TissGeneSummary for GTSF1 |
Gene summary |
Basic gene information | Gene symbol | GTSF1 |
Gene name | gametocyte specific factor 1 | |
Synonyms | FAM112B | |
Cytomap | UCSC genome browser: 12q13.13 | |
Type of gene | protein-coding | |
RefGenes | NM_144594.2, | |
Description | family with sequence similarity 112, member Bgametocyte-specific factor 1 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000170627 | ||
HPRD : 08150 | ||
Vega : OTTHUMG00000169842 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GTSF1 | |
BioGPS: 121355 | ||
Pathway | NCI Pathway Interaction Database: GTSF1 | |
KEGG: GTSF1 | ||
REACTOME: GTSF1 | ||
Pathway Commons: GTSF1 | ||
Context | iHOP: GTSF1 | |
ligand binding site mutation search in PubMed: GTSF1 | ||
UCL Cancer Institute: GTSF1 | ||
Assigned class in TissGDB* | B | |
Included tissue-specific gene expression resources | HPA,TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Bone marrowTestis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | LAMLTGCT | |
Reference showing the relevant tissue of GTSF1 | ||
Description by TissGene annotations | Have significant anti-correlated miRNA Fused withTSGene |
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
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TissGeneExp for GTSF1 |
Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
HNSC | 0.621103693 | -1.724719563 | 2.345823256 | 1.66E-05 | 8.96E-05 |
KIRC | -1.528637166 | -2.840688555 | 1.312051389 | 2.14E-07 | 5.80E-07 |
LIHC | -0.444331888 | -2.434641888 | 1.99031 | 0.000458 | 0.001345526 |
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TissGene-miRNA for GTSF1 |
Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
UCS | hsa-miR-223-3p | MIMAT0000280 | 0.013 | -0.33 | 56 |
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TissGeneMut for GTSF1 |
TissGeneSNV for GTSF1 |
nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.P31S | SKCM | 2 |
p.A49T | BRCA | 1 |
p.A133V | UCEC | 1 |
p.R86S | COAD | 1 |
p.Y5H | SKCM | 1 |
p.D7N | PAAD | 1 |
p.D108N | SKCM | 1 |
p.F53L | READ | 1 |
p.W112* | SKCM | 1 |
p.A55D | UCEC | 1 |
p.S134G | BLCA | 1 |
p.D108E | CESC | 1 |
p.P52L | HNSC | 1 |
p.P102S | SKCM | 1 |
p.R149* | UCEC | 1 |
p.P42H | ACC | 1 |
p.L34I | LGG | 1 |
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TissGeneCNV for GTSF1 |
Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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TissGeneFusions for GTSF1 |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChimerDB 2.0 | NA | NA | ARL2-GTSF1 | chr11:64542710 | chr12:53142225 | |
Chimerdb3.0 | ChiTaRs | NA | BU620280 | GTSF1-TGOLN2 | chr12:54856468 | chr2:85549255 | |
TCGAfusionPortal | PRADA | LUSC | TCGA-39-5035-01A | ITGA5-GTSF1 | Out-of-frame | Chr12:54795157 | Chr12:54858951 |
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TissGeneNet for GTSF1 |
Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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TissGeneProg for GTSF1 |
Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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TissGeneClin for GTSF1 |
TissGeneDrug for GTSF1 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for GTSF1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0026948 | Mycosis Fungoides | 1 | BeFree |
umls:C0079773 | Lymphoma, T-Cell, Cutaneous | 1 | BeFree |