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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:Flavivirus Infections
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Accession:DOID:9004146 term browser browse the term
Definition:Infections with viruses of the genus FLAVIVIRUS, family FLAVIVIRIDAE.
Synonyms:exact_synonym: Flavivirus infection
 primary_id: MESH:D018177
For additional species annotation, visit the Alliance of Genome Resources.


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Flavivirus Infections term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Prf1 perforin 1 ISO mRNA:increased expression:brain, spleen RGD PMID:21908734 RGD:6482795 NCBI chr20:29,246,202...29,251,712
Ensembl chr20:29,246,202...29,251,701
JBrowse link
dengue disease term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cd209 CD209 molecule severity ISO DNA:SNP:promoter: -336G>A (human)
ClinVar Annotator: match by term: Dengue fever, protection against
CTD Direct Evidence: marker/mechanism
OMIM
ClinVar
CTD
PMID:15564514 PMID:15838506 PMID:16379498 PMID:16274635 RGD:39939064 NCBI chr12:1,891,109...1,897,559
Ensembl chr12:1,891,113...1,901,171
JBrowse link
G Cxcr2 C-X-C motif chemokine receptor 2 treatment ISO RGD PMID:30098206 RGD:39938828 NCBI chr 9:75,729,493...75,735,868
Ensembl chr 9:75,729,115...75,739,425
JBrowse link
G F2 coagulation factor II ISO RGD PMID:22138554 RGD:40818430 NCBI chr 3:77,596,196...77,609,486
Ensembl chr 3:77,596,198...77,609,486
JBrowse link
G Fcgr2a Fc fragment of IgG receptor IIa severity ISO DNA:polymorphism:cds:p.H131R(human) RGD PMID:26240159 RGD:13463456 NCBI chr13:83,280,782...83,297,535
Ensembl chr13:83,280,784...83,295,967
JBrowse link
G Gc GC, vitamin D binding protein ISO protein:increased expression:plasma RGD PMID:19845402 RGD:5509870 NCBI chr14:18,632,146...18,667,563
Ensembl chr14:18,632,135...18,667,567
JBrowse link
G Ido1 indoleamine 2,3-dioxygenase 1 treatment ISO RGD PMID:31821895 RGD:39939074 NCBI chr16:67,430,684...67,442,459
Ensembl chr16:67,430,578...67,442,730
JBrowse link
G Ifnl1 interferon, lambda 1 ameliorates ISO protein:increased expression:blood serum (human) RGD PMID:28238051 RGD:126848771 NCBI chr 1:83,798,651...83,800,297 JBrowse link
G Il1rl1 interleukin 1 receptor-like 1 treatment ISO RGD PMID:30098206 RGD:39938828 NCBI chr 9:42,661,694...42,727,266
Ensembl chr 9:42,697,192...42,727,256
JBrowse link
G Il33 interleukin 33 severity ISO RGD PMID:30098206 RGD:39938828 NCBI chr 1:227,701,964...227,736,374
Ensembl chr 1:227,721,435...227,736,373
JBrowse link
G Mapk8 mitogen-activated protein kinase 8 ISO protein:increased phosphorylation:liver (mouse) RGD PMID:28188818 RGD:150340680 NCBI chr16:8,638,897...8,721,960
Ensembl chr16:8,638,924...8,721,981
JBrowse link
G Mir146a microRNA 146a ISO RNA:decreased expression:serum: RGD PMID:26941580 RGD:41404658 NCBI chr10:27,848,516...27,848,610
Ensembl chr10:27,848,516...27,848,610
JBrowse link
G Mir21 microRNA 21 ISO RNA:increased expression:serum: RGD PMID:26941580 RGD:41404658 NCBI chr10:71,405,257...71,405,348
Ensembl chr10:71,405,257...71,405,348
JBrowse link
G Stat2 signal transducer and activator of transcription 2 susceptibility ISO RGD PMID:21075352 PMID:21379341 RGD:41789625, RGD:41789629 NCBI chr 7:702,565...718,349
Ensembl chr 7:702,495...718,967
JBrowse link
dengue hemorrhagic fever term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cd1d1 CD1d1 molecule disease_progression ISO protein:increased expression:cd14-positive monocyte (human) RGD PMID:24945350 RGD:127345113 NCBI chr 2:172,423,582...172,427,089
Ensembl chr 2:172,423,582...172,427,089
JBrowse link
G Cd209 CD209 molecule severity
susceptibility
ISO DNA:SNPs:introns, promoter:multiple (human)
DNA:SNP:promoter: -336 A>G (rs4804803) (human)
RGD PMID:15838506 PMID:21245921 RGD:39938993, RGD:41410809 NCBI chr12:1,891,109...1,897,559
