PedAM
Pediatric Disease Annotations & Medicines
| atrophic gastritis | ||||
| Disease ID | 1010 |
|---|---|
| Disease | atrophic gastritis |
| Integrated Phenotype | (Waiting for update.) |
| Text Mined Phenotype | HPO | Name | Sentences' Count(Total Phenotypes:18) HP:0005202 | Helicobacter pylori infection | 12 HP:0012126 | Gastric cancer | 10 HP:0002024 | Intestinal malabsorption | 5 HP:0002664 | Neoplasia | 4 HP:0100570 | Carcinoid tumor | 3 HP:0002592 | Stomach ulcer | 2 HP:0000820 | Thyroid abnormality | 2 HP:0030731 | Carcinoma | 2 HP:0005263 | Gastritis | 2 HP:0008200 | Primary hyperparathyroidism | 1 HP:0001513 | Obesity | 1 HP:0001677 | Coronary artery disease | 1 HP:0002044 | Zollinger-Ellison syndrome | 1 HP:0001114 | Fatty deposits on eyelids | 1 HP:0002960 | Autoimmune condition | 1 HP:0100633 | Inflammation of the esophagus | 1 HP:0002588 | Duodenal ulcer | 1 HP:0000872 | Hashimoto's thyroiditis | 1 |
| Disease ID | 1010 |
|---|---|
| Disease | atrophic gastritis |
| Manually Symptom | (Waiting for update.) |
| Text Mined Symptom | UMLS | Name | Sentences' Count(Total Symptoms:10) C0009450 | infection | 19 C0850666 | helicobacter pylori infection | 12 C0024623 | gastric cancer | 9 C0024523 | malabsorption | 5 C0007095 | carcinoids | 4 C0850666 | h. pylori infection | 3 C0007095 | carcinoid tumor | 1 C0013295 | duodenal ulcer | 1 C0699791 | gastric carcinoma | 1 C0878500 | epithelial dysplasia | 1 |
Manually Genotype(Total Text Mining Genotypes:0) |
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| (Waiting for update.) |
All Snps(Total Genotypes:27) | |||||||||||||
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| snpId | pubmedId | geneId | geneSymbol | diseaseId | sourceId | sentence | score | Year | geneSymbol_dbSNP | CHROMOSOME | POS | REF | ALT |
| rs1042194 | 23801863 | 1557 | CYP2C19 | umls:C0017154 | BeFree | SNPs rs9315542 (UFM1 gene), rs6878265 (THBS4 gene), rs1042194 (CYP2C19 gene) and rs10505799 (MGST1 gene) were significantly associated with atrophic gastritis, complete intestinal metaplasia, incomplete metaplasia with foci of dysplasia and dysplasia, respectively. | 0.000542884 | 2013 | CYP2C18 | 10 | 94735727 | G | T |
| rs10505799 | 23801863 | 1557 | CYP2C19 | umls:C0017154 | BeFree | SNPs rs9315542 (UFM1 gene), rs6878265 (THBS4 gene), rs1042194 (CYP2C19 gene) and rs10505799 (MGST1 gene) were significantly associated with atrophic gastritis, complete intestinal metaplasia, incomplete metaplasia with foci of dysplasia and dysplasia, respectively. | 0.000542884 | 2013 | LOC101928362 | 12 | 16293334 | T | C |
| rs10739971 | 24586594 | 406881 | MIRLET7A1 | umls:C0017154 | BeFree | The interaction effects of pri-let-7a-1 rs10739971 with PGC and ERCC6 gene polymorphisms in gastric cancer and atrophic gastritis. | 0.000271442 | 2014 | MIRLET7A1;MIRLET7F1 | 9 | 94175398 | G | A |
| rs10739971 | 24586594 | 2074 | ERCC6 | umls:C0017154 | BeFree | The interaction effects of pri-let-7a-1 rs10739971 with PGC and ERCC6 gene polymorphisms in gastric cancer and atrophic gastritis. | 0.000271442 | 2014 | MIRLET7A1;MIRLET7F1 | 9 | 94175398 | G | A |
| rs10739971 | 24586594 | 5225 | PGC | umls:C0017154 | BeFree | The interaction effects of pri-let-7a-1 rs10739971 with PGC and ERCC6 gene polymorphisms in gastric cancer and atrophic gastritis. | 0.003995683 | 2014 | MIRLET7A1;MIRLET7F1 | 9 | 94175398 | G | A |
| rs121434254 | 11343230 | 5132 | PDC | umls:C0017154 | BeFree | Heterozygous mutations of AIRE were identified in 3 patients: a patient with PBC and a patient with AIH type 1 carried a R257X mutation, and a patient with AIH type 2, diabetes mellitus type 1 (IDDM), thyroid disease, and atrophic gastritis carried a G305S mutation in the first PHD ring finger domain of the AIRE protein. | 0.000271442 | 2001 | AIRE | 21 | 44289773 | C | A,T |
