokine ligand 2 severity ISO
IEP		 RGD PMID:19239431, PMID:11052817, PMID:21723409 RGD:5135065, RGD:5135234, RGD:5135062 NCBI chr14:18,731,346...18,733,391
Ensembl chr14:18,731,378...18,733,391 		JBrowse link
G Cxcl3 C-X-C motif chemokine ligand 3 IEP RGD PMID:11052817 RGD:5135234 NCBI chr14:18,820,168...18,839,659
Ensembl chr14:18,820,168...18,839,595 		JBrowse link
G Cxcl6 C-X-C motif chemokine ligand 6 ISO RGD PMID:19846873 RGD:4145490 NCBI chr14:18,860,201...18,920,839
Ensembl chr14:18,860,264...18,862,407 		JBrowse link
G Cxcl9 C-X-C motif chemokine ligand 9 ISO RGD PMID:15618188 RGD:5135459 NCBI chr14:17,228,832...17,233,743
Ensembl chr14:17,228,856...17,234,712 		JBrowse link
G Cxcr3 C-X-C motif chemokine receptor 3 ISO RGD PMID:15618188 RGD:5135459 NCBI chr  X:71,614,346...71,616,997
Ensembl chr  X:71,614,346...71,616,997 		JBrowse link
G Cyp2j4 cytochrome P450, family 2, subfamily j, polypeptide 4 IEP protein:decreased expression:lung RGD PMID:14766666 RGD:1625385 NCBI chr 5:119,546,458...119,564,843
Ensembl chr 5:119,546,461...119,564,846 		JBrowse link
G Defb4 defensin beta 4 ISO protein:increased expression:plasma RGD PMID:10213993 RGD:4892266 NCBI chr16:75,634,598...75,637,789
Ensembl chr16:75,634,598...75,637,789 		JBrowse link
G F2 coagulation factor II IEP protein:increased expression:lung RGD PMID:21897338 RGD:6893486 NCBI chr 3:80,529,468...80,542,993
Ensembl chr 3:80,529,428...80,543,031 		JBrowse link
G Fcgr2a Fc fragment of IgG receptor IIa ISO RGD PMID:17975174 RGD:5129707 NCBI chr13:91,146,878...91,163,691
Ensembl chr13:91,168,973...91,198,036
Ensembl chr13:91,168,973...91,198,036 		JBrowse link
G Foxp3 forkhead box P3 severity ISO RGD PMID:25398094 RGD:38501102 NCBI chr  X:15,753,175...15,768,648
Ensembl chr  X:15,753,175...15,768,522 		JBrowse link
G Icam1 intercellular adhesion molecule 1 ISO protein:increased expression:lung (mouse) RGD PMID:19846873 RGD:4145490 NCBI chr 8:22,035,287...22,047,049
Ensembl chr 8:22,035,256...22,047,059 		JBrowse link
G Ifnar1 interferon alpha and beta receptor subunit 1 severity ISO RGD PMID:19487810, PMID:19487810 RGD:5490274, RGD:5490274 NCBI chr11:31,640,407...31,666,839
Ensembl chr11:31,640,407...31,664,061 		JBrowse link
G Ifng interferon gamma severity ISO RGD PMID:25398094 RGD:38501102 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419 		JBrowse link
G Il10 interleukin 10 severity ISO RGD PMID:25398094 RGD:38501102 NCBI chr13:47,738,933...47,743,392
Ensembl chr13:47,739,526...47,743,392 		JBrowse link
G Il15 interleukin 15 ISO RGD PMID:17911627 RGD:5000754 NCBI chr19:23,542,606...23,624,366
Ensembl chr19:23,542,889...23,554,594 		JBrowse link
G Il17a interleukin 17A severity ISO RGD PMID:18802100, PMID:25398094 RGD:4889153, RGD:38501102 NCBI chr 9:26,841,299...26,844,786
Ensembl chr 9:26,841,299...26,844,786 		JBrowse link
G Il18 interleukin 18 ISO RGD PMID:17664259 RGD:4889913 NCBI chr 8:55,009,666...55,016,286
Ensembl chr 8:54,993,859...55,016,299 		JBrowse link
G Il1b interleukin 1 beta severity
treatment		 ISO associated with Agranulocytosis RGD PMID:18596024, PMID:25398094, PMID:7546648 RGD:4143205, RGD:38501102, RGD:10755357 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726 		JBrowse link
G Il1rl1 interleukin 1 receptor-like 1 treatment ISO
IEP		 associated with Sepsis
associated with Acinetobacter infectious disease		 RGD PMID:20959556, PMID:29508184 RGD:5144223, RGD:40818077 NCBI chr 9:47,133,483...47,184,316
Ensembl chr 9:47,134,034...47,182,170 		JBrowse link
G Il1rn interleukin 1 receptor antagonist ISO RGD PMID:18596024, PMID:18322242 RGD:4143205, RGD:4143206 NCBI chr 3:1,449,778...1,468,624
Ensembl chr 3:1,452,644...1,468,614 		JBrowse link
G Il22 interleukin 22 ISO RGD PMID:21178015 RGD:5147404 NCBI chr 7:61,236,037...61,240,502
Ensembl chr 7:61,236,037...61,240,502 		JBrowse link
G Il6 interleukin 6 severity ISO RGD PMID:25398094 RGD:38501102 NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807 		JBrowse link
G Irak3 interleukin-1 receptor-associated kinase 3 ISO RGD PMID:28120642, PMID:20439918 RGD:34888234, RGD:36049799 NCBI chr 7:64,922,830...64,982,224
Ensembl chr 7:64,923,615...64,982,281 		JBrowse link
G Irf1 interferon regulatory factor 1 ISO RGD PMID:11854220 RGD:5128725 NCBI chr10:39,109,530...39,116,532
Ensembl chr10:39,109,522...39,116,531 		JBrowse link
G Irf3 interferon regulatory factor 3 ISO RGD PMID:20720199 RGD:4891951 NCBI chr 1:100,992,244...100,997,202
Ensembl chr 1:100,992,405...100,997,198 		JBrowse link
G Itgb3 integrin subunit beta 3 IEP protein:increased expression:lung, neutrophil RGD PMID:15114484 RGD:4993468 NCBI chr10:92,667,869...92,783,413
Ensembl chr10:92,667,869...92,783,410 		JBrowse link
G Lep leptin ISO RGD PMID:11937559 RGD:5128871 NCBI chr 4:56,337,695...56,351,818
Ensembl chr 4:56,337,695...56,351,818 		JBrowse link
G Mbl2 mannose binding lectin 2 ISO Legionella Pneumonia; DNA:mutations:5' utr, exon:multiple (human) RGD PMID:18641104 RGD:4889477 NCBI chr 1:248,435,069...248,442,669
Ensembl chr 1:248,723,397...248,729,962 		JBrowse link
G Mc1r melanocortin 1 receptor ISO RGD PMID:18304533 RGD:5687324 NCBI chr19:56,215,420...56,219,987 JBrowse link
G Mmp9 matrix metallopeptidase 9 ISO protein:increased expression:bronchoalveolar lavage fluid RGD PMID:17202364, PMID:19535150 RGD:5130727, RGD:5129533 NCBI chr 3:161,413,410...161,421,473
Ensembl chr 3:161,413,298...161,421,520 		JBrowse link
G Mpo myeloperoxidase ISO protein:increased activity:bronchoalveolar lavage Fluid: RGD PMID:11269653 RGD:5130992 NCBI chr10:75,087,892...75,098,260
Ensembl chr10:75,087,892...75,098,260 		JBrowse link
G Nod1 nucleotide-binding oligomerization domain containing 1 ISO RGD PMID:19360122 RGD:5131449 NCBI chr 4:85,123,965...85,175,206
Ensembl chr 4:85,123,960...85,174,951 		JBrowse link
G Nod2 nucleotide-binding oligomerization domain containing 2 ISO RGD PMID:19360122 RGD:5131449 NCBI chr19:19,342,061...19,389,366
Ensembl chr19:19,332,594...19,377,492 		JBrowse link
G Pdpn podoplanin IEP protein:increased expression:lung RGD PMID:7864138 RGD:2292375 NCBI chr 5:161,947,137...161,981,441
Ensembl chr 5:161,947,137...161,981,441 		JBrowse link
G Pecam1 platelet and endothelial cell adhesion molecule 1 IEP protein:decreased expression:lung RGD PMID:12524254 RGD:724645 NCBI chr10:94,850,971...94,913,202 JBrowse link
G Pgf placental growth factor ISO protein:increased expression:plasma RGD PMID:16702604 RGD:6483601 NCBI chr 6:108,994,016...109,004,598
Ensembl chr 6:108,994,018...109,004,598 		JBrowse link
