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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:Helicobacter Infections
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Accession:DOID:9008114 term browser browse the term
Definition:Infections with organisms of the genus HELICOBACTER, particularly, in humans, HELICOBACTER PYLORI. The clinical manifestations are focused in the stomach, usually the gastric mucosa and antrum, and the upper duodenum. This infection plays a major role in the pathogenesis of type B gastritis and peptic ulcer disease.
Synonyms:exact_synonym: Helicobacter Infection
 related_synonym: HELICOBACTER PYLORI INFECTION, SUSCEPTIBILITY TO
 primary_id: MESH:D016481
 alt_id: OMIM:600263
 xref: EFO:1000961


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Helicobacter Infections term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abcb1a ATP binding cassette subfamily B member 1A sexual_dimorphism
no_association		 ISO associated with peptic ulcer disease;DNA:SNP: :3435C>T(human)
DNA:haplotype: :3435T> C,2677T>G ,1236C>T (human)		 RGD PMID:22001987 PMID:27611887 RGD:39456093, RGD:39456122 NCBI chr 4:25,357,467...25,529,941
Ensembl chr 4:25,158,362...25,442,709 		JBrowse link
G Ace angiotensin I converting enzyme susceptibility ISO DNA:insertion/deletion:intron: RGD PMID:28746216 RGD:40400710 NCBI chr10:90,910,316...90,930,437
Ensembl chr10:90,910,316...90,931,131 		JBrowse link
G Acvr1b activin A receptor type 1B disease_progression ISO associated with stomach cancer;mRNA:increased expression:stomach: RGD PMID:32066878 RGD:151665490 NCBI chr 7:132,286,266...132,329,679
Ensembl chr 7:132,286,275...132,329,673 		JBrowse link
G Aicda activation-induced cytidine deaminase ISO protein:increased expression:mucosa of stomach (human) RGD PMID:23591766 RGD:127285627 NCBI chr 4:155,774,132...155,783,972
Ensembl chr 4:155,774,132...155,783,972 		JBrowse link
G Atm ATM serine/threonine kinase ISO associated with stomach cancer;mRNA:increased expression:stomach (human) RGD PMID:29128564 RGD:126790563 NCBI chr 8:53,828,741...53,932,773
Ensembl chr 8:53,831,093...53,932,437 		JBrowse link
G Birc3 baculoviral IAP repeat-containing 3 treatment ISO associated with stomach cancer
associated with MALT lymphoma;DNA:gene fusion: (human)		 RGD PMID:27282269 PMID:11398794 RGD:153297818, RGD:153305954 NCBI chr 8:5,000,844...5,028,470
Ensembl chr 8:5,000,845...5,015,802 		JBrowse link
G Ccnd2 cyclin D2 treatment ISO associated with Gastrointestinal Neoplasms or gastritis
mRNA:increased expression:stomach:		 RGD PMID:11552926 PMID:12133540 RGD:151665103, RGD:151665119 NCBI chr 4:159,966,883...159,989,261
Ensembl chr 4:159,962,363...159,989,495 		JBrowse link
G Cd1d1 CD1d1 molecule ISO associated with dyspepsia;mRNA:splice variant:pyloric antrum (human) RGD PMID:26119195 RGD:11074500 NCBI chr 2:172,423,582...172,427,089
Ensembl chr 2:172,423,582...172,427,089 		JBrowse link
G Cdh1 cadherin 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:19184424 NCBI chr19:34,492,371...34,561,775
Ensembl chr19:34,492,371...34,561,775 		JBrowse link
G Cdkn1b cyclin-dependent kinase inhibitor 1B ISO CTD Direct Evidence: marker/mechanism CTD PMID:15138205 NCBI chr 4:167,760,067...167,765,177