| rs121434254 | 11343230 | 326 | AIRE | umls:C0017154 | BeFree | Heterozygous mutations of AIRE were identified in 3 patients: a patient with PBC and a patient with AIH type 1 carried a R257X mutation, and a patient with AIH type 2, diabetes mellitus type 1 (IDDM), thyroid disease, and atrophic gastritis carried a G305S mutation in the first PHD ring finger domain of the AIRE protein. | 0.000271442 | 2001 | AIRE | 21 | 44289773 | C | A,T |
| rs12229892 | 23455381 | 5781 | PTPN11 | umls:C0017154 | BeFree | We observed that PGC rs6458238, PGC rs4711690 and PTPN11 rs12229892 were associated with susceptibilities to GA and/or GC. | 0.007177041 | 2013 | PTPN11 | 12 | 112485589 | G | A |
| rs2294008 | 25582162 | 8000 | PSCA | umls:C0017154 | BeFree | PSCA rs2294008 C>T polymorphism was assessed in H. pylori-positive Japanese patients (n = 488) with noncardia gastric cancer (n = 193), gastric ulcer (n = 84), duodenal ulcer (n = 61), and atrophic gastritis (n = 150), as well as in H. pylori-negatives (n = 266). | 0.002909916 | 2015 | PSCA | 8 | 142680513 | C | T |
| rs2294008 | 21070776 | 8000 | PSCA | umls:C0017154 | BeFree | Carriage of the risk allele (T) of rs2294008 in PSCA was associated with chronic atrophic gastritis (adjusted odds ratio [OR], 1.5; 95% confidence interval [CI]: 1.1-1.9) and noncardia gastric cancer (OR, 1.9; 95% CI: 1.3-2.8). | 0.002909916 | 2011 | PSCA | 8 | 142680513 | C | T |
| rs2297518 | 18287876 | 3459 | IFNGR1 | umls:C0017154 | BeFree | A nonsynonymous SNP of NOS2A (Ser608Leu) and an SNP located in the promoter of IFNGR1 (C-56T) were associated with higher risk of atrophic gastritis [odds ratio (OR)=1.37, 95% confidence interval (CI)=1.01-1.86, and OR=1.49, 95% CI=1.01-2.19, respectively]. | 0.000271442 | 2008 | NOS2 | 17 | 27769571 | G | A |
| rs2297518 | 18287876 | 4843 | NOS2 | umls:C0017154 | BeFree | A nonsynonymous SNP of NOS2A (Ser608Leu) and an SNP located in the promoter of IFNGR1 (C-56T) were associated with higher risk of atrophic gastritis [odds ratio (OR)=1.37, 95% confidence interval (CI)=1.01-1.86, and OR=1.49, 95% CI=1.01-2.19, respectively]. | 0.000271442 | 2008 | NOS2 | 17 | 27769571 | G | A |
| rs2301756 | 19589142 | 52 | ACP1 | umls:C0017154 | BeFree | This study aimed to examine the formerly reported association of G/A PTPN11 (protein-tyrosine phosphatase, nonreceptor-type 11) polymorphism (rs2301756) with gastric atrophy, as well as the association with gastric cancer in a Japanese population using a large sample size. | 0.000814326 | 2009 | PTPN11 | 12 | 112452972 | A | G |
| rs2910164 | 20721625 | 406938 | MIR146A | umls:C0017154 | BeFree | Combined effect of miR-146a rs2910164 G/C polymorphism and Toll-like receptor 4 +3725 G/C polymorphism on the risk of severe gastric atrophy in Japanese. | 0.000271442 | 2011 | LOC285628;MIR146A | 5 | 160485411 | C | G |
| rs2910164 | 20721625 | 7099 | TLR4 | umls:C0017154 | BeFree | Combined effect of miR-146a rs2910164 G/C polymorphism and Toll-like receptor 4 +3725 G/C polymorphism on the risk of severe gastric atrophy in Japanese. | 0.003181358 | 2011 | LOC285628;MIR146A | 5 | 160485411 | C | G |
| rs3760776 | 25681243 | 2528 | FUT6 | umls:C0017154 | BeFree | FUT6 (rs3760776) AA genotype was present in four (4.8%) autoimmune gastritis patients (all pernicious anaemia) and three (1.7%) controls (p = 0.007). | 0.000271442 | 2015 | FUT6 | 19 | 5839735 | G | A |
| rs3789210 | 25551587 | 5225 | PGC | umls:C0017154 | BeFree | Our findings highlight an important role of PGC rs3789210 and rs6939861 in altering susceptibility to atrophic gastritis and/or gastric cancer. | 0.003995683 | 2014 | PGC | 6 | 41743584 | C | G |
| rs4711690 | 23455381 | 5781 | PTPN11 | umls:C0017154 | BeFree | We observed that PGC rs6458238, PGC rs4711690 and PTPN11 rs12229892 were associated with susceptibilities to GA and/or GC. | 0.007177041 | 2013 | PGC | 6 | 41741200 | C | G |
