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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;   Flavivirus infectious disease
 primary_id: MESH:D018177
 xref: EFO:1001326


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Flavivirus Infections term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G IFNA2 interferon alpha 2 EXP CTD Direct Evidence: therapeutic CTD PMID:16902856 NCBI chr 9:21,384,255...21,385,398
Ensembl chr 9:21,384,255...21,385,398 		JBrowse link
G PRF1 perforin 1 ISO mRNA:increased expression:brain, spleen RGD PMID:21908734 RGD:6482795 NCBI chr10:70,597,348...70,602,741
Ensembl chr10:70,597,348...70,602,759 		JBrowse link
dengue disease term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CD209 CD209 molecule susceptibility
severity		 IAGP
EXP		 ClinVar Annotator: match by term: Dengue fever, protection against
ClinVar Annotator: match by term: Dengue virus, susceptibility to
DNA:SNP:promoter: -336G>A (human)
CTD Direct Evidence: marker/mechanism		 ClinVar
OMIM
CTD
RGD		 PMID:15564514 PMID:15838506 PMID:16379498 PMID:25741868 PMID:16274635 RGD:39939064 NCBI chr19:7,739,993...7,747,534
Ensembl chr19:7,739,993...7,747,564 		JBrowse link
G CXCR2 C-X-C motif chemokine receptor 2 treatment ISO RGD PMID:30098206 RGD:39938828 NCBI chr 2:218,125,294...218,137,251
Ensembl chr 2:218,125,289...218,137,251 		JBrowse link
G F2 coagulation factor II, thrombin IDA RGD PMID:22138554 RGD:40818430 NCBI chr11:46,719,213...46,739,506
Ensembl chr11:46,719,196...46,739,506 		JBrowse link
G FCGR2A Fc gamma receptor IIa severity IAGP DNA:polymorphism:cds:p.H131R(human) RGD PMID:26240159 RGD:13463456 NCBI chr 1:161,505,457...161,524,048
Ensembl chr 1:161,505,430...161,524,013 		JBrowse link
G GC GC vitamin D binding protein IEP protein:increased expression:plasma RGD PMID:19845402 RGD:5509870 NCBI chr 4:71,741,693...71,805,520
Ensembl chr 4:71,741,696...71,804,041 		JBrowse link
G IDO1 indoleamine 2,3-dioxygenase 1 treatment IEP RGD PMID:31821895 RGD:39939074 NCBI chr 8:39,913,891...39,928,790
Ensembl chr 8:39,902,275...39,928,790 		JBrowse link
G IFNL1 interferon lambda 1 ameliorates IEP protein:increased expression:blood serum (human) RGD PMID:28238051 RGD:126848771 NCBI chr19:39,296,407...39,298,673
Ensembl chr19:39,296,407...39,298,673 		JBrowse link
G IL1RL1 interleukin 1 receptor like 1 treatment ISO RGD PMID:30098206 RGD:39938828 NCBI chr 2:102,311,563...102,352,356
Ensembl chr 2:102,311,502...102,352,037 		JBrowse link
G IL33 interleukin 33 severity ISO RGD PMID:30098206 RGD:39938828 NCBI chr 9:6,215,149...6,257,983
Ensembl chr 9:6,215,786...6,257,983 		JBrowse link
G LOC117307477 CD209 promoter region IAGP ClinVar Annotator: match by term: Dengue fever, protection against ClinVar PMID:15564514 PMID:15838506 PMID:16379498 NCBI chr19:7,747,412...7,749,177 JBrowse link
G MAPK8 mitogen-activated protein kinase 8 ISO protein:increased phosphorylation:liver (mouse) RGD PMID:28188818 RGD:150340680 NCBI chr10:48,306,677...48,439,360
Ensembl chr10:48,306,639...48,439,360 		JBrowse link
G MIR146A microRNA 146a IEP RNA:decreased expression:serum: RGD PMID:26941580 RGD:41404658 NCBI chr 5:160,485,352...160,485,450
Ensembl chr 5:160,485,352...160,485,450 		JBrowse link
G MIR21 microRNA 21 IEP RNA:increased expression:serum: RGD PMID:26941580 RGD:41404658 NCBI chr17:59,841,266...59,841,337
Ensembl chr17:59,841,266...59,841,337 		JBrowse link
G STAT2 signal transducer and activator of transcription 2 susceptibility ISO RGD PMID:21075352 PMID:21379341 RGD:41789625, RGD:41789629 NCBI chr12:56,341,597...56,360,107
Ensembl chr12:56,341,597...56,360,203 		JBrowse link
dengue hemorrhagic fever term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CD1D CD1d molecule disease_progression IEP protein:increased expression:cd14-positive monocyte (human) RGD PMID:24945350 RGD:127345113 NCBI chr 1:158,178,030...158,186,427
Ensembl chr 1:158,178,030...158,186,427 		JBrowse link
G CD209 CD209 molecule severity
susceptibility		 IAGP DNA:SNPs:introns, promoter:multiple (human)
