TissGeneSummary for SPATA4 |
Gene summary |
Basic gene information | Gene symbol | SPATA4 |
Gene name | spermatogenesis associated 4 | |
Synonyms | SPEF1B|TSARG2 | |
Cytomap | UCSC genome browser: 4q34.2 | |
Type of gene | protein-coding | |
RefGenes | NM_144644.2, | |
Description | spermatogenesis-associated protein 4testis and spermatogenesis cell related protein 2testis and spermatogenesis cell-related protein 2testis spermatocyte apoptosis-related gene 2 protein | |
Modification date | 20141207 | |
dbXrefs | MIM : 609879 | |
HGNC : HGNC | ||
Ensembl : ENSG00000150628 | ||
HPRD : 15429 | ||
Vega : OTTHUMG00000160788 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SPATA4 | |
BioGPS: 132851 | ||
Pathway | NCI Pathway Interaction Database: SPATA4 | |
KEGG: SPATA4 | ||
REACTOME: SPATA4 | ||
Pathway Commons: SPATA4 | ||
Context | iHOP: SPATA4 | |
ligand binding site mutation search in PubMed: SPATA4 | ||
UCL Cancer Institute: SPATA4 | ||
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) | Testis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
Reference showing the relevant tissue of SPATA4 | ||
Description by TissGene annotations | Cancer gene |
* 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 SPATA4 |
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 |
KICH | -1.277092233 | 2.347035767 | -3.624128 | 3.03E-16 | 8.45E-15 |
LUAD | -0.630086853 | 1.280671767 | -1.910758621 | 1.63E-07 | 6.19E-07 |
THCA | 0.476749734 | 2.082080242 | -1.605330508 | 2.08E-15 | 2.83E-14 |
LUSC | -1.453028233 | 1.047087454 | -2.500115686 | 5.62E-12 | 2.41E-11 |
BLCA | -2.324154548 | -1.097865075 | -1.226289474 | 0.00145 | 0.009684084 |
STAD | -2.264734483 | -0.925671983 | -1.3390625 | 0.00019 | 0.001331184 |
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TissGene-miRNA for SPATA4 |
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 |
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TissGeneMut for SPATA4 |
TissGeneSNV for SPATA4 |
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