Ensembl chr 4:167,760,181...167,764,982 		JBrowse link
G Cxcl6 C-X-C motif chemokine ligand 6 disease_progression ISO mRNA:altered expression:gastric antrum (mouse) RGD PMID:29085807 RGD:38549349 NCBI chr14:17,310,790...17,312,250
Ensembl chr14:17,310,426...17,313,093 		JBrowse link
G Cybb cytochrome b-245 beta chain disease_progression ISO mRNA,protein:increased expression:mucosa of stomach (human) RGD PMID:27048452 RGD:40924640 NCBI chr  X:13,358,101...13,392,570
Ensembl chr  X:13,359,430...13,392,586 		JBrowse link
G Cyp2c6 cytochrome P450, family 2, subfamily C, polypeptide 6 treatment
no_association		 ISO DNA:polymorphisms:exons:
DNA:polymorphisms::		 RGD PMID:9867757 PMID:15691303 PMID:27706745 RGD:124713408, RGD:124713409, RGD:124713537 NCBI chr 1:237,938,521...237,976,238
Ensembl chr 1:237,693,094...238,057,596 		JBrowse link
G Cysltr1 cysteinyl leukotriene receptor 1 treatment ISO RGD PMID:18571838 RGD:40903061 NCBI chr  X:71,661,421...71,690,012
Ensembl chr  X:71,663,821...71,690,121 		JBrowse link
G Duox2 dual oxidase 2 disease_progression ISO mRNA,protein:decreased expression:mucosa of stomach (human) RGD PMID:27048452 RGD:40924640 NCBI chr 3:109,223,809...109,247,023
Ensembl chr 3:109,226,924...109,245,902 		JBrowse link
G Egf epidermal growth factor treatment ISO associated with gastritis; RGD PMID:25051417 RGD:38599160 NCBI chr 2:218,219,408...218,302,359
Ensembl chr 2:218,219,415...218,302,064 		JBrowse link
G Egfr epidermal growth factor receptor treatment ISO associated with gastritis; RGD PMID:25051417 PMID:28473630 RGD:38599160, RGD:38599214 NCBI chr14:91,176,979...91,349,722
Ensembl chr14:91,177,067...91,344,382 		JBrowse link
G Erbb2 erb-b2 receptor tyrosine kinase 2 treatment ISO associated with gastritis; RGD PMID:25051417 RGD:38599160 NCBI chr10:83,411,197...83,435,078
Ensembl chr10:83,411,313...83,435,078 		JBrowse link
G F2r coagulation factor II (thrombin) receptor ISO RGD PMID:24866378 RGD:40924630 NCBI chr 2:26,869,343...26,885,856
Ensembl chr 2:26,868,404...26,885,870 		JBrowse link
G Gab1 GRB2-associated binding protein 1 susceptibility ISO DNA:SNP:intron: RGD PMID:17211494 RGD:39128202 NCBI chr19:27,131,262...27,239,236
Ensembl chr19:27,131,262...27,239,236 		JBrowse link
G Hamp hepcidin antimicrobial peptide treatment ISO RGD PMID:21757452 RGD:11041721 NCBI chr 1:86,170,926...86,172,865
Ensembl chr 1:86,170,901...86,172,891 		JBrowse link
G Hmox1 heme oxygenase 1 ISO RGD PMID:16100019 RGD:1598398 NCBI chr19:13,466,287...13,474,082
Ensembl chr19:13,467,244...13,474,079 		JBrowse link
G Ifng interferon gamma disease_progression ISO mRNA:altered expression:gastric antrum (mouse) RGD PMID:29085807 RGD:38549349 NCBI chr 7:53,903,339...53,907,375
Ensembl chr 7:53,903,337...53,907,375 		JBrowse link
G Ifngr1 interferon gamma receptor 1 ISO ClinVar Annotator: match by term: Helicobacter pylori infection, susceptibility to
CTD Direct Evidence: marker/mechanism		 ClinVar
CTD
OMIM		 PMID:10192386 PMID:11583830 PMID:12516030 PMID:16690980 PMID:18171304 More... NCBI chr 1:14,333,167...14,351,799
Ensembl chr 1:14,333,187...14,351,785 		JBrowse link
G Il1b interleukin 1 beta disease_progression ISO mRNA:altered expression:gastric antrum (mouse) RGD PMID:29085807 RGD:38549349 NCBI chr 3:116,577,005...116,583,386