G Rorc RAR-related orphan receptor C severity ISO RGD PMID:25398094 RGD:38501102 NCBI chr 2:195,612,471...195,636,797
Ensembl chr 2:195,617,021...195,637,630 		JBrowse link
G Serpine1 serpin family E member 1 severity ISO RGD PMID:17032919 RGD:4144840 NCBI chr12:22,641,104...22,651,482
Ensembl chr12:22,641,104...22,651,482 		JBrowse link
G Sftpa1 surfactant protein A1 IEP protein:increased expression:lung RGD PMID:12169586 RGD:4143464 NCBI chr16:18,716,019...18,719,404
Ensembl chr16:18,716,019...18,719,403 		JBrowse link
G Sftpb surfactant protein B ISO
IEP		 associated with Cystic Fibrosis;protein:increased expression:lung RGD PMID:15271694, PMID:12169586 RGD:4143403, RGD:4143464 NCBI chr 4:100,166,855...100,175,941
Ensembl chr 4:100,166,863...100,175,938 		JBrowse link
G Sftpc surfactant protein C ISO
IEP		 RGD PMID:18566429, PMID:12169586 RGD:4144114, RGD:4143464 NCBI chr15:52,211,538...52,214,480
Ensembl chr15:52,211,544...52,214,616 		JBrowse link
G Sftpd surfactant protein D ISO
IEP		 associated with Cystic Fibrosis;protein:decreased expression:lung
protein:increased expression:lung		 RGD PMID:15271694, PMID:12169586 RGD:4143403, RGD:4143464 NCBI chr16:18,753,535...18,766,100
Ensembl chr16:18,745,458...18,766,174 		JBrowse link
G Stat3 signal transducer and activator of transcription 3 ISO RGD PMID:18192501 RGD:6892945 NCBI chr10:88,790,401...88,842,263
Ensembl chr10:88,790,408...88,842,233 		JBrowse link
G Tgfb1 transforming growth factor, beta 1 severity ISO RGD PMID:25398094 RGD:38501102 NCBI chr 1:82,480,875...82,497,196
Ensembl chr 1:82,480,195...82,497,199 		JBrowse link
G Tlr2 toll-like receptor 2 ISO
IDA		 RGD PMID:18768871, PMID:19844782 RGD:4145337, RGD:4889533 NCBI chr 2:182,840,171...182,846,061
Ensembl chr 2:182,840,727...182,846,061 		JBrowse link
G Tlr4 toll-like receptor 4 ISO RGD PMID:20650991, PMID:16210672 RGD:4144172, RGD:4144197 NCBI chr 5:82,587,424...82,601,056
Ensembl chr 5:82,587,420...82,601,052 		JBrowse link
G Tlr5 toll-like receptor 5 ISO RGD PMID:19801452 RGD:5129503 NCBI chr13:101,364,784...101,385,764
Ensembl chr13:101,381,510...101,385,764 		JBrowse link
G Tlr6 toll-like receptor 6 IDA RGD PMID:19844782 RGD:4889533 NCBI chr14:45,024,351...45,041,188
Ensembl chr14:45,024,351...45,046,446 		JBrowse link
G Tlr9 toll-like receptor 9 ISO RGD PMID:20360853 RGD:5130719 NCBI chr 8:114,916,122...114,920,171
Ensembl chr 8:114,916,122...114,920,171 		JBrowse link
G Tnf tumor necrosis factor disease_progression
treatment
severity		 ISO associated with Agranulocytosis RGD PMID:10650487, PMID:7546648, PMID:9310939, PMID:12958055 RGD:4143476, RGD:10755357, RGD:10450564, RGD:10449451 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
G Tnfrsf1a TNF receptor superfamily member 1A ISO protein:increased expression:serum (mouse) RGD PMID:19842848 RGD:5131429 NCBI chr 4:157,864,905...157,877,634
Ensembl chr 4:157,864,969...157,877,633 		JBrowse link
G Tnfrsf1b TNF receptor superfamily member 1B ISO protein:increased expression:serum (mouse) RGD PMID:19842848 RGD:5131429 NCBI chr 5:163,136,390...163,167,299
Ensembl chr 5:163,136,390...163,167,299 		JBrowse link
G Zc3h12a zinc finger CCCH type containing 12A ISO associated with Pseudomonas Infections RGD PMID:29695841 RGD:39938967 NCBI chr 5:143,111,342...143,120,131
Ensembl chr 5:143,111,074...143,120,165 		JBrowse link
bronchopneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ccl5 C-C motif chemokine ligand 5 ISO protein:increased secretion:serum (human) RGD PMID:20350425 RGD:4892019 NCBI chr10:70,739,764...70,744,303
Ensembl chr10:70,739,800...70,744,315 		JBrowse link
G Cxcr2 C-X-C motif chemokine receptor 2 disease_progression ISO associated with Plague RGD PMID:21356370 RGD:5134954 NCBI chr 9:81,427,275...81,435,065
Ensembl chr 9:81,427,730...81,434,102 		JBrowse link
G Mbl2 mannose binding lectin 2 ISO associated with Down Syndrome; protein:decreased secretion:serum (human) RGD PMID:19804807 RGD:4889483 NCBI chr 1:248,435,069...248,442,669
Ensembl chr 1:248,723,397...248,729,962 		JBrowse link
Chlamydia pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pik3cd phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit delta severity ISO RGD PMID:29893841 RGD:40890270 NCBI chr 5:166,602,053...166,628,028
Ensembl chr 5:166,602,053...166,628,028 		JBrowse link
cryptogenic organizing pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Tnfrsf1a TNF receptor superfamily member 1A ISO protein:increased expression:lung, macrophage (human) RGD PMID:21144722 RGD:5131112 NCBI chr 4:157,864,905...157,877,634
Ensembl chr 4:157,864,969...157,877,633 		JBrowse link
G Tnfrsf1b TNF receptor superfamily member 1B ISO protein:increased expression:lung, lymphocyte (human) RGD PMID:21144722 RGD:5131112 NCBI chr 5:163,136,390...163,167,299
Ensembl chr 5:163,136,390...163,167,299 		JBrowse link
desquamative interstitial pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Sftpc surfactant protein C ISS OMIM:263000 MouseDO NCBI chr15:52,211,538...52,214,480
Ensembl chr15:52,211,544...52,214,616 		JBrowse link
idiopathic interstitial pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cxcl6 C-X-C motif chemokine ligand 6 ISO associated with Scleroderma, Diffuse
protein:increased expression:serum		 RGD PMID:18432520, PMID:16085216 RGD:5135258, RGD:5135260 NCBI chr14:18,860,201...18,920,839
Ensembl chr14:18,860,264...18,862,407 		JBrowse link
G Icam1 intercellular adhesion molecule 1 ISO protein:increased expression:lung, alveolar macrophage (human) RGD PMID:19218648 RGD:4145518 NCBI chr 8:22,035,287...22,047,049
Ensembl chr 8:22,035,256...22,047,059 		JBrowse link
G Il6 interleukin 6 IEP protein:increased expression:bronchoalveolar lavage (rat) RGD PMID:10988147 RGD:11062092 NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807 		JBrowse link
G Keap1 Kelch-like ECH-associated protein 1 ISO protein:increased expression:hyperplastic lung epithelium, alveolus (human) RGD PMID:20718723 RGD:6893300 NCBI chr 8:22,250,518...22,259,868
Ensembl chr 8:22,250,518...22,259,779 		JBrowse link
G Mtor mechanistic target of rapamycin kinase ISO RGD PMID:21444868 RGD:7245946 NCBI chr 5:165,263,813...165,373,967
Ensembl chr 5:165,263,800...165,373,967 		JBrowse link
G Scgb1a1 secretoglobin family 1A member 1 ISO protein:increased expression:serum RGD PMID:15467329 RGD:5144148 NCBI chr 1:225,279,698...225,283,246
Ensembl chr 1:225,279,676...225,283,326 		JBrowse link
idiopathic pulmonary fibrosis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abca3 ATP binding cassette subfamily A member 3 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:25741868 NCBI chr10:13,723,365...13,780,558
