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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for GAL3ST1 |
Basic gene info. | Gene symbol | GAL3ST1 |
Gene name | galactose-3-O-sulfotransferase 1 | |
Synonyms | CST | |
Cytomap | UCSC genome browser: 22q12.2 | |
Genomic location | chr22 :30950623-30960876 | |
Type of gene | protein-coding | |
RefGenes | NM_004861.1, | |
Ensembl id | ENSG00000128242 | |
Description | 3'-phosphoadenosine-5'-phosphosulfate:GalCer sulfotransferase3'-phosphoadenylylsulfate:galactosylceramide 3'-sulfotransferaseGalCer sulfotransferasecerebroside (3'-phosphoadenylylsulfate:galactosylceramide 3') sulfotransferasecerebroside sulfotransfer | |
Modification date | 20141207 | |
dbXrefs | MIM : 602300 | |
HGNC : HGNC | ||
Ensembl : ENSG00000128242 | ||
HPRD : 03806 | ||
Vega : OTTHUMG00000151200 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GAL3ST1 | |
BioGPS: 9514 | ||
Gene Expression Atlas: ENSG00000128242 | ||
The Human Protein Atlas: ENSG00000128242 | ||
Pathway | NCI Pathway Interaction Database: GAL3ST1 | |
KEGG: GAL3ST1 | ||
REACTOME: GAL3ST1 | ||
ConsensusPathDB | ||
Pathway Commons: GAL3ST1 | ||
Metabolism | MetaCyc: GAL3ST1 | |
HUMANCyc: GAL3ST1 | ||
Regulation | Ensembl's Regulation: ENSG00000128242 | |
miRBase: chr22 :30,950,623-30,960,876 | ||
TargetScan: NM_004861 | ||
cisRED: ENSG00000128242 | ||
Context | iHOP: GAL3ST1 | |
cancer metabolism search in PubMed: GAL3ST1 | ||
UCL Cancer Institute: GAL3ST1 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for GAL3ST1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: GAL3ST1 |
Familial Cancer Database: GAL3ST1 |
* This gene is included in those cancer gene databases. |
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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_SPHINGOLIPID_METABOLISM REACTOME_GLYCOSPHINGOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_SPHINGOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Mutations for GAL3ST1 |
* 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 |
There's no inter-chromosomal structural variation. |
- 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 | GAL3ST1 | chr22 | 30958646 | 30958666 | GAL3ST1 | chr22 | 30952182 | 30952202 |
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 GAL3ST1 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 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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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=37) | (# total SNVs=15) |
(# 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 |
chr22:30951295-30951295 | p.H306P | 3 |
chr22:30951447-30951447 | p.F255F | 3 |
chr22:30951153-30951153 | p.D353D | 2 |
chr22:30951019-30951019 | p.I398S | 2 |
chr22:30951298-30951298 | p.S305F | 2 |
chr22:30951027-30951027 | p.T395T | 2 |
chr22:30951828-30951828 | p.D128E | 2 |
chr22:30950957-30950957 | p.D419N | 2 |
chr22:30951492-30951492 | p.L240L | 1 |
chr22:30953352-30953352 | p.E10* | 1 |
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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 | 1 |   | 4 | 3 |   | 3 |   | 1 | 1 |   | 5 | 3 | 1 |   |   | 13 | 9 |   | 7 |
# mutation | 2 | 1 |   | 4 | 3 |   | 3 |   | 1 | 1 |   | 5 | 4 | 1 |   |   | 13 | 10 |   | 8 |
nonsynonymous SNV | 2 | 1 |   | 2 | 2 |   | 1 |   | 1 | 1 |   | 3 | 1 | 1 |   |   | 6 | 5 |   | 7 |
synonymous SNV |   |   |   | 2 | 1 |   | 2 |   |   |   |   | 2 | 3 |   |   |   | 7 | 5 |   | 1 |
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 |
chr22:30951447 | p.F255F | 3 |
chr22:30950957 | p.D419N | 2 |
chr22:30951882 | p.L262P | 1 |
chr22:30951178 | p.K82N | 1 |
chr22:30951365 | p.R340C | 1 |
chr22:30950997 | p.D256D | 1 |
chr22:30951608 | p.P74Q | 1 |
chr22:30951966 | p.R422W | 1 |
chr22:30951194 | p.A337P | 1 |
chr22:30951395 | p.R64L | 1 |
Other DBs for Point Mutations |
Copy Number for GAL3ST1 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 GAL3ST1 |
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 |
AADACL2,ACER1,ANKRD35,C1orf105,CARD18,CYP2F1,CYP3A4, DGAT2,FADS6,GAL3ST1,INO80B,KRT79,NKPD1,NTN5, PLA2G2F,PNPLA1,PSAPL1,RDH12,RNF112,SLC29A4,TPRA1 | ACTR3B,VPS51___IFT46,SNHG20,CCHCR1,CITED4,EIF3D,FBL, GAL3ST1,HSCB,IMPDH2,KCNN4,NPM2,PDZK1IP1,PQBP1, PRSS27,RPS19,SLC16A11,SNHG8,SVOPL,WDR74,ZNF692 |
ACY1,AQP11,BAIAP2L2,TMEM253,LRRC75B,CYSTM1,CBLC, CIB1,CREB3L3,GAL3ST1,GLTPD2,LOC100130933,MYO1A,POLD4, RDH5,SLC22A18,SLC25A1,SLC7A9,SPINT1,TM4SF5,VILL | ALDOC,ALPI,TMEM253,CCDC108,CDH16,CRIP1,GAL3ST1, GALNT6,HAAO,MGAT3,MLXIPL,MYOM3,PNLIPRP2,SI, SLC28A2,SLC37A4,SYT8,TM4SF5,TMED4,TMPRSS7,UGT2B7 |
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 GAL3ST1 |
There's no related Drug. |
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Cross referenced IDs for GAL3ST1 |
* 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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