Neoplasm of the gastrointestinal tract

0007378

Normal Case/Contol ^ⓘ

Sibling Case/Control ^ⓘ

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Interactive Plot

Statistics

Case	Control
91195	368999

Phenotype Definition

A tumor (abnormal growth of tissue) of the gastrointestinal tract. [HPO:probinson]

Top SNP Information

Location	SNP	Gene	Ref>Alt	Alt in Case	Alt in Control	Chi-square	P-value	Odds ratio
chr15:48426484	rs1426654	SLC24A5	A>G	4196	23330	347.2	1.733e-77	0.7299
chr15:48392165	rs1834640	-	A>G	5024	26600	292.2	1.658e-65	0.7665
chr5:33951693	rs16891982	SLC45A2	G>C	11613	55445	246.2	1.732e-55	0.8477
chr5:33958959	rs28777	SLC45A2	A>C	9794	47198	231.1	3.361e-52	0.8409
chr1:159174683	rs2814778	ACKR1	T>C	2991	16386	221.5	4.2e-50	0.7428
chr8:145639681	rs1871534	SLC39A4	G>C	2820	15325	197.2	8.382e-45	0.749
chr5:147671850	rs7724380	-	G>A	3191	16992	191.8	1.288e-43	0.7643
chr17:58508582	rs8071181	C17orf64	G>A	2357	13060	187.9	9.315e-43	0.7352
chr16:7465748	rs4786166	RBFOX1	C>T	2783	15011	184.0	6.651e-42	0.7549
chr5:147863034	rs9325101	HTR4	A>G	2598	14142	183.3	9.089e-42	0.7482
chr5:147666044	rs7707813	-	T>C	2979	15784	171.6	3.27e-39	0.7687
chr13:72441665	rs3759505	-	C>T	2617	14098	170.9	4.72e-39	0.7562
chr9:127267689	rs3814134	NR5A1	A>G	4866	24340	169.6	8.857e-39	0.8131
chr6:170242949	rs9396958	-	T>C	2514	13600	169.1	1.14e-38	0.7532
chr10:31495974	rs1250307	-	A>G	3703	19069	168.7	1.449e-38	0.7905
chr9:140957557	rs11137360	CACNA1B	A>G	3387	17619	167.9	2.077e-38	0.7828
chr9:137925543	rs7027926	-	G>A	2643	14177	167.4	2.69e-38	0.7593
chr13:113979968	rs200506581	GRTP1	C>CCACA	1924	10802	166.9	3.463e-38	0.7261
chr13:113979972	Affx-80297025	GRTP1	A>ACACT	1923	10784	165.8	6.177e-38	0.7268
chr12:3417813	rs729914	-	G>T	2516	13571	165.7	6.355e-38	0.7554
chr6:396321	rs12203592	IRF4	C>T	40687	158228	63.22	1.848e-15	1.051
chr18:46453463	rs4939827	SMAD7	T>C	85596	353082	48.35	3.572e-12	0.9642
chr20:60920700	rs6143035	LAMA5	T>C	43816	182759	43.02	5.405e-11	0.9607
chr20:60899182	rs11698080	LAMA5	C>T	39087	163013	40.25	2.238e-10	0.9602
chr20:60968596	rs1570027	CABLES2	A>G	40195	167561	37.9	7.436e-10	0.962
chr6:421281	rs62389423	-	G>A	32969	128896	37.42	9.504e-10	1.043
chr15:33022090	rs35330276	GREM1	G>A	34809	136413	35.15	3.046e-09	1.04
chr17:50270268	rs12939066	-	C>T	61496	243512	34.36	4.591e-09	1.033
chr20:60898244	rs57627107	LAMA5	A>G	40809	169826	34.26	4.813e-09	0.9639
chr19:46262286	rs725660	BHMG1	C>A	67268	266972	31.93	1.596e-08	1.031
chr20:60921044	rs4925386	LAMA5	C>T	56487	233582	31.75	1.754e-08	0.9687
chr20:60958651	rs11699160	-	T>C	63883	263735	30.28	3.736e-08	0.9703
chr11:439879	rs7102822	ANO9	G>A	73030	290142	29.55	5.446e-08	1.03
chr6:30979793	rs9366764	MUC22	G>A	25924	101249	29.39	5.92e-08	1.042
chr11:111171709	rs3802842	COLCA2	A>C	56063	222080	29.29	6.238e-08	1.031
chr6:30984404	rs3869096	MUC22	T>G	25920	101331	28.7	8.465e-08	1.041
chr15:32994756	rs4779584	-	C>T	35317	138858	28.61	8.835e-08	1.036
chr6:30981361	rs9380205	MUC22	C>G	25950	101419	28.54	9.158e-08	1.041
chr18:46400784	rs75518588	-	G>A	38576	151951	28.47	9.51e-08	1.035
chr11:111165009	rs7103178	-	T>C	56182	222611	28.39	9.901e-08	1.031