Ensembl chr12:1,891,113...1,901,171
JBrowse link
G Clec5a C-type lectin domain containing 5A ISO CTD Direct Evidence: therapeutic CTD PMID:18496526 NCBI chr 4:69,407,125...69,416,872
Ensembl chr 4:69,407,835...69,416,859
JBrowse link
G Fcgr2a Fc fragment of IgG receptor IIa susceptibility ISO DNA:polymorphism:cds:p.H131R(human) RGD PMID:22817980 RGD:11040906 NCBI chr13:83,280,782...83,297,535
Ensembl chr13:83,280,784...83,295,967
JBrowse link
G Ifnl1 interferon, lambda 1 ameliorates ISO DNA:SNP:enhancer:-1043C>T (rs7247086) (human) RGD PMID:31981768 RGD:126848742 NCBI chr 1:83,798,651...83,800,297 JBrowse link
G Il21 interleukin 21 severity ISO protein:increased expression:blood serum (human) RGD PMID:24858204 RGD:127285368 NCBI chr 2:120,119,598...120,126,941
Ensembl chr 2:120,119,444...120,126,996
JBrowse link
G Micb MHC class I polypeptide-related sequence B ISO CTD Direct Evidence: marker/mechanism CTD PMID:22001756 NCBI chr 1:78,495,779...78,513,030
Ensembl chr 1:78,495,779...78,512,827
JBrowse link
G Osbp oxysterol binding protein ISO mRNA:increased expression:peripheral blood mononuclear cell RGD PMID:28241052 RGD:41404654 NCBI chr 1:208,888,697...208,918,511
Ensembl chr 1:208,887,895...208,918,506
JBrowse link
G Plce1 phospholipase C, epsilon 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:22001756 NCBI chr 1:236,243,445...236,552,571
Ensembl chr 1:236,244,683...236,551,438
JBrowse link
G Slc6a4 solute carrier family 6 member 4 severity ISO DNA;polymorphism:5'utr: (rs25531) (human) RGD PMID:30452889 RGD:38676265 NCBI chr10:61,824,208...61,858,924
Ensembl chr10:61,826,123...61,858,384
JBrowse link
G Tap2 transporter 2, ATP binding cassette subfamily B member susceptibility ISO DNA:SNPs: : RGD PMID:18071882 RGD:6482261 NCBI chr20:4,636,347...4,650,387
Ensembl chr20:4,636,357...4,650,407
JBrowse link
Japanese encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Camk2n1 calcium/calmodulin-dependent protein kinase II inhibitor 1 ISO RGD PMID:17010311 RGD:18337278 NCBI chr 5:150,674,819...150,676,600
Ensembl chr 5:150,673,507...150,676,600
JBrowse link
G Ripk3 receptor-interacting serine-threonine kinase 3 ameliorates ISO RGD PMID:32265853 RGD:127229907 NCBI chr15:29,283,153...29,292,107
Ensembl chr15:29,283,145...29,292,121
JBrowse link
tick-borne encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cd40 CD40 molecule ISO protein:increased expression:cerebrospinal fluid (human) RGD PMID:16463218 RGD:11352252 NCBI chr 3:153,790,372...153,805,279
Ensembl chr 3:153,790,449...153,805,534
JBrowse link
G Cd40lg CD40 ligand ISO protein:increased expression:cerebrospinal fluid (human) RGD PMID:16463218 RGD:11352252 NCBI chr  X:135,127,119...135,138,302
Ensembl chr  X:135,126,969...135,138,306
JBrowse link
West Nile encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ddx58 DEXD/H-box helicase 58 ISO mRNA:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 5:55,321,229...55,369,947
Ensembl chr 5:55,321,235...55,370,819
JBrowse link
G Ifih1 interferon induced with helicase C domain 1 ISO mRNA:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 3:47,228,980...47,275,403
Ensembl chr 3:47,227,364...47,275,456
JBrowse link
G Lcn2 lipocalin 2 ISO mRNA,protein:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 3:15,680,688...15,684,033
Ensembl chr 3:15,680,687...15,684,095
JBrowse link
G Rnasel ribonuclease L disease_progression ISO RGD PMID:16809306 RGD:40902815 NCBI chr13:65,894,990...65,910,354
Ensembl chr13:65,901,459...65,908,704
JBrowse link
G Sting1 stimulator of interferon response cGAMP interactor 1 severity ISO RGD PMID:31415679 RGD:39128224 NCBI chr18:27,332,119...27,338,371
Ensembl chr18:27,332,119...27,338,335
JBrowse link
G Tlr3 toll-like receptor 3 ISO mRNA:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr16:46,821,980...46,837,900