Ensembl chr10:13,723,405...13,779,963 		JBrowse link
G Ahrr aryl-hydrocarbon receptor repressor ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,603,297...31,698,329
Ensembl chr 1:31,603,297...31,698,329 		JBrowse link
G Apoa1 apolipoprotein A1 ISO protein: decreased expression: respiratory system fluid/secretion RGD PMID:20463180 RGD:5508222 NCBI chr 8:50,525,091...50,526,875
Ensembl chr 8:50,525,091...50,526,875 		JBrowse link
G Atp11a ATPase phospholipid transporting 11A ISO CTD Direct Evidence: marker/mechanism CTD PMID:23583980 NCBI chr16:81,990,340...82,100,222
Ensembl chr16:81,990,340...82,100,222 		JBrowse link
G Bmp1 bone morphogenetic protein 1 ISO ClinVar Annotator: match by term: Idiopathic Pulmonary Fibrosis ClinVar PMID:24033266 PMID:25741868 NCBI chr15:52,166,401...52,210,786
Ensembl chr15:52,166,401...52,210,746 		JBrowse link
G Brd4 bromodomain containing 4 ISO RGD PMID:23759512 RGD:9586353 NCBI chr 7:14,222,101...14,303,055
Ensembl chr 7:14,222,101...14,303,055 		JBrowse link
G Brd9 bromodomain containing 9 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,939,612...31,968,120
Ensembl chr 1:31,939,585...31,967,915 		JBrowse link
G Ccl12 chemokine (C-C motif) ligand 12 ISO CTD Direct Evidence: therapeutic CTD PMID:28434932 NCBI chr10:69,476,866...69,478,416
Ensembl chr10:69,476,775...69,478,462 		JBrowse link
G Cep72 centrosomal protein 72 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,834,977...31,864,938
Ensembl chr 1:31,835,000...31,864,628 		JBrowse link
G Cflar CASP8 and FADD-like apoptosis regulator ISO mRNA,protein:increased expression:lung myofibroblast: RGD PMID:22582174 RGD:11341695 NCBI chr 9:65,534,608...65,586,395
Ensembl chr 9:65,534,704...65,587,251 		JBrowse link
G Ctc1 CST telomere replication complex component 1 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr10:55,596,172...55,616,873
Ensembl chr10:55,596,148...55,616,889 		JBrowse link
G Cxcl6 C-X-C motif chemokine ligand 6 ISO DNA:polymorphism:promoter:-156G>C (human)
protein:increased expression:lung, macrophage, type II pneumocyte		 RGD PMID:20137269, PMID:11751193 RGD:5135241, RGD:5135250 NCBI chr14:18,860,201...18,920,839
Ensembl chr14:18,860,264...18,862,407 		JBrowse link
G Dpp9 dipeptidyl peptidase 9 ISO CTD Direct Evidence: marker/mechanism CTD PMID:23583980 NCBI chr 9:10,846,493...10,882,560
Ensembl chr 9:10,846,596...10,882,649 		JBrowse link
G Dsp desmoplakin ISO CTD Direct Evidence: marker/mechanism CTD PMID:23583980 NCBI chr17:27,286,811...27,334,453
Ensembl chr17:27,286,796...27,334,379 		JBrowse link
G Dtnbp1 dystrobrevin binding protein 1 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr17:20,090,136...20,182,332
Ensembl chr17:20,090,246...20,182,206 		JBrowse link
G Ehmt2 euchromatic histone lysine methyltransferase 2 ISO RGD PMID:24652950 RGD:9589169 NCBI chr20:4,576,033...4,592,980
Ensembl chr20:4,576,057...4,592,980 		JBrowse link
G Esr1 estrogen receptor 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:30165855 NCBI chr 1:41,192,029...41,594,799
Ensembl chr 1:41,192,824...41,594,796 		JBrowse link
G Exoc3 exocyst complex component 3 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,700,953...31,731,726
Ensembl chr 1:31,700,953...31,731,815 		JBrowse link
G F3 coagulation factor III, tissue factor ISO protein:increased expression:respiratory system fluid/secretion RGD PMID:10946084 RGD:11060143 NCBI chr 2:225,310,686...225,322,281
Ensembl chr 2:225,310,624...225,322,272 		JBrowse link
G Fam13a family with sequence similarity 13, member A ISO CTD Direct Evidence: marker/mechanism CTD PMID:23583980 NCBI chr 4:89,183,180...89,281,282
Ensembl chr 4:89,183,768...89,281,222 		JBrowse link
G Fas Fas cell surface death receptor ISO RGD PMID:15148335 RGD:11049166 NCBI chr 1:252,589,785...252,624,790
Ensembl chr 1:252,589,785...252,624,790 		JBrowse link
G Faslg Fas ligand ISO RGD PMID:15148335 RGD:11049166 NCBI chr13:79,696,811...79,717,581
Ensembl chr13:79,698,445...79,705,705 		JBrowse link
G Fosl2 FOS like 2, AP-1 transcription factor subunit ISS OMIM:178500 MouseDO NCBI chr 6:25,598,936...25,616,995
Ensembl chr 6:25,598,936...25,616,995 		JBrowse link
G Gper1 G protein-coupled estrogen receptor 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:30165855 NCBI chr12:17,309,122...17,315,267
Ensembl chr12:17,309,834...17,311,112 		JBrowse link
G Hif1a hypoxia inducible factor 1 subunit alpha ISO CTD Direct Evidence: therapeutic CTD PMID:28434932 NCBI chr 6:96,810,868...96,856,303
Ensembl chr 6:96,810,907...96,856,052 		JBrowse link
G Hps4 HPS4, biogenesis of lysosomal organelles complex 3 subunit 2 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr12:50,285,239...50,315,893
Ensembl chr12:50,285,278...50,314,406 		JBrowse link
G Il1rl1 interleukin 1 receptor-like 1 ISO protein:increased expression:serum RGD PMID:14555548 RGD:5144236 NCBI chr 9:47,133,483...47,184,316
Ensembl chr 9:47,134,034...47,182,170 		JBrowse link
G Il1rn interleukin 1 receptor antagonist ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr 3:1,449,778...1,468,624
Ensembl chr 3:1,452,644...1,468,614 		JBrowse link
G Il2ra interleukin 2 receptor subunit alpha ISO RGD PMID:21309737 RGD:5147438 NCBI chr17:70,500,672...70,547,929
Ensembl chr17:70,499,083...70,548,071 		JBrowse link
G Lama3 laminin subunit alpha 3 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr18:3,704,866...3,941,215
Ensembl chr18:3,705,916...3,940,838 		JBrowse link
G Mmp1 matrix metallopeptidase 1 ISO protein:increased expression:lung,bronchoalveolar lavage fluid:
ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form		 ClinVar PMID:18447576 RGD:4890373 NCBI chr 8:5,703,206...5,723,593
Ensembl chr 8:5,703,206...5,723,591 		JBrowse link
G Mmp19 matrix metallopeptidase 19 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr 7:3,216,392...3,224,202
Ensembl chr 7:3,216,497...3,224,201 		JBrowse link
G Mmp3 matrix metallopeptidase 3 ISO mRNA, protein:increased expression:lung
CTD Direct Evidence: therapeutic		 CTD PMID:28434932, PMID:21871427 RGD:8694097 NCBI chr 8:5,676,608...5,698,579
Ensembl chr 8:5,676,665...5,698,579 		JBrowse link
G Muc1 mucin 1, cell surface associated ISO protein:increased expression:serum: RGD PMID:22963039 RGD:7244290 NCBI chr 2:188,543,137...188,547,874
Ensembl chr 2:188,543,137...188,547,874 		JBrowse link
G Muc5b mucin 5B, oligomeric mucus/gel-forming ISO ClinVar Annotator: match by term: Pulmonary fibrosis, idiopathic, susceptibility to
CTD Direct Evidence: marker/mechanism		 OMIM
ClinVar