Location	SNP	Gene	Ref>Alt	Alt in Case	Alt in Control	Chi-square	P-value	Odds ratio
chr18:46453463	rs4939827	SMAD7	T>C	85596	166120	39.12	3.992e-10	0.9643
chr25:2645366	rs311083	-	C>G	67252	125421	34.03	5.415e-09	1.036
chr20:60920700	rs6143035	LAMA5	T>C	43816	85882	32.25	1.358e-08	0.9624
chr19:46262286	rs725660	BHMG1	C>A	67268	125460	29.23	6.432e-08	1.033
chr20:60968596	rs1570027	CABLES2	A>G	40195	78756	28.89	7.67e-08	0.9633
chr25:154999134	rs6642320	-	G>A	63614	123490	28.6	8.903e-08	0.9676
chr25:2649832	rs311088	-	T>C	80196	150024	28.15	1.125e-07	1.031
chr6:30792364	rs12206022	-	A>G	22777	45134	27.81	1.34e-07	0.9552
chr18:46400784	rs75518588	-	G>A	38576	71314	27.56	1.523e-07	1.038
chr6:30763756	rs3131063	-	G>A	80858	156569	27.43	1.626e-07	0.97
chr6:30792270	rs12192704	-	G>A	22728	45016	27.12	1.911e-07	0.9557
chr20:60899182	rs11698080	LAMA5	C>T	39087	76451	26.34	2.86e-07	0.9644
chr6:30792235	rs4713391	-	T>C	22823	45171	26.21	3.06e-07	0.9565
chr15:33022090	rs35330276	GREM1	G>A	34809	64289	25.67	4.052e-07	1.038
chr6:30773314	rs4713376	-	A>C	22726	44955	25.55	4.31e-07	0.9569
chr20:60958651	rs11699160	-	T>C	63883	124061	25.24	5.074e-07	0.97
chr6:30773239	rs4711240	-	T>C	22777	45035	25.04	5.612e-07	0.9574
chr6:30796932	rs12198842	-	T>C	22413	44339	24.97	5.821e-07	0.9572
chr20:60898244	rs57627107	LAMA5	A>G	40809	79779	24.82	6.287e-07	0.9661
chr11:439879	rs7102822	ANO9	G>A	73030	136468	24.68	6.777e-07	1.03

Associated Diseases ^ⓘ

ID	Name	Top Correlation
ICD: C159	Oesophagus, unspecified	4/20
ICD: C787	Secondary malignant neoplasm of liver	2/20
ICD: D125	Sigmoid colon	6/20
ICD: D126	Colon, unspecified	4/20
ICD: D128	Rectum	7/20
ICD: K20	Oesophagitis	9/20
ICD: K21	Gastro-oesophageal reflux disease	10/20
ICD: K221	Ulcer of oesophagus	9/20
ICD: K317	Polyp of stomach and duodenum	3/20
ICD: K621	Rectal polyp	5/20
ICD: K635	Polyp of colon	8/20
ICD: M88	Paget's disease of bone [osteitis deformans]	3/20