Ensembl chr 3:116,577,010...116,583,415 		JBrowse link
G Il21 interleukin 21 ISO mRNA, protein:increased expression:mucosa of stomach (human) RGD PMID:17442980 PMID:31383743 RGD:127285542, RGD:127285544 NCBI chr 2:120,117,105...120,127,012
Ensembl chr 2:120,119,444...120,126,996 		JBrowse link
G Il33 interleukin 33 severity ISO associated with Helicobacter Infections;DNA:SNP: : rs1929992(human)
mRNA:increased expression:stomach		 RGD PMID:31491552 PMID:31320834 RGD:39938849, RGD:39939030 NCBI chr 1:227,701,964...227,736,374
Ensembl chr 1:227,721,435...227,736,373 		JBrowse link
G Il6 interleukin 6 disease_progression ISO mRNA:altered expression:gastric antrum (mouse) RGD PMID:29085807 RGD:38549349 NCBI chr 4:5,214,602...5,219,178
Ensembl chr 4:5,213,394...5,219,178 		JBrowse link
G Lcn2 lipocalin 2 ISO protein:increased expression:gastric mucosa RGD PMID:19727808 RGD:126781713 NCBI chr 3:15,680,688...15,684,033
Ensembl chr 3:15,680,687...15,684,095 		JBrowse link
G Ltb4r leukotriene B4 receptor treatment ISO RGD PMID:18571838 RGD:40903061 NCBI chr15:29,263,199...29,265,716 JBrowse link
G Mapk8 mitogen-activated protein kinase 8 ISO protein:increased expression:pyloric antrum (human) RGD PMID:17643099 RGD:150340691 NCBI chr16:8,638,897...8,721,960
Ensembl chr16:8,638,924...8,721,981 		JBrowse link
G Mir155 microRNA 155 ISO miRNA:increased expression:stomach RGD PMID:29250766 PMID:28560185 RGD:21408595, RGD:25671377 NCBI chr11:23,774,654...23,774,718
Ensembl chr11:23,774,654...23,774,718 		JBrowse link
G Mir222 microRNA 222 ISO associated with stomach cancer;RNA:increased expression:stomach: RGD PMID:29227536 RGD:151708731 NCBI chr  X:3,428,904...3,429,006
Ensembl chr  X:3,428,904...3,429,006 		JBrowse link
G Mthfr methylenetetrahydrofolate reductase susceptibility ISO associated with stomach cancer;DNA:missense mutation:cds:g.677C>T (human) RGD PMID:23183616 PMID:20957490 RGD:38501056, RGD:38501057 NCBI chr 5:158,465,248...158,484,999
Ensembl chr 5:158,465,296...158,483,797 		JBrowse link
G Muc6 mucin 6, oligomeric mucus/gel-forming ISO protein:increased expression:stomach epithelium RGD PMID:15280409 RGD:7364760 NCBI chr 1:196,726,678...196,764,842
Ensembl chr 1:196,726,807...196,764,842 		JBrowse link
G Myd88 MYD88, innate immune signal transduction adaptor ISO RGD PMID:28201999 RGD:150519916 NCBI chr 8:119,074,439...119,078,508
Ensembl chr 8:119,074,437...119,079,415 		JBrowse link
G Pdcd1 programmed cell death 1 severity ISO RGD PMID:21562113 RGD:40818417 NCBI chr 9:94,418,786...94,431,945
Ensembl chr 9:94,418,791...94,431,937 		JBrowse link
G Prkaa1 protein kinase AMP-activated catalytic subunit alpha 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:28220687 NCBI chr 2:54,240,298...54,275,978
Ensembl chr 2:54,240,137...54,275,978 		JBrowse link
G Psca prostate stem cell antigen ISO CTD Direct Evidence: marker/mechanism CTD PMID:28220687 NCBI chr 7:106,598,203...106,603,114
Ensembl chr 7:106,595,284...106,609,746 		JBrowse link
G Pten phosphatase and tensin homolog ISO associated with gastritis;protein:increased phosphorylation:stomach (human) RGD PMID:26376616 RGD:127285599 NCBI chr 1:230,630,443...230,697,070
Ensembl chr 1:230,630,338...230,696,838 		JBrowse link