CTD		 PMID:21506741 PMID:21506748 PMID:23321605 PMID:23583980 PMID:23692170 PMID:23695349 PMID:23940607 PMID:24033266 PMID:25926289 PMID:30345907 NCBI chr 1:214,778,459...214,811,237
Ensembl chr 1:214,778,496...214,810,720 		JBrowse link
G Nkd2 NKD inhibitor of WNT signaling pathway 2 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:32,054,390...32,085,416
Ensembl chr 1:32,058,044...32,084,877 		JBrowse link
G Ntrk2 neurotrophic receptor tyrosine kinase 2 ISO mRNA:increased expression:lung RGD PMID:21330466 RGD:5684550 NCBI chr17:5,934,651...6,245,778
Ensembl chr17:5,933,729...6,244,676 		JBrowse link
G Parn poly(A)-specific ribonuclease ISO CTD Direct Evidence: marker/mechanism CTD PMID:25848748 NCBI chr10:1,309,724...1,461,123
Ensembl chr10:1,308,414...1,461,269 		JBrowse link
G Parp1 poly (ADP-ribose) polymerase 1 ISO mRNA,protein:increased expression, increased activity:fibroblast RGD PMID:23260200 RGD:10413908 NCBI chr13:98,857,255...98,889,444
Ensembl chr13:98,857,177...98,889,716 		JBrowse link
G Pdcd6 programmed cell death 6 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,576,183...31,591,852
Ensembl chr 1:31,576,183...31,591,849 		JBrowse link
G Plau plasminogen activator, urokinase ISO CTD Direct Evidence: therapeutic CTD PMID:18491991 NCBI chr15:3,644,296...3,650,765
Ensembl chr15:3,644,769...3,650,819 		JBrowse link
G Ptgs2 prostaglandin-endoperoxide synthase 2 ISO DNA:SNPs: :3050G>C, 8473C>T (human)
protein:decreased expression:lung:		 RGD PMID:21319594, PMID:14511257, PMID:20203246 RGD:5135280, RGD:5135507, RGD:5135461 NCBI chr13:67,351,230...67,356,920
Ensembl chr13:67,351,087...67,359,335 		JBrowse link
G RT1-Db1 RT1 class II, locus Db1 susceptibility ISO DNA:polymorphism (human) RGD PMID:21373184 RGD:5147566 NCBI chr20:4,087,621...4,097,190
Ensembl chr20:4,087,618...4,097,190 		JBrowse link
G Rtel1 regulator of telomere elongation helicase 1 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form
CTD Direct Evidence: marker/mechanism		 ClinVar
CTD		 PMID:23329068 PMID:23453664 PMID:23959892 PMID:24009516 PMID:24033266 PMID:25047097 PMID:25099625 PMID:25607374 PMID:25620558 PMID:25848748 PMID:26025130 PMID:28099038 PMID:28492532 NCBI chr 3:176,818,012...176,856,531
Ensembl chr 3:176,818,437...176,856,531 		JBrowse link
G Rtkn2 rhotekin 2 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar NCBI chr20:21,919,486...22,004,279
Ensembl chr20:21,932,878...22,004,279 		JBrowse link
G Sdha succinate dehydrogenase complex flavoprotein subunit A ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,545,631...31,570,601
Ensembl chr 1:31,545,631...31,570,601 		JBrowse link
G Sftpa1 surfactant protein A1 ISO ClinVar Annotator: match by term: Pulmonary fibrosis, idiopathic, susceptibility to ClinVar PMID:13680361 PMID:24033266 NCBI chr16:18,716,019...18,719,404
Ensembl chr16:18,716,019...18,719,403 		JBrowse link
G Sftpc surfactant protein C ISO CTD Direct Evidence: marker/mechanism
ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form
ClinVar Annotator: match by term: Fibrocystic pulmonary dysplasia
ClinVar Annotator: match by term: Idiopathic Pulmonary Fibrosis
ClinVar Annotator: match by OMIM:178500		 CTD
ClinVar		 PMID:15039969 PMID:15516475 PMID:18383112 PMID:19443464 PMID:19910179 PMID:22308375 PMID:23025826 PMID:23775869 PMID:24033266 PMID:24081995 PMID:25657025 PMID:25741868 PMID:25782673 PMID:28492532 NCBI chr15:52,211,538...52,214,480
Ensembl chr15:52,211,544...52,214,616 		JBrowse link
G Slc12a7 solute carrier family 12 member 7 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:32,086,755...32,167,950
Ensembl chr 1:32,086,755...32,141,036 		JBrowse link
G Slc6a18 solute carrier family 6 member 18 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:32,221,679...32,235,599
Ensembl chr 1:32,221,636...32,236,051 		JBrowse link
G Slc6a19 solute carrier family 6 member 19 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:32,199,869...32,218,628
Ensembl chr 1:32,199,810...32,220,045 		JBrowse link
G Slc9a3 solute carrier family 9 member A3 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,731,652...31,777,144
Ensembl chr 1:31,734,327...31,777,070 		JBrowse link
G St14 ST14 transmembrane serine protease matriptase ISO CTD Direct Evidence: marker/mechanism CTD PMID:26599507 NCBI chr 8:32,240,113...32,280,813
Ensembl chr 8:32,240,133...32,280,869 		JBrowse link
G Stat3 signal transducer and activator of transcription 3 ISO CTD Direct Evidence: marker/mechanism CTD PMID:30481203, PMID:22684844 RGD:6892915 NCBI chr10:88,790,401...88,842,263
Ensembl chr10:88,790,408...88,842,233 		JBrowse link
G Stn1 STN1 subunit of CST complex ISO CTD Direct Evidence: marker/mechanism CTD PMID:23583980 NCBI chr 1:267,281,786...267,315,714
Ensembl chr 1:267,281,764...267,315,729 		JBrowse link
G Terc telomerase RNA component ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form
CTD Direct Evidence: marker/mechanism		 ClinVar
CTD		 PMID:17392301 PMID:17460043 PMID:23535734 NCBI chr 2:116,432,723...116,433,110
Ensembl chr 2:116,432,691...116,433,110 		JBrowse link
G Tert telomerase reverse transcriptase ISO ClinVar Annotator: match by OMIM:178500
ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form
CTD Direct Evidence: marker/mechanism
DNA:deletion, missense mutations, splice-site mutations:multiple		 ClinVar
CTD		 PMID:12167716 PMID:12629597 PMID:15814878 PMID:15885610 PMID:16247010 PMID:16627250 PMID:16990594 PMID:17264120 PMID:17392301 PMID:17460043 PMID:17785587 PMID:18042801 PMID:18460650 PMID:18635888 PMID:18753630 PMID:18931339 PMID:19147845 PMID:19561322 PMID:19674077 PMID:19760749 PMID:19796246 PMID:20022961 PMID:20502709 PMID:20858879 PMID:20871597 PMID:20966039 PMID:21258621 PMID:21436073 PMID:21483807 PMID:21520173 PMID:21520174 PMID:21602826 PMID:21635204 PMID:21931702 PMID:22037553 PMID:22364217 PMID:22424236 PMID:22476886 PMID:22512499 PMID:22664374 PMID:22853774 PMID:22863003 PMID:23066086 PMID:23157242 PMID:23335200 PMID:23348503 PMID:23535731 PMID:23535734 PMID:23538340 PMID:23583980 PMID:23716176 PMID:23901009 PMID:24033266 PMID:24833766 PMID:24983628 PMID:25108601 PMID:25244922 PMID:25271372 PMID:25346280 PMID:25365545 PMID:25562321 PMID:25741868 PMID:25785092 PMID:26024875 PMID:26136524 PMID:26194807 PMID:26329388 PMID:26360549 PMID:26365799 PMID:26433962 PMID:26887940 PMID:27192671 PMID:27418648 PMID:27824607 PMID:28102861 PMID:28154186 PMID:28192371 PMID:28492532 PMID:28677271 PMID:28767289 PMID:28813500 PMID:29036293 PMID:29382801 PMID:29483670 PMID:30203795 PMID:30426156 PMID:30995915 PMID:31265491, PMID:17392301 RGD:11038666 NCBI chr 1:32,250,876...32,275,330
