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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ARSF |
Basic gene info. | Gene symbol | ARSF |
Gene name | arylsulfatase F | |
Synonyms | ASF | |
Cytomap | UCSC genome browser: Xp22.3 | |
Genomic location | chrX :2958274-3030770 | |
Type of gene | protein-coding | |
RefGenes | NM_001201538.1, NM_001201539.1,NM_004042.4, | |
Ensembl id | ENSG00000062096 | |
Description | - | |
Modification date | 20141207 | |
dbXrefs | MIM : 300003 | |
HGNC : HGNC | ||
Ensembl : ENSG00000062096 | ||
HPRD : 02049 | ||
Vega : OTTHUMG00000021081 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ARSF | |
BioGPS: 416 | ||
Gene Expression Atlas: ENSG00000062096 | ||
The Human Protein Atlas: ENSG00000062096 | ||
Pathway | NCI Pathway Interaction Database: ARSF | |
KEGG: ARSF | ||
REACTOME: ARSF | ||
ConsensusPathDB | ||
Pathway Commons: ARSF | ||
Metabolism | MetaCyc: ARSF | |
HUMANCyc: ARSF | ||
Regulation | Ensembl's Regulation: ENSG00000062096 | |
miRBase: chrX :2,958,274-3,030,770 | ||
TargetScan: NM_001201538 | ||
cisRED: ENSG00000062096 | ||
Context | iHOP: ARSF | |
cancer metabolism search in PubMed: ARSF | ||
UCL Cancer Institute: ARSF | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for ARSF(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: ARSF |
Familial Cancer Database: ARSF |
* 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_GLYCOSPHINGOLIPID_METABOLISM REACTOME_PHOSPHOLIPID_METABOLISM REACTOME_METABOLISM_OF_PROTEINS REACTOME_SPHINGOLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: ARSF |
MedGen: ARSF (Human Medical Genetics with Condition) | |
ClinVar: ARSF | |
Phenotype | MGI: ARSF (International Mouse Phenotyping Consortium) |
PhenomicDB: ARSF |
Mutations for ARSF |
* 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 |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows ARSF 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=59) | (# total SNVs=28) |
(# total SNVs=1) | (# 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 |
chr23:3002505-3002505 | p.G210S | 5 |
chr23:3019221-3019221 | p.R354Q | 3 |
chr23:3002495-3002495 | p.G206G | 3 |
chr23:3007607-3007607 | p.D301N | 3 |
chr23:3021841-3021841 | p.V381I | 2 |
chr23:3002690-3002690 | p.A271A | 2 |
chr23:3002448-3002448 | p.L191I | 2 |
chr23:2994704-2994704 | p.R93* | 2 |
chr23:3019222-3019222 | p.R354R | 2 |
chr23:3007547-3007547 | p.E281K | 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 | 1 |   | 15 | 3 |   | 2 |   | 3 | 1 | 1 | 20 | 2 | 4 |   | 1 | 24 | 1 | 1 | 7 |
# mutation | 3 | 1 |   | 11 | 3 |   | 2 |   | 3 | 1 | 1 | 21 | 2 | 4 |   | 1 | 21 | 1 | 1 | 7 |
nonsynonymous SNV | 2 |   |   | 6 | 2 |   | 2 |   | 1 |   | 1 | 15 | 2 | 4 |   | 1 | 16 | 1 | 1 | 5 |
synonymous SNV | 1 | 1 |   | 5 | 1 |   |   |   | 2 | 1 |   | 6 |   |   |   |   | 5 |   |   | 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 |
chrX:3002505 | p.G210S,ARSF | 5 |
chrX:3019221 | p.G206G,ARSF | 3 |
chrX:3002495 | p.R354Q,ARSF | 3 |
chrX:3030423 | p.V381I,ARSF | 2 |
chrX:3019222 | p.E281K,ARSF | 2 |
chrX:3007547 | p.F494F,ARSF | 2 |
chrX:3030306 | p.V423V,ARSF | 2 |
chrX:3028172 | p.K533K,ARSF | 2 |
chrX:3021841 | p.R354R,ARSF | 2 |
chrX:2998959 | p.G364R,ARSF | 1 |
Other DBs for Point Mutations |
Copy Number for ARSF 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 ARSF |
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 |
AKR1C2,ARSF,C2CD4B,CDC42EP5,DAND5,DBI,EPB42, GGT1,GGT3P,GGTLC1,GGTLC2,HAAO,HPD,LOC644165, LOH12CR1,OXER1,PATE3,PHOX2B,PRR23B,PRR23C,REN | ARSF,BATF,CALML3,CDSN,CWH43,CYP4F22,DIO2, DNAJB3,FAM81B,FOXL2,HMGB4,KRTAP15-1,KRTAP5-5,LOC286359, OR10G8,OR4P4,PNMT,SCARNA27,SLC18A3,TNFSF11,WNT4 |
APOL2,ARSF,BATF3,BIRC3,CDY2B,HLA-DMA,HLA-DRB6, HS3ST1,ODF3B,OR13C5,OR1A2,OR3A4P,RARRES3,SAA1, SAA2,SAA4,SEMG2,SYT12,TMCO5A,TYMP,VAMP5 | ADIPOQ,ARSF,CCDC144NL,CD36,CIDEA,DEFB132,FABP4, FAM169B,FAM65C,G0S2,HTR5A,KCNIP2,LIPE,LOC400043, PAQR7,PLIN1,SCD,SCPEP1,TIMP4,TMEM132C,TUSC5 |
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 ARSF |
There's no related Drug. |
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Cross referenced IDs for ARSF |
* 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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