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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for GALNT8 |
Basic gene info. | Gene symbol | GALNT8 |
Gene name | polypeptide N-acetylgalactosaminyltransferase 8 | |
Synonyms | GALNAC-T8 | |
Cytomap | UCSC genome browser: 12p13.3 | |
Genomic location | chr12 :4829751-4881892 | |
Type of gene | protein-coding | |
RefGenes | NM_017417.1, | |
Ensembl id | ENSG00000130035 | |
Description | GalNAc transferase 8UDP-GalNAc: polypeptide N-acetylgalactosaminyltransferase 8UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase 8UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 8 (GalNAc-T8)polypeptide GalNAc t | |
Modification date | 20141207 | |
dbXrefs | MIM : 606250 | |
HGNC : HGNC | ||
Ensembl : ENSG00000130035 | ||
HPRD : 09374 | ||
Vega : OTTHUMG00000166188 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GALNT8 | |
BioGPS: 26290 | ||
Gene Expression Atlas: ENSG00000130035 | ||
The Human Protein Atlas: ENSG00000130035 | ||
Pathway | NCI Pathway Interaction Database: GALNT8 | |
KEGG: GALNT8 | ||
REACTOME: GALNT8 | ||
ConsensusPathDB | ||
Pathway Commons: GALNT8 | ||
Metabolism | MetaCyc: GALNT8 | |
HUMANCyc: GALNT8 | ||
Regulation | Ensembl's Regulation: ENSG00000130035 | |
miRBase: chr12 :4,829,751-4,881,892 | ||
TargetScan: NM_017417 | ||
cisRED: ENSG00000130035 | ||
Context | iHOP: GALNT8 | |
cancer metabolism search in PubMed: GALNT8 | ||
UCL Cancer Institute: GALNT8 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for GALNT8(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: GALNT8 |
Familial Cancer Database: GALNT8 |
* 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 | |
REACTOME_METABOLISM_OF_PROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: GALNT8 |
MedGen: GALNT8 (Human Medical Genetics with Condition) | |
ClinVar: GALNT8 | |
Phenotype | MGI: GALNT8 (International Mouse Phenotyping Consortium) |
PhenomicDB: GALNT8 |
Mutations for GALNT8 |
* 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 | GALNT8 | chr12 | 4843951 | 4843971 | CNPY1 | chr7 | 155307746 | 155307766 |
ovary | GALNT8 | chr12 | 4863642 | 4863662 | chr12 | 4900771 | 4900791 | |
pancreas | GALNT8 | chr12 | 4841211 | 4841231 | GALNT8 | chr12 | 4841288 | 4841308 |
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 GALNT8 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 |
BM797239 | GALNT8 | 5 | 215 | 12 | 4872495 | 4874593 | CHD4 | 215 | 393 | 12 | 6682376 | 6687069 |
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 |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   | |||
GAIN (# sample) | 1 | 1 |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
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=68) | (# total SNVs=28) |
(# 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 |
chr12:4870201-4870201 | p.Y417Y | 3 |
chr12:4872467-4872467 | p.E470K | 3 |
chr12:4855430-4855430 | p.? | 3 |
chr12:4835915-4835915 | p.L143L | 3 |
chr12:4830000-4830000 | p.Y53D | 3 |
chr12:4854615-4854615 | p.R294Q | 3 |
chr12:4835882-4835882 | p.L132L | 2 |
chr12:4855327-4855327 | p.G359D | 2 |
chr12:4881631-4881631 | p.R594R | 2 |
chr12:4854665-4854665 | p.R311C | 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 | 3 | 4 | 1 | 6 | 1 |   | 7 |   | 2 |   |   | 12 | 3 | 2 |   | 2 | 22 | 10 | 1 | 11 |
# mutation | 3 | 4 | 1 | 5 | 1 |   | 7 |   | 2 |   |   | 14 | 3 | 2 |   | 2 | 27 | 10 | 1 | 16 |
nonsynonymous SNV | 2 | 3 |   | 3 | 1 |   | 5 |   | 2 |   |   | 9 | 3 | 2 |   | 1 | 20 | 7 | 1 | 11 |
synonymous SNV | 1 | 1 | 1 | 2 |   |   | 2 |   |   |   |   | 5 |   |   |   | 1 | 7 | 3 |   | 5 |
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 |
chr12:4835915 | p.L143L | 3 |
chr12:4835957 | p.L157L | 2 |
chr12:4854665 | p.A563A | 2 |
chr12:4835834 | p.R294Q | 2 |
chr12:4874640 | p.R311C | 2 |
chr12:4854615 | p.M116I | 2 |
chr12:4855350 | p.A261A | 1 |
chr12:4874620 | p.K353R | 1 |
chr12:4835951 | p.V444A | 1 |
chr12:4853717 | p.R555H | 1 |
Other DBs for Point Mutations |
Copy Number for GALNT8 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 GALNT8 |
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 |
LINC00261,FAM221B,CEACAM3,CEACAM5,CLCA2,CPLX4,DNAH3, FOXA2,GALNT8,GRK7,HEPACAM2,KIAA1161,MC5R,PCDHGA2, PCDHGA4,PIGO,PKHD1,RAB27A,RGP1,UPK1A,VSIG2 | C17orf77,CAPN9,CYB561,CYP2A13,EPN3,ERBB2,GAL3ST2, GALNT8,HOXB13,JUP,LINC01105,LOC400940,LRRC59,PGAP3, PVALB,S100A7,S100A7A,S100P,TMEM132A,TSPAN8,UBE2Z |
ADAM2,ANO7,B3GNT6,LINC01550,LINC00261,CAPN9,CIB4, DLL1,DRP2,FAM174B,FCGBP,GALNT8,KCNA6,KIAA1324, KIF19,MB,NEURL1,REP15,RHBDL3,SPDEF,TCN1 | C17orf77,LINC00261,CA8,CELSR1,CHRM1,FIBCD1,FMOD, GALNT8,INSM1,KIAA1324,KLK15,NEBL,NKX2-2,PLXNC1, PTPRN2,RFX3,SCN8A,SLC12A8,SLC18A1,SLC2A10,ST6GALNAC1 |
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 GALNT8 |
There's no related Drug. |
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Cross referenced IDs for GALNT8 |
* 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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