DNA:SNP:promoter: -336 A>G (rs4804803) (human)		 RGD PMID:15838506 PMID:21245921 RGD:39938993, RGD:41410809 NCBI chr19:7,739,993...7,747,534
Ensembl chr19:7,739,993...7,747,564 		JBrowse link
G CLEC5A C-type lectin domain containing 5A EXP CTD Direct Evidence: therapeutic CTD PMID:18496526 NCBI chr 7:141,927,357...141,946,974
Ensembl chr 7:141,927,357...141,947,007 		JBrowse link
G FCGR2A Fc gamma receptor IIa susceptibility IAGP DNA:polymorphism:cds:p.H131R(human) RGD PMID:22817980 RGD:11040906 NCBI chr 1:161,505,457...161,524,048
Ensembl chr 1:161,505,430...161,524,013 		JBrowse link
G IFNL1 interferon lambda 1 ameliorates IAGP DNA:SNP:enhancer:-1043C>T (rs7247086) (human) RGD PMID:31981768 RGD:126848742 NCBI chr19:39,296,407...39,298,673
Ensembl chr19:39,296,407...39,298,673 		JBrowse link
G IL21 interleukin 21 severity IEP protein:increased expression:blood serum (human) RGD PMID:24858204 RGD:127285368 NCBI chr 4:122,610,108...122,621,066
Ensembl chr 4:122,610,108...122,621,066 		JBrowse link
G KIR3DS1 killer cell immunoglobulin like receptor, three Ig domains and short cytoplasmic tail 1 ameliorates IAGP DNA:deletion, haplotype: (human) RGD PMID:32524212 RGD:150340583
G MICB MHC class I polypeptide-related sequence B EXP CTD Direct Evidence: marker/mechanism CTD PMID:22001756 NCBI chr 6:31,494,918...31,511,124
Ensembl chr 6:31,494,881...31,511,124 		JBrowse link
G OSBP oxysterol binding protein HEP mRNA:increased expression:peripheral blood mononuclear cell RGD PMID:28241052 RGD:41404654 NCBI chr11:59,574,398...59,615,774
Ensembl chr11:59,574,398...59,615,774 		JBrowse link
G PLCE1 phospholipase C epsilon 1 EXP CTD Direct Evidence: marker/mechanism CTD PMID:22001756 NCBI chr10:93,993,931...94,332,823
Ensembl chr10:93,993,931...94,332,823 		JBrowse link
G SLC6A4 solute carrier family 6 member 4 severity IAGP DNA;polymorphism:5'utr: (rs25531) (human) RGD PMID:30452889 RGD:38676265 NCBI chr17:30,194,319...30,235,697
Ensembl chr17:30,194,319...30,236,002 		JBrowse link
G TAP2 transporter 2, ATP binding cassette subfamily B member susceptibility IAGP DNA:SNPs: : RGD PMID:18071882 RGD:6482261 NCBI chr 6:32,821,831...32,838,739
Ensembl chr 6:32,821,833...32,838,739 		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 1:20,482,391...20,486,210
Ensembl chr 1:20,482,391...20,486,210 		JBrowse link
G RIPK3 receptor interacting serine/threonine kinase 3 ameliorates ISO RGD PMID:32265853 RGD:127229907 NCBI chr14:24,336,025...24,339,991
Ensembl chr14:24,336,025...24,340,022 		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 IEP protein:increased expression:cerebrospinal fluid (human) RGD PMID:16463218 RGD:11352252 NCBI chr20:46,118,314...46,129,858
Ensembl chr20:46,118,271...46,129,863 		JBrowse link
G CD40LG CD40 ligand IEP protein:increased expression:cerebrospinal fluid (human) RGD PMID:16463218 RGD:11352252 NCBI chr  X:136,648,158...136,660,390
Ensembl chr  X:136,648,158...136,660,390 		JBrowse link
West Nile encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G IFIH1 interferon induced with helicase C domain 1 ISO mRNA:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 2:162,267,074...162,318,684
Ensembl chr 2:162,267,074...162,318,684 		JBrowse link
G LCN2 lipocalin 2 ISO mRNA,protein:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 9:128,149,453...128,153,453
Ensembl chr 9:128,149,071...128,153,453 		JBrowse link
G RIGI RNA sensor RIG-I ISO mRNA:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 9:32,455,302...32,526,196
Ensembl chr 9:32,455,302...32,526,348 		JBrowse link
G RNASEL ribonuclease L disease_progression ISO RGD PMID:16809306 RGD:40902815 NCBI chr 1:182,573,634...182,589,256
Ensembl chr 1:182,573,634...182,589,256 		JBrowse link
G STING1 stimulator of interferon response cGAMP interactor 1 severity ISO RGD PMID:31415679 RGD:39128224 NCBI chr 5:139,475,533...139,482,758
Ensembl chr 5:139,475,533...139,482,935 		JBrowse link
G TLR3 toll like receptor 3 ISO mRNA:increased expression:brain RGD PMID:24173226 RGD:126781836 NCBI chr 4:186,069,156...186,088,073