Ensembl chr 1:32,251,714...32,272,476 		JBrowse link
G Tfpi tissue factor pathway inhibitor severity ISO protein:increased expression:Bronchoalveolar lavage,epithelial cell: RGD PMID:10946084 RGD:11060143 NCBI chr 3:71,852,738...71,902,127
Ensembl chr 3:71,852,744...71,893,618 		JBrowse link
G Thbd thrombomodulin severity ISO RGD PMID:20418386 RGD:5685036 NCBI chr 3:142,748,673...142,752,325
Ensembl chr 3:142,748,674...142,752,325 		JBrowse link
G Tnf tumor necrosis factor ISS OMIM:178500 MouseDO NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
G Tppp tubulin polymerization promoting protein ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,866,755...31,890,778
Ensembl chr 1:31,870,899...31,890,778 		JBrowse link
G Trip13 thyroid hormone receptor interactor 13 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,967,980...32,012,923
Ensembl chr 1:31,967,978...32,012,919 		JBrowse link
G Wnt5a Wnt family member 5A ISO CTD Direct Evidence: marker/mechanism CTD PMID:28726637 NCBI chr16:4,469,451...4,490,271
Ensembl chr16:4,469,468...4,489,860 		JBrowse link
G Zdhhc11 zinc finger, DHHC-type containing 11 ISO ClinVar Annotator: match by term: Idiopathic fibrosing alveolitis, chronic form ClinVar PMID:12629597 PMID:28492532 NCBI chr 1:31,906,049...31,936,603
Ensembl chr 1:31,906,064...31,936,537 		JBrowse link
Klebsiella pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Il23a interleukin 23 subunit alpha severity ISO RGD PMID:16157683 RGD:39457940 NCBI chr 7:2,710,609...2,712,723
Ensembl chr 7:2,710,609...2,712,723 		JBrowse link
G Irak3 interleukin-1 receptor-associated kinase 3 severity ISO mRNA:increased expression:lung (mouse) RGD PMID:22729155, PMID:20864681 RGD:35316077, RGD:36049798 NCBI chr 7:64,922,830...64,982,224
Ensembl chr 7:64,923,615...64,982,281 		JBrowse link
Mycoplasma pneumoniae pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ada adenosine deaminase ISO protein:increased expression:serum RGD PMID:9255891 RGD:5128857 NCBI chr 3:160,115,840...160,139,947
Ensembl chr 3:160,115,842...160,139,947 		JBrowse link
G Atp1b2 ATPase Na+/K+ transporting subunit beta 2 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr10:56,205,622...56,211,879
Ensembl chr10:56,205,625...56,211,891 		JBrowse link
G Ccl4 C-C motif chemokine ligand 4 ISO RGD PMID:16988274 RGD:4892091 NCBI chr10:70,870,926...70,886,357
Ensembl chr10:70,884,531...70,886,355 		JBrowse link
G Ccl5 C-C motif chemokine ligand 5 ISO protein:increased secretion:lung, secretion (mouse) RGD PMID:18717637 RGD:4891914 NCBI chr10:70,739,764...70,744,303
Ensembl chr10:70,739,800...70,744,315 		JBrowse link
G Ccr5 C-C motif chemokine receptor 5 ISO protein:increased expression:lung, T-helper cell (mouse) RGD PMID:16988274 RGD:4892091 NCBI chr 8:133,192,398...133,215,599
Ensembl chr 8:133,197,032...133,215,614 		JBrowse link
G Clec5a C-type lectin domain containing 5A severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 4:68,810,330...68,819,921
Ensembl chr 4:68,808,359...68,819,928 		JBrowse link
G Col3a1 collagen type III alpha 1 chain severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 9:52,023,295...52,059,221
Ensembl chr 9:52,023,295...52,059,217 		JBrowse link
G Col6a1 collagen type VI alpha 1 chain severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr20:12,657,913...12,676,370
Ensembl chr20:12,658,065...12,675,561 		JBrowse link
G Col6a2 collagen type VI alpha 2 chain severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr20:12,773,472...12,801,179
Ensembl chr20:12,773,427...12,801,180 		JBrowse link
G Crp C-reactive protein ISO RGD PMID:21426633 RGD:5131292 NCBI chr13:91,080,448...91,081,358
Ensembl chr13:91,054,974...91,093,713 		JBrowse link
G Dnase1l3 deoxyribonuclease 1-like 3 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr15:18,710,492...18,736,476
Ensembl chr15:18,710,492...18,736,473 		JBrowse link
G Fcer2 Fc fragment of IgE receptor II severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr12:2,233,772...2,245,324
Ensembl chr12:2,233,778...2,245,324 		JBrowse link
G Flt1 Fms related receptor tyrosine kinase 1 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr12:9,033,993...9,205,886
Ensembl chr12:9,034,308...9,205,905 		JBrowse link
G Galc galactosylceramidase ISO associated with Guillain-Barre syndrome; protein:increased expression:serum (human)
associated with Guillain-Barre syndrome; protein:increased expression:Cerebrospinal fluid, serum (human)
protein:increased expression:serum (mouse)		 RGD PMID:27490360, PMID:29301655, PMID:30396892, PMID:30396892, PMID:12225900 RGD:38599168, RGD:38599172, RGD:38599171, RGD:38599171, RGD:38599169 NCBI chr 6:122,177,195...122,239,411
Ensembl chr 6:122,178,602...122,239,614 		JBrowse link
G Hdc histidine decarboxylase ISO RGD PMID:17158962 RGD:5143920 NCBI chr 3:119,057,524...119,075,599
Ensembl chr 3:119,057,517...119,075,619 		JBrowse link
G Htra3 HtrA serine peptidase 3 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr14:80,248,140...80,276,534
Ensembl chr14:80,248,140...80,276,534 		JBrowse link
G Ifng interferon gamma ISO mRNA:increased expression:lung: RGD PMID:7935058 RGD:10755754 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419 		JBrowse link
G Il13 interleukin 13 ISO protein:increased expression:serum RGD PMID:20416219 RGD:4145765 NCBI chr10:38,982,909...38,985,466
Ensembl chr10:38,982,909...38,985,466 		JBrowse link
G Il22ra2 interleukin 22 receptor subunit alpha 2 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 1:15,084,136...15,107,423
Ensembl chr 1:15,093,599...15,106,954 		JBrowse link
G Inhba inhibin subunit beta A severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr17:51,894,869...51,919,998
Ensembl chr17:51,898,217...51,912,496 		JBrowse link
G Klrb1 killer cell lectin like receptor B1 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 4:162,774,050...162,792,804
Ensembl chr 4:162,774,109...162,792,804 		JBrowse link
G Ms4a1 membrane spanning 4-domains A1 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 1:227,429,241...227,441,492
Ensembl chr 1:227,429,596...227,441,442 		JBrowse link
G Pld4 phospholipase D family, member 4 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 6:137,323,713...137,331,231
Ensembl chr 6:137,323,713...137,331,231 		JBrowse link
G Spib Spi-B transcription factor severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 1:100,531,538...100,537,397
Ensembl chr 1:100,531,457...100,537,377 		JBrowse link
G Tcf7 transcription factor 7 severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr10:37,616,033...37,646,027