ID	Name	Top Correlation
ICD-10: C01	Malignant neoplasm of base of tongue	0/20
ICD-10: C160	Cardia	0/20
ICD-10: C169	Stomach, unspecified	0/20
ICD-10: C182	Ascending colon	0/20
ICD-10: C183	Hepatic flexure	0/20
ICD-10: C185	Splenic flexure	0/20
ICD-10: C187	Sigmoid colon	0/20
ICD-10: C189	Colon, unspecified	0/20
ICD-10: C19	Malignant neoplasm of rectosigmoid junction	0/20
ICD-10: C211	Anal canal	0/20
ICD-10: C220	Liver cell carcinoma	0/20
ICD-10: C221	Intrahepatic bile duct carcinoma	0/20
ICD-10: C229	Liver, unspecified	0/20
ICD-10: C23	Malignant neoplasm of gallbladder	0/20
ICD-10: C250	Head of pancreas	0/20
ICD-10: C252	Tail of pancreas	0/20
ICD-10: C260	Intestinal tract, part unspecified	0/20
ICD-10: C482	Peritoneum, unspecified	0/20
ICD-10: C56	Malignant neoplasm of ovary	0/20
ICD-10: C770	Lymph nodes of head, face and neck	0/20
ICD-10: C778	Lymph nodes of multiple regions	0/20
ICD-10: C779	Lymph node, unspecified	0/20
ICD-10: C781	Secondary malignant neoplasm of mediastinum	0/20
ICD-10: C784	Secondary malignant neoplasm of small intestine	0/20
ICD-10: C796	Secondary malignant neoplasm of ovary	0/20
ICD-10: C80	Malignant neoplasm without specification of site	0/20
ICD-10: C833	Large cell (diffuse)	0/20
ICD-10: C851	B-cell lymphoma, unspecified	0/20
ICD-10: D122	Ascending colon	0/20
ICD-10: D131	Stomach	0/20
ICD-10: D132	Duodenum	0/20
ICD-10: D180	Haemangioma, any site	0/20
ICD-10: D371	Stomach	0/20
ICD-10: D374	Colon	0/20
ICD-10: D375	Rectum	0/20
ICD-10: D377	Other digestive organs	0/20
ICD-10: F430	Acute stress reaction	0/20
ICD-10: I269	Pulmonary embolism without mention of acute cor pulmonale	0/20
ICD-10: I279	Pulmonary heart disease, unspecified	0/20
ICD-10: J948	Other specified pleural conditions	0/20
ICD-10: K228	Other specified diseases of oesophagus	0/20
ICD-10: K229	Disease of oesophagus, unspecified	0/20
ICD-10: K500	Crohn's disease of small intestine	0/20
ICD-10: K550	Acute vascular disorders of intestine	0/20
ICD-10: K561	Intussusception	0/20
ICD-10: K639	Disease of intestine, unspecified	0/20
ICD-10: K720	Acute and subacute hepatic failure	0/20
ICD-10: K746	Other and unspecified cirrhosis of liver	0/20
ICD-10: K803	Calculus of bile duct with cholangitis	0/20
ICD-10: K830	Cholangitis	0/20
ICD-10: M512	Other specified intervertebral disk displacement	0/20
ICD-10: Q446	Cystic disease of liver	0/20
ICD-10: R12	Heartburn	0/20
ICD-10: W010	Home	0/20

Neoplasm of the gastrointestinal tract

0007378

Normal Case/Contol ⓘ

Sibling Case/Control ⓘ

Links

Statistics

Phenotype Definition

Top SNP Information Show Normal Table Show Sibling SNP

Associated Diseases ⓘ Shared SNP diseases No shared SNP diseases

Normal Case/Contol ^ⓘ

Sibling Case/Control ^ⓘ

Top SNP Information

Associated Diseases ^ⓘ