| rs4833095 | 25687912 | 7096 | TLR1 | umls:C0017154 | BeFree | Moreover, subjects carrying TLR1 rs4833095 TT genotype were associated with reduced risks of chronic atrophic gastritis (CAG, OR=0.66; 95%CI: 0.45-0.97) and intestinal metaplasia (IM, OR=0.57; 95%CI: 0.36-0.90). | 0.000271442 | 2015 | TLR1 | 4 | 38798089 | T | C |
| rs629367 | 24760009 | 406882 | MIRLET7A2 | umls:C0017154 | BeFree | pri-let-7a-2 rs629367 CC genotype could increase the risks of gastric cancer as well as atrophic gastritis and was also associated with poor survival of gastric cancer, which possibly by affecting the mature let-7a expression, and could serve as a predicting biomarker for high-risk and poor prognosis of gastric cancer. | 0.000271442 | 2014 | MIR100HG;MIRLET7A2 | 11 | 122146306 | C | A |
| rs6458238 | 23455381 | 5781 | PTPN11 | umls:C0017154 | BeFree | We observed that PGC rs6458238, PGC rs4711690 and PTPN11 rs12229892 were associated with susceptibilities to GA and/or GC. | 0.007177041 | 2013 | NA | 6 | 41749967 | G | A |
| rs6458238 | 23455381 | 5225 | PGC | umls:C0017154 | BeFree | In gastric cancerous specimens, we observed significantly higher messenger RNA level in the subjects carrying the PGC rs6458238 GA genotype than that in subjects with the common GG genotype. | 0.003995683 | 2013 | NA | 6 | 41749967 | G | A |
| rs6878265 | 23801863 | 1557 | CYP2C19 | umls:C0017154 | BeFree | SNPs rs9315542 (UFM1 gene), rs6878265 (THBS4 gene), rs1042194 (CYP2C19 gene) and rs10505799 (MGST1 gene) were significantly associated with atrophic gastritis, complete intestinal metaplasia, incomplete metaplasia with foci of dysplasia and dysplasia, respectively. | 0.000542884 | 2013 | NA | 5 | 120069960 | C | T |
| rs6939861 | 25551587 | 5225 | PGC | umls:C0017154 | BeFree | Our findings highlight an important role of PGC rs3789210 and rs6939861 in altering susceptibility to atrophic gastritis and/or gastric cancer. | 0.003995683 | 2014 | TFEB | 6 | 41735303 | G | A |
| rs760805 | 19728008 | 864 | RUNX3 | umls:C0017154 | BeFree | Significant association of RUNX3 T/A polymorphism at intron 3 (rs760805) with the risk of gastric atrophy in Helicobacter pylori seropositive Japanese. | 0.002909916 | 2009 | RUNX3 | 1 | 24925432 | A | T |
| rs9315542 | 23801863 | 1557 | CYP2C19 | umls:C0017154 | BeFree | SNPs rs9315542 (UFM1 gene), rs6878265 (THBS4 gene), rs1042194 (CYP2C19 gene) and rs10505799 (MGST1 gene) were significantly associated with atrophic gastritis, complete intestinal metaplasia, incomplete metaplasia with foci of dysplasia and dysplasia, respectively. | 0.000542884 | 2013 | LINC00571;LOC101929077 | 13 | 38057334 | T | C |
| rs9606756 | 25681243 | 6948 | TCN2 | umls:C0017154 | BeFree | A genetic variant of TCN2 (rs9606756) related to lower vitamin B12 levels was more frequent in pernicious anaemia patients compared to controls, showing the plausibility of genetic factors determining the possible clinical manifestation of autoimmune gastritis. | 0.000271442 | 2015 | TCN2 | 22 | 30610873 | A | G |
GWASdb Annotation(Total Genotypes:0) | |
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GWASdb Snp Trait(Total Genotypes:0) | |
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Mapped by lexical matching(Total Items:0) |
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Mapped by homologous gene(Total Items:0) |
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Chemical(Total Drugs:0) | |
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FDA approved drug and dosage information(Total Drugs:0) | |
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FDA labeling changes(Total Drugs:0) | |
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