Ensembl chr10:37,617,279...37,645,802 		JBrowse link
G Tcl1a Tcl1 family Akt coactivator A severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 6:128,888,768...128,894,761
Ensembl chr 6:128,888,768...128,894,761 		JBrowse link
G Tnf tumor necrosis factor ISO protein:increased expression:serum RGD PMID:20416219 RGD:4145765 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
G Tnfrsf13c TNF receptor superfamily member 13C severity ISO RGD PMID:28302172 RGD:32716376 NCBI chr 7:123,453,799...123,456,289
Ensembl chr 7:123,453,788...123,456,268 		JBrowse link
pleuropneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Alox5 arachidonate 5-lipoxygenase ISO RGD PMID:12773506 RGD:4890419 NCBI chr 4:148,398,004...148,446,308
Ensembl chr 4:148,398,892...148,446,303 		JBrowse link
Pneumococcal Pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aicda activation-induced cytidine deaminase ISO RGD PMID:26456931 RGD:11098923 NCBI chr 4:155,359,909...155,371,104
Ensembl chr 4:155,359,921...155,369,671 		JBrowse link
G Alox5 arachidonate 5-lipoxygenase ISO RGD PMID:20231413 RGD:4890435 NCBI chr 4:148,398,004...148,446,308
Ensembl chr 4:148,398,892...148,446,303 		JBrowse link
G C3 complement C3 disease_progression ISO
IEP		 protein:decreased expression:serum
associated with Liver Cirrhosis, Experimental;protein:decreased expression:respiratory system fluid/secretion		 RGD PMID:20405, PMID:17956621, PMID:15972516 RGD:5130163, RGD:5129523, RGD:5129509 NCBI chr 9:9,721,137...9,747,084
Ensembl chr 9:9,721,105...9,747,167 		JBrowse link
G C5 complement C5 severity ISO RGD PMID:7814608 RGD:5130159 NCBI chr 3:14,049,993...14,113,931
NCBI chr 3:14,206,466...14,229,141
Ensembl chr 3:14,049,995...14,229,080 		JBrowse link
G Ccl5 C-C motif chemokine ligand 5 susceptibility ISO RGD PMID:16455992 RGD:4892130 NCBI chr10:70,739,764...70,744,303
Ensembl chr10:70,739,800...70,744,315 		JBrowse link
G Cd14 CD14 molecule ISO RGD PMID:17185649 RGD:4144788 NCBI chr18:29,560,341...29,562,290
Ensembl chr18:29,560,365...29,562,153 		JBrowse link
G Chi3l1 chitinase 3 like 1 ISO protein:increased secretion:serum (human) RGD PMID:10515841 RGD:4892626 NCBI chr13:51,022,844...51,030,797
Ensembl chr13:51,022,681...51,030,802 		JBrowse link
G Crhr1 corticotropin releasing hormone receptor 1 ISO RGD PMID:21774994 RGD:5147472 NCBI chr10:92,191,473...92,233,662
Ensembl chr10:92,191,718...92,232,645 		JBrowse link
G Crhr2 corticotropin releasing hormone receptor 2 ISO RGD PMID:21774994 RGD:5147472 NCBI chr 4:85,286,371...85,329,374
Ensembl chr 4:85,286,372...85,329,362 		JBrowse link
G Crp C-reactive protein disease_progression ISO RGD PMID:21281676 RGD:5131293 NCBI chr13:91,080,448...91,081,358
Ensembl chr13:91,054,974...91,093,713 		JBrowse link
G Cxcl1 C-X-C motif chemokine ligand 1 ISO protein:increased expression:respiratory system fluid/secretion RGD PMID:20958976 RGD:5134957 NCBI chr14:18,743,678...18,745,457
Ensembl chr14:18,743,685...18,745,457 		JBrowse link
G Cxcl9 C-X-C motif chemokine ligand 9 ISO protein:increased expression:lung RGD PMID:20381636 RGD:5135285 NCBI chr14:17,228,832...17,233,743
Ensembl chr14:17,228,856...17,234,712 		JBrowse link
G Defb4 defensin beta 4 ISO CTD Direct Evidence: marker/mechanism CTD PMID:24894820 NCBI chr16:75,634,598...75,637,789
Ensembl chr16:75,634,598...75,637,789 		JBrowse link
G Hmox1 heme oxygenase 1 ISO associated with influenza;protein:increased expression:lung RGD PMID:17348295 RGD:4145366 NCBI chr19:14,508,634...14,515,455
Ensembl chr19:14,508,616...14,515,456 		JBrowse link
G Hp haptoglobin ISO RGD PMID:19396720 RGD:5147385 NCBI chr19:42,096,255...42,100,805
Ensembl chr19:42,097,995...42,100,804 		JBrowse link
G Il15 interleukin 15 ISO protein:increased expression:alveolar macrophage, bronchial epithelial cell RGD PMID:17611121 RGD:5000755 NCBI chr19:23,542,606...23,624,366
Ensembl chr19:23,542,889...23,554,594 		JBrowse link
G Il15ra interleukin 15 receptor subunit alpha ISO RGD PMID:17611121 RGD:5000755 NCBI chr17:70,451,861...70,481,838
Ensembl chr17:70,451,411...70,481,750 		JBrowse link
G Il17a interleukin 17A ISO RGD PMID:19995896 RGD:4888531 NCBI chr 9:26,841,299...26,844,786
Ensembl chr 9:26,841,299...26,844,786 		JBrowse link
G Il18 interleukin 18 ISO RGD PMID:15770015 RGD:4889960 NCBI chr 8:55,009,666...55,016,286
Ensembl chr 8:54,993,859...55,016,299 		JBrowse link
G Il6 interleukin 6 ISO RGD PMID:20643849 RGD:4143255 NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807 		JBrowse link
G Lep leptin ISO RGD PMID:17822444 RGD:5128869 NCBI chr 4:56,337,695...56,351,818
Ensembl chr 4:56,337,695...56,351,818 		JBrowse link
G Lepr leptin receptor ISO RGD PMID:21148797 RGD:5128846 NCBI chr 5:120,503,475...120,682,281
Ensembl chr 5:120,564,645...120,682,221 		JBrowse link
G Mapk1 mitogen activated protein kinase 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:24894820 NCBI chr11:88,203,863...88,273,301
Ensembl chr11:88,211,599...88,273,254 		JBrowse link
G Mapk3 mitogen activated protein kinase 3 ISO CTD Direct Evidence: marker/mechanism CTD PMID:24894820 NCBI chr 1:198,192,773...198,198,975
Ensembl chr 1:198,192,773...198,198,975 		JBrowse link
G Masp2 mannan-binding lectin serine peptidase 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:12904520 NCBI chr 5:165,415,105...165,429,857
Ensembl chr 5:165,415,136...165,430,054 		JBrowse link
G Mbl2 mannose binding lectin 2 no_association ISO DNA:mutations:5' utr, exon:multiple (human)
DNA:polymorphisms:5' utr, exon:multiple (human)		 RGD PMID:18641104, PMID:12047967 RGD:4889477, RGD:4889478 NCBI chr 1:248,435,069...248,442,669
Ensembl chr 1:248,723,397...248,729,962 		JBrowse link
G Nos2 nitric oxide synthase 2 ISO RGD PMID:17056580 RGD:4891950 NCBI chr10:66,188,290...66,221,621
Ensembl chr10:66,189,786...66,313,190 		JBrowse link
G Sftpd surfactant protein D severity ISO RGD PMID:16255775 RGD:4143519 NCBI chr16:18,753,535...18,766,100
Ensembl chr16:18,745,458...18,766,174 		JBrowse link
G Sirt1 sirtuin 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:24894820 NCBI chr20:26,831,971...26,851,587
Ensembl chr20:26,833,357...26,852,199 		JBrowse link
G Sting1 stimulator of interferon response cGAMP interactor 1 ISO RGD PMID:29263110 RGD:39128230 NCBI chr18:28,529,537...28,535,828
Ensembl chr18:28,529,576...28,535,828 		JBrowse link
G Tlr2 toll-like receptor 2 ISO RGD PMID:19956717 RGD:4145321 NCBI chr 2:182,840,171...182,846,061
Ensembl chr 2:182,840,727...182,846,061 		JBrowse link
G Tnf tumor necrosis factor ISO associated with influenza;protein:increased expression:lung RGD PMID:9032201, PMID:17348295 RGD:4143479, RGD:4145366 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