Ensembl chr 4:186,068,911...186,088,073 		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 IAGP
EXP		 ClinVar Annotator: match by term: West Nile virus, susceptibility to
CTD Direct Evidence: marker/mechanism		 ClinVar
OMIM
CTD		 PMID:8639485 PMID:8751444 PMID:8756719 PMID:9055842 PMID:9132277 More... NCBI chr 3:46,370,142...46,376,206
Ensembl chr 3:46,370,946...46,376,206 		JBrowse link
G CCR5AS CCR5 antisense RNA IAGP ClinVar Annotator: match by term: West Nile virus, susceptibility to ClinVar PMID:8639485 PMID:8751444 PMID:8756719 PMID:9055842 PMID:9132277 More... NCBI chr 3:46,363,984...46,407,066
Ensembl chr 3:46,363,984...46,407,184 		JBrowse link
G IRF5 interferon regulatory factor 5 disease_progression ISO RGD PMID:25031348 RGD:40924561 NCBI chr 7:128,937,032...128,950,038
Ensembl chr 7:128,937,457...128,950,038 		JBrowse link
G KIR3DS1 killer cell immunoglobulin like receptor, three Ig domains and short cytoplasmic tail 1 IAGP DNA:deletion: (human) RGD PMID:23220498 RGD:150340586
G MAVS mitochondrial antiviral signaling protein severity ISO RGD PMID:28094802 RGD:40903045 NCBI chr20:3,846,834...3,876,118
Ensembl chr20:3,846,799...3,876,123 		JBrowse link
G RFC1 replication factor C subunit 1 susceptibility IAGP DNA:silent mutation:CDS:p.P847P (rs2066786) (human) RGD PMID:21881118 RGD:41410434 NCBI chr 4:39,287,456...39,366,362
Ensembl chr 4:39,287,456...39,366,375 		JBrowse link
G S100B S100 calcium binding protein B IEP RGD PMID:19790244 RGD:5508797 NCBI chr21:46,598,604...46,605,082
Ensembl chr21:46,598,604...46,605,208 		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 chr12:56,341,597...56,360,107
Ensembl chr12:56,341,597...56,360,203 		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 chr22:39,520,559...39,522,686
Ensembl chr22:39,519,695...39,522,686 		JBrowse link
G ATG16L1 autophagy related 16 like 1 EXP CTD Direct Evidence: therapeutic CTD PMID:28694387 NCBI chr 2:233,251,673...233,295,669
Ensembl chr 2:233,210,051...233,295,674 		JBrowse link
G DDIT3 DNA damage inducible transcript 3 ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr12:57,516,588...57,520,517
Ensembl chr12:57,516,588...57,521,737 		JBrowse link
G EDEM1 ER degradation enhancing alpha-mannosidase like protein 1 ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr 3:5,187,707...5,219,958
Ensembl chr 3:5,187,646...5,219,958 		JBrowse link
G ERN1 endoplasmic reticulum to nucleus signaling 1 ISO RGD PMID:30241539 RGD:32733625 NCBI chr17:64,039,142...64,130,144
Ensembl chr17:64,039,080...64,130,819 		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 9:125,234,853...125,241,343
Ensembl chr 9:125,234,853...125,241,382 		JBrowse link
G PPP1R15A protein phosphatase 1 regulatory subunit 15A ISO mRNA:increased expression:brain RGD PMID:30241539 RGD:32733625 NCBI chr19:48,872,421...48,876,058
Ensembl chr19:48,872,212...48,876,059 		JBrowse link
G STAT2 signal transducer and activator of transcription 2 susceptibility IMP
ISO		 human gene in a mouse model RGD PMID:29746837 PMID:28278235 RGD:41789627, RGD:41789631 NCBI chr12:56,341,597...56,360,107
Ensembl chr12:56,341,597...56,360,203 		JBrowse link
G XBP1 X-box binding protein 1 ISO protein:increased expression:cerebellum, mesocephalon RGD PMID:30241539 RGD:32733625 NCBI chr22:28,794,560...28,800,569
Ensembl chr22:28,794,555...28,800,597 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  disease 112207
    disease by infectious agent 4491
      viral infectious disease 3281
        RNA Virus Infections 2638
          Flaviviridae Infections 244
            Flavivirus Infections 53
              Japanese encephalitis 2
              Kyasanur forest disease + 0
              Omsk hemorrhagic fever 0
              St. Louis encephalitis 0
              West Nile fever + 13
              Zika fever + 9
              dengue disease + 27
              louping ill 0
              tick-borne encephalitis + 2
              yellow fever 1
paths to the root