Ensembl chr16:46,822,039...46,836,545
JBrowse link
West Nile fever term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ccr5 C-C motif chemokine receptor 5 susceptibility ISO ClinVar Annotator: match by term: West nile virus, susceptibility to
CTD Direct Evidence: marker/mechanism
OMIM
ClinVar
CTD
PMID:8639485 PMID:8751444 PMID:8756719 PMID:9055842 PMID:9132277 More... NCBI chr 8:123,752,423...123,757,538
Ensembl chr 8:123,752,325...123,759,260
JBrowse link
G Irf5 interferon regulatory factor 5 disease_progression ISO RGD PMID:25031348 RGD:40924561 NCBI chr 4:58,127,577...58,140,665
Ensembl chr 4:58,127,640...58,139,267
JBrowse link
G Mavs mitochondrial antiviral signaling protein severity ISO RGD PMID:28094802 RGD:40903045 NCBI chr 3:118,451,650...118,466,094
Ensembl chr 3:118,451,743...118,466,094
JBrowse link
G Rfc1 replication factor C subunit 1 susceptibility ISO DNA:silent mutation:CDS:p.P847P (rs2066786) (human) RGD PMID:21881118 RGD:41410434 NCBI chr14:42,966,279...43,041,372
Ensembl chr14:42,966,324...43,041,370
JBrowse link
G S100b S100 calcium binding protein B ISO RGD PMID:19790244 RGD:5508797 NCBI chr20:12,372,866...12,381,619
Ensembl chr20:12,372,881...12,394,743
JBrowse link
yellow fever term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Stat2 signal transducer and activator of transcription 2 susceptibility ISO RGD PMID:31043530 RGD:41789622 NCBI chr 7:702,565...718,349
Ensembl chr 7:702,495...718,967
JBrowse link
Zika fever term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atf4 activating transcription factor 4 ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr 7:111,804,135...111,806,457
Ensembl chr 7:111,804,183...111,806,446
JBrowse link
G Atg16l1 autophagy related 16-like 1 ISO CTD Direct Evidence: therapeutic CTD PMID:28694387 NCBI chr 9:88,420,737...88,457,530
Ensembl chr 9:88,422,038...88,457,529
JBrowse link
G Ddit3 DNA-damage inducible transcript 3 ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr 7:63,115,645...63,121,203
Ensembl chr 7:63,116,380...63,121,201
JBrowse link
G Edem1 ER degradation enhancing alpha-mannosidase like protein 1 ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr 4:141,797,631...141,829,717
Ensembl chr 4:141,797,701...141,829,717
JBrowse link
G Ern1 endoplasmic reticulum to nucleus signaling 1 ISO RGD PMID:30241539 RGD:32733625 NCBI chr10:91,326,889...91,421,201
Ensembl chr10:91,330,654...91,421,029
JBrowse link
G Hspa5 heat shock protein family A (Hsp70) member 5 ISO mRNA,protein:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr 3:18,055,507...18,059,969
Ensembl chr 3:18,055,405...18,059,891
JBrowse link
G Ppp1r15a protein phosphatase 1, regulatory subunit 15A ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr 1:96,000,053...96,003,128
Ensembl chr 1:96,000,058...96,003,171
JBrowse link
G Stat2 signal transducer and activator of transcription 2 susceptibility ISO human gene in a mouse model RGD PMID:29746837 PMID:28278235 RGD:41789627, RGD:41789631 NCBI chr 7:702,565...718,349
Ensembl chr 7:702,495...718,967
JBrowse link
G Xbp1 X-box binding protein 1 ISO protein:increased expression:cerebellum, mesocephalon RGD PMID:30241539 RGD:32733625 NCBI chr14:80,390,629...80,395,713
Ensembl chr14:80,390,643...80,395,693
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  disease 17205
    disease by infectious agent 1916
      viral infectious disease 1569
        RNA Virus Infections 1354
          Flaviviridae Infections 161
            Flavivirus Infections 45
              Japanese encephalitis 2
              Kyasanur forest disease + 0
              Omsk hemorrhagic fever 0
              St. Louis encephalitis 0
              West Nile fever + 11
              Zika fever + 9
              dengue disease + 21
              louping ill 0
              tick-borne encephalitis + 2
              yellow fever 1
paths to the root