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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CHST11 |
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Phenotypic Information for CHST11(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: CHST11 |
Familial Cancer Database: CHST11 |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
Metabolic Pathway Description | |
KEGG_SULFUR_METABOLISM REACTOME_METABOLISM_OF_CARBOHYDRATES |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: CHST11 |
MedGen: CHST11 (Human Medical Genetics with Condition) | |
ClinVar: CHST11 | |
Phenotype | MGI: CHST11 (International Mouse Phenotyping Consortium) |
PhenomicDB: CHST11 |
Mutations for CHST11 |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | CHST11 | chr12 | 104929033 | 104929053 | CHST11 | chr12 | 104927825 | 104927845 |
ovary | CHST11 | chr12 | 105052623 | 105052643 | CHST11 | chr12 | 105052685 | 105052705 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows CHST11 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
BF926212 | CHST11 | 2 | 264 | 12 | 104956050 | 104956311 | FARP1 | 248 | 329 | 13 | 99101721 | 99101802 | |
AI243715 | PPDPF | 7 | 201 | 20 | 62153324 | 62153519 | CHST11 | 202 | 382 | 12 | 104851276 | 105150789 | |
BF922748 | CHST11 | 21 | 231 | 12 | 105074266 | 105074477 | CLPTM1L | 223 | 422 | 5 | 1336140 | 1336339 | |
BF508216 | CHST11 | 17 | 211 | 12 | 104893920 | 104894114 | CHST11 | 207 | 539 | 12 | 104894893 | 104895225 | |
BI062214 | CHST11 | 1 | 245 | 12 | 104867702 | 104867946 | CHST11 | 230 | 392 | 12 | 104866579 | 104866741 | |
CB270023 | CHST11 | 80 | 100 | 12 | 105120868 | 105120888 | ARHGEF1 | 96 | 220 | 19 | 42402495 | 42402619 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 |   |   | 1 | 3 |   | 1 |   |   |   |   |   |   |   | 1 |   |   | |||
GAIN (# sample) | 1 |   |   | 1 |   |   |   |   |   |   |   |   |   |   | 1 |   |   | |||
LOSS (# sample) |   |   |   |   | 3 |   | 1 |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=40) | (# total SNVs=22) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr12:105150997-105150997 | p.A159T | 6 |
chr12:105151233-105151233 | p.F237F | 3 |
chr12:104995690-104995690 | p.R42Q | 3 |
chr12:105151047-105151047 | p.R175R | 2 |
chr12:105150990-105150990 | p.H156H | 2 |
chr12:105150991-105150991 | p.V157I | 2 |
chr12:105151089-105151089 | p.F189F | 2 |
chr12:105151516-105151516 | p.E332K | 2 |
chr12:104995735-104995735 | p.R57Q | 2 |
chr12:105151183-105151183 | p.R221W | 2 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample | 2 | 4 |   | 12 |   |   | 3 |   |   |   |   | 2 | 5 | 1 | 1 |   | 6 | 3 | 1 | 7 |
# mutation | 2 | 4 |   | 11 |   |   | 3 |   |   |   |   | 2 | 5 | 1 | 1 |   | 6 | 3 | 1 | 9 |
nonsynonymous SNV | 1 | 2 |   | 6 |   |   | 3 |   |   |   |   |   | 3 |   | 1 |   | 5 | 2 |   | 7 |
synonymous SNV | 1 | 2 |   | 5 |   |   |   |   |   |   |   | 2 | 2 | 1 |   |   | 1 | 1 | 1 | 2 |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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Top 10 SNVs Having the Most Samples in TCGA data |
* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr12:105150997 | p.A154T,CHST11 | 4 |
chr12:105151233 | p.F232F,CHST11 | 3 |
chr12:105150990 | p.H151H,CHST11 | 2 |
chr12:105150791 | p.R128Q,CHST11 | 1 |
chr12:105151427 | p.R214H,CHST11 | 1 |
chr12:105150996 | p.L331L,CHST11 | 1 |
chr12:105151226 | p.L129L,CHST11 | 1 |
chr12:105150871 | p.R216W,CHST11 | 1 |
chr12:105151459 | p.N337K,CHST11 | 1 |
chr12:105150891 | p.T134T,CHST11 | 1 |
Other DBs for Point Mutations |
Copy Number for CHST11 in TCGA |
* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for CHST11 |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
ADAM19,ADCY7,ARPC2,CD86,CHST11,DSE,EMR2, IL15RA,IL21R,PPP1R18,LAIR1,LCP2,LILRB1,LILRB2, LYN,MSN,NCF2,PDCD1LG2,PRDM1,SLAMF8,SLC7A7 | ADAM8,ARHGAP30,ARHGAP9,CD300LF,CD37,CHST11,CSF2RB, GPR132,IL2RG,IL4I1,KLHL6,LILRB1,LPXN,MYO1G, POU2F2,RHOF,SASH3,SEL1L3,SEMA7A,SPN,WDFY4 |
ADAM12,BICC1,CHST11,COL5A2,COL6A1,COL6A2,FRMD6, GPC6,GPR68,INHBA,LILRB2,MAFB,MYO5A,NRP1, NRP2,PDCD1LG2,RUNX2,SNAI2,TIMP2,VCAN,ZEB2 | BASP1,C17orf96,RTP5,CHST11,CLSTN3,HAUS5,KIAA0922, LIMK1,MSC,ORAI2,PIP4K2A,POU2AF1,RELT,RFTN1, RHBDF2,S1PR2,SH2D3C,SLC7A5,TESC,TRAF1,WIPF1 |
Co-Expressed gene's Protein-protein interaction Network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for CHST11 |
There's no related Drug. |
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Cross referenced IDs for CHST11 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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