pneumocystosis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Azin1 antizyme inhibitor 1 IEP mRNA:increased expression:alveolar macrophage RGD PMID:19158080 RGD:14700806 NCBI chr 7:77,345,646...77,372,398
Ensembl chr 7:77,345,646...77,372,398 		JBrowse link
G C3 complement C3 IEP RGD PMID:17169032 RGD:5129525 NCBI chr 9:9,721,137...9,747,084
Ensembl chr 9:9,721,105...9,747,167 		JBrowse link
G Ccl2 C-C motif chemokine ligand 2 ISO protein:increased expression:respiratory system fluid/secretion RGD PMID:20618689 RGD:4891428 NCBI chr10:69,412,065...69,413,863
Ensembl chr10:69,412,017...69,413,870 		JBrowse link
G Cd40 CD40 molecule treatment ISO RGD PMID:10968950 RGD:8547797 NCBI chr 3:161,519,789...161,534,943
Ensembl chr 3:161,519,743...161,534,704 		JBrowse link
G Csf2 colony stimulating factor 2 IEP protein:increased expression:respiratory system fluid/secretion RGD PMID:19487471 RGD:5131475 NCBI chr10:39,602,089...39,604,070
Ensembl chr10:39,602,089...39,604,070 		JBrowse link
G Il23a interleukin 23 subunit alpha ISO RGD PMID:17403873 RGD:39458043 NCBI chr 7:2,710,609...2,712,723
Ensembl chr 7:2,710,609...2,712,723 		JBrowse link
G Il33 interleukin 33 treatment ISO RGD PMID:21220696 RGD:40400892 NCBI chr 1:248,112,611...248,147,030
Ensembl chr 1:248,132,090...248,147,029 		JBrowse link
G Muc1 mucin 1, cell surface associated ISO protein:increased expression:serum RGD PMID:9617869 RGD:5131424 NCBI chr 2:188,543,137...188,547,874
Ensembl chr 2:188,543,137...188,547,874 		JBrowse link
G Nos2 nitric oxide synthase 2 IEP mRNA:increased expression:alveolar macrophage
protein:decreased dimerization:alveolar macrophage		 RGD PMID:20377877, PMID:20558778 RGD:4144112, RGD:4891486 NCBI chr10:66,188,290...66,221,621
Ensembl chr10:66,189,786...66,313,190 		JBrowse link
G RT1-Bb RT1 class II, locus Bb IEP RGD PMID:20377877 RGD:4144112 NCBI chr20:4,043,726...4,049,367
Ensembl chr20:4,039,413...4,049,711 		JBrowse link
G Sftpa1 surfactant protein A1 ISO protein:increased expression:lung RGD PMID:11385364 RGD:4143431 NCBI chr16:18,716,019...18,719,404
Ensembl chr16:18,716,019...18,719,403 		JBrowse link
G Sftpb surfactant protein B ISO protein:decreased expression:lung RGD PMID:11385364 RGD:4143431 NCBI chr 4:100,166,855...100,175,941
Ensembl chr 4:100,166,863...100,175,938 		JBrowse link
G Sftpc surfactant protein C ISO protein:decreased expression:lung RGD PMID:11385364 RGD:4143431 NCBI chr15:52,211,538...52,214,480
Ensembl chr15:52,211,544...52,214,616 		JBrowse link
G Sftpd surfactant protein D ISO protein:increased expression:lung RGD PMID:11385364 RGD:4143431 NCBI chr16:18,753,535...18,766,100
Ensembl chr16:18,745,458...18,766,174 		JBrowse link
G Tlr2 toll-like receptor 2 ISO RGD PMID:18400546 RGD:4145341 NCBI chr 2:182,840,171...182,846,061
Ensembl chr 2:182,840,727...182,846,061 		JBrowse link
Pneumonia, Ventilator-Associated term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gc GC, vitamin D binding protein ISO protein:increased expression:bronchoalveolar fluid: RGD PMID:21136918 RGD:5509873 NCBI chr14:20,267,023...20,302,577
Ensembl chr14:20,266,891...20,302,581 		JBrowse link
Staphylococcal Pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Akt1 AKT serine/threonine kinase 1 treatment ISO RGD PMID:23613163 RGD:38676477 NCBI chr 6:137,218,398...137,239,970
Ensembl chr 6:137,218,376...137,236,258 		JBrowse link
G Cd86 CD86 molecule ISO protein:decreased expression:spleen, plasmacytoid dendritic cell (mouse) RGD PMID:20949109 RGD:4892562 NCBI chr11:67,060,305...67,117,990
Ensembl chr11:67,082,193...67,118,795 		JBrowse link
G Cftr CF transmembrane conductance regulator ISO RGD PMID:28289144 RGD:36049750 NCBI chr 4:42,693,263...42,860,679
Ensembl chr 4:42,692,836...42,860,676 		JBrowse link
G Csf3 colony stimulating factor 3 treatment ISO RGD PMID:10228098 RGD:11039478 NCBI chr10:86,616,785...86,619,160
Ensembl chr10:86,616,785...86,619,157 		JBrowse link
G Fn1 fibronectin 1 IDA RGD PMID:12065530 RGD:7205474 NCBI chr 9:78,900,111...78,969,018
Ensembl chr 9:78,900,103...78,969,078 		JBrowse link
G Ifnar1 interferon alpha and beta receptor subunit 1 susceptibility ISO RGD PMID:19603548, PMID:19603548 RGD:5490273, RGD:5490273 NCBI chr11:31,640,407...31,666,839
Ensembl chr11:31,640,407...31,664,061 		JBrowse link
G Il10 interleukin 10 ISO mRNA, protein:increased expression:lung RGD PMID:22940620 RGD:7364825 NCBI chr13:47,738,933...47,743,392
Ensembl chr13:47,739,526...47,743,392 		JBrowse link
G Il15 interleukin 15 ISO RGD PMID:18390740 RGD:4996474 NCBI chr19:23,542,606...23,624,366
Ensembl chr19:23,542,889...23,554,594 		JBrowse link
G Il1b interleukin 1 beta ISO RGD PMID:20065029 RGD:4142828 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726 		JBrowse link
G Il33 interleukin 33 ISO mRNA:increased expression:lung: RGD PMID:28401938 RGD:40400699 NCBI chr 1:248,112,611...248,147,030
Ensembl chr 1:248,132,090...248,147,029 		JBrowse link
G Nod2 nucleotide-binding oligomerization domain containing 2 ISO RGD PMID:20493961 RGD:5131444 NCBI chr19:19,342,061...19,389,366
Ensembl chr19:19,332,594...19,377,492 		JBrowse link
G Prkn parkin RBR E3 ubiquitin protein ligase ISO protein:increased expression:lung (mouse) RGD PMID:28663335 RGD:13432209 NCBI chr 1:48,880,015...50,069,998 JBrowse link
G Ptpn11 protein tyrosine phosphatase, non-receptor type 11 severity ISO mRNA:increased expression:lung
associated with influenza		 RGD PMID:31782850, PMID:31782850 RGD:39131288, RGD:39131288 NCBI chr12:40,895,515...40,955,999
Ensembl chr12:40,895,515...40,955,999 		JBrowse link
Streptococcus pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Clec4m C-type lectin domain family 4 member M severity ISO RGD PMID:16134084 RGD:39938986 NCBI chr12:2,817,633...2,826,303
Ensembl chr12:2,816,065...2,826,378 		JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 ISO mRNA:increased expression:lung (mouse) RGD PMID:20385761 RGD:39938865 NCBI chr16:72,216,326...72,228,098
Ensembl chr16:72,216,326...72,228,098 		JBrowse link
G Ifng interferon gamma ISO protein:increased expression:lung,natural killer cell (mouse) RGD PMID:21887255 RGD:40818252 NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419 		JBrowse link
G Il6 interleukin 6 ISO protein:increased expression:lung,natural killer cell (mouse) RGD PMID:21887255 RGD:40818252 NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807 		JBrowse link
G Irak3 interleukin-1 receptor-associated kinase 3 severity ISO RGD PMID:22492852 RGD:35316076 NCBI chr 7:64,922,830...64,982,224