G Ptpn11 protein tyrosine phosphatase, non-receptor type 11 susceptibility ISO DNA:SNP:intron: rs2301756(human) RGD PMID:19589142 RGD:39128247 NCBI chr12:35,365,436...35,424,925
Ensembl chr12:35,383,144...35,424,925 		JBrowse link
G Ptprz1 protein tyrosine phosphatase, receptor type Z1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:17030583 NCBI chr 4:51,397,316...51,595,220
Ensembl chr 4:51,397,601...51,595,218 		JBrowse link
G RT1-Ba RT1 class II, locus Ba resistance ISO associated with Diabetes Mellitus, Insulin-Dependent RGD PMID:11860411 RGD:2301818 NCBI chr20:4,575,134...4,579,727
Ensembl chr20:4,575,134...4,579,744 		JBrowse link
G RT1-Bb RT1 class II, locus Bb susceptibility ISO associated with Purpura, Thrombocytopenic, Idiopathic;DNA:polymorphisms (human)
DNA:polymorphisms: :HLA-DQB1*301, HLA-DQB1*04(human)		 RGD PMID:16011982 PMID:15833172 RGD:5147649, RGD:36049761 NCBI chr20:4,596,558...4,602,201
Ensembl chr20:4,596,559...4,607,597 		JBrowse link
G RT1-Db1 RT1 class II, locus Db1 susceptibility ISO associated with Purpura, Thrombocytopenic, Idiopathic;DNA:polymorphisms (human)
DNA:polymorphisms: :HLA-DRB1*11, HLA-DRB1*12(human)		 RGD PMID:16011982 PMID:15833172 RGD:5147649, RGD:36049761 NCBI chr20:4,548,664...4,558,237
Ensembl chr20:4,548,666...4,558,258 		JBrowse link
G Slc6a4 solute carrier family 6 member 4 ISO DNA:repeats:promoter: RGD PMID:24720453 RGD:36947385 NCBI chr10:61,824,208...61,858,924
Ensembl chr10:61,826,123...61,858,384 		JBrowse link
G Socs3 suppressor of cytokine signaling 3 IEP mRNA, protein:increased expression RGD PMID:17405912 RGD:1625683 NCBI chr10:103,193,909...103,197,322
Ensembl chr10:103,193,537...103,197,787 		JBrowse link
G Tff1 trefoil factor 1 disease_progression ISO mRNA:altered expression:gastric antrum (mouse) RGD PMID:29085807 RGD:38549349 NCBI chr20:9,235,736...9,239,597
Ensembl chr20:9,235,736...9,239,597 		JBrowse link
G Tff2 trefoil factor 2 disease_progression ISO protein:increased expression:stomach epithelium
mRNA:altered expression:gastric antrum (mouse)		 RGD PMID:15280409 PMID:29085807 RGD:7364760, RGD:38549349 NCBI chr20:9,215,750...9,219,619
Ensembl chr20:9,215,761...9,219,619 		JBrowse link
G Tff3 trefoil factor 3 disease_progression ISO mRNA:altered expression:gastric antrum (mouse) RGD PMID:29085807 RGD:38549349 NCBI chr20:9,193,259...9,197,969
Ensembl chr20:9,193,262...9,198,054 		JBrowse link
G Tfrc transferrin receptor ISO CTD Direct Evidence: marker/mechanism CTD PMID:16733738 PMID:17163184 NCBI chr11:68,163,413...68,185,257
Ensembl chr11:68,163,413...68,185,257 		JBrowse link
G Vip vasoactive intestinal peptide ISO protein:increased expression:spinal cord, stomach RGD PMID:19906107 RGD:5685602 NCBI chr 1:42,064,878...42,073,219
Ensembl chr 1:42,065,120...42,073,216 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  disease 21128
    disease by infectious agent 2214
      Bacterial Infections and Mycoses 1072
        bacterial infectious disease 823
          Gram-Negative Bacterial Infections 200
            Helicobacter Infections 52
              Cystic Fibrosis with Helicobacter Pylori Gastritis, Megaloblastic Anemia, and Subnormal Mentality 0
              Lubani Al Saleh Teebi Syndrome 0
paths to the root