Ensembl chr 7:64,923,615...64,982,281 		JBrowse link
G Lamp1 lysosomal-associated membrane protein 1 ISO protein:increased expression:lung, natural killer cell (mouse) RGD PMID:21887255 RGD:40818252 NCBI chr16:81,689,576...81,714,341
Ensembl chr16:81,689,335...81,714,419 		JBrowse link
G Ncr1 natural cytotoxicity triggering receptor 1 severity ISO RGD PMID:21887255 RGD:40818252 NCBI chr 1:73,178,917...73,226,504
Ensembl chr 1:73,179,013...73,226,777 		JBrowse link
G Pdcd1 programmed cell death 1 treatment ISO RGD PMID:25624454 RGD:40818422 NCBI chr 9:101,305,742...101,319,937
Ensembl chr 9:101,307,764...101,319,845 		JBrowse link
G Pik3cd phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit delta treatment ISO associated with immunodeficiency 14 RGD PMID:30093657 RGD:40890269 NCBI chr 5:166,602,053...166,628,028
Ensembl chr 5:166,602,053...166,628,028 		JBrowse link
G Pik3cg phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma severity ISO RGD PMID:17322108 RGD:38599154 NCBI chr 6:51,465,696...51,501,234
Ensembl chr 6:51,465,908...51,498,337 		JBrowse link
G Tnf tumor necrosis factor ISO protein:increased expression:lung,natural killer cell (mouse) RGD PMID:21887255 RGD:40818252 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
viral pneumonia term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ace angiotensin I converting enzyme ISO CTD Direct Evidence: marker/mechanism CTD PMID:15381116 NCBI chr10:94,170,766...94,213,831
Ensembl chr10:94,170,766...94,187,822 		JBrowse link
G Ccl11 C-C motif chemokine ligand 11 ISO RGD PMID:20644177 RGD:4140459 NCBI chr10:69,434,965...69,439,566
Ensembl chr10:69,434,941...69,439,575 		JBrowse link
G Ccl2 C-C motif chemokine ligand 2 ISO RGD PMID:19617401 RGD:4891451 NCBI chr10:69,412,065...69,413,863
Ensembl chr10:69,412,017...69,413,870 		JBrowse link
G Ccl3 C-C motif chemokine ligand 3 ISO mRNA:increased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr10:70,869,516...70,871,066
Ensembl chr10:70,869,513...70,871,066 		JBrowse link
G Ccl4 C-C motif chemokine ligand 4 ISO RGD PMID:20957032 RGD:5130904 NCBI chr10:70,870,926...70,886,357
Ensembl chr10:70,884,531...70,886,355 		JBrowse link
G Ccr1 C-C motif chemokine receptor 1 ISO RGD PMID:15254170 RGD:5688163 NCBI chr 8:132,996,646...133,002,201
Ensembl chr 8:132,996,649...133,002,201 		JBrowse link
G Cxcl1 C-X-C motif chemokine ligand 1 IEP protein:increased expression:respiratory system fluid/secretion RGD PMID:19671179 RGD:5134975 NCBI chr14:18,743,678...18,745,457
Ensembl chr14:18,743,685...18,745,457 		JBrowse link
G Cxcl10 C-X-C motif chemokine ligand 10 ISO RGD PMID:17655904 RGD:5135437 NCBI chr14:17,210,733...17,212,930
Ensembl chr14:17,210,733...17,212,930 		JBrowse link
G Cxcl16 C-X-C motif chemokine ligand 16 ISO mRNA:decreased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr10:57,060,005...57,064,600
Ensembl chr10:57,060,007...57,064,600 		JBrowse link
G Cxcl2 C-X-C motif chemokine ligand 2 IEP protein:increased expression:respiratory system fluid/secretion RGD PMID:19671179 RGD:5134975 NCBI chr14:18,731,346...18,733,391
Ensembl chr14:18,731,378...18,733,391 		JBrowse link
G Cxcl9 C-X-C motif chemokine ligand 9 ISO RGD PMID:17655904 RGD:5135437 NCBI chr14:17,228,832...17,233,743
Ensembl chr14:17,228,856...17,234,712 		JBrowse link
G Hmox1 heme oxygenase 1 ISO mRNA:increased expression:lung RGD PMID:8843786 RGD:4145417 NCBI chr19:14,508,634...14,515,455
Ensembl chr19:14,508,616...14,515,456 		JBrowse link
G Ifnar1 interferon alpha and beta receptor subunit 1 disease_progression ISO H1N1 virus susceptibility RGD PMID:21383977, PMID:21383977 RGD:5490272, RGD:5490272 NCBI chr11:31,640,407...31,666,839
Ensembl chr11:31,640,407...31,664,061 		JBrowse link
G Il10 interleukin 10 treatment ISO RGD PMID:25219125 RGD:10450576 NCBI chr13:47,738,933...47,743,392
Ensembl chr13:47,739,526...47,743,392 		JBrowse link
G Il15 interleukin 15 ISO RGD PMID:20335267 RGD:4892670 NCBI chr19:23,542,606...23,624,366
Ensembl chr19:23,542,889...23,554,594 		JBrowse link
G Il17ra interleukin 17 receptor A ISO mRNA:decreased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr 4:152,995,865...153,018,394
Ensembl chr 4:152,995,865...153,018,394 		JBrowse link
G Il1b interleukin 1 beta ISO mRNA:increased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726 		JBrowse link
G Il1rn interleukin 1 receptor antagonist ISO mRNA:increased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr 3:1,449,778...1,468,624
Ensembl chr 3:1,452,644...1,468,614 		JBrowse link
G Il4r interleukin 4 receptor ISO mRNA:decreased expression:bronchoalveolar lavage (human) RGD PMID:32407669 RGD:30296672 NCBI chr 1:196,942,343...196,967,221
Ensembl chr 1:196,942,364...196,967,220 		JBrowse link
G Mif macrophage migration inhibitory factor ISO RGD PMID:19941385 RGD:4891005 NCBI chr20:13,715,219...13,732,980
Ensembl chr20:13,732,198...13,732,859 		JBrowse link
G Tlr9 toll-like receptor 9 ISO DNA:snp:promoter:g.-1237T>C rs5743836 (human) RGD PMID:19539691 RGD:5130766 NCBI chr 8:114,916,122...114,920,171
Ensembl chr 8:114,916,122...114,920,171 		JBrowse link
G Tnf tumor necrosis factor treatment ISO RGD PMID:25219125 RGD:10450576 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  disease 16085
    disease of anatomical entity 15340
      Immune & Inflammatory Diseases 3590
        Inflammation 2240
          pneumonia 262
            Cholesterol Pneumonia 0
            Necrotizing Pneumonia 0
            Pneumonia, Ventilator-Associated 1
            aspiration pneumonitis + 0
            bacterial pneumonia + 135
            bronchopneumonia 3
            eosinophilic pneumonia + 0
            idiopathic interstitial pneumonia + 71
            pleuropneumonia 1
            pneumocystosis 15
            toxic pneumonitis 0
            viral pneumonia 22
Path 2
Term Annotations click to browse term
  disease 16085
    disease of anatomical entity 15340
      respiratory system disease 2761
        lower respiratory tract disease 1693
          lung disease 1652
            pneumonia 262
              Cholesterol Pneumonia 0
              Necrotizing Pneumonia 0
              Pneumonia, Ventilator-Associated 1
              aspiration pneumonitis + 0
              bacterial pneumonia + 135
              bronchopneumonia 3
              eosinophilic pneumonia + 0
              idiopathic interstitial pneumonia + 71
              pleuropneumonia 1
              pneumocystosis 15
              toxic pneumonitis 0
              viral pneumonia 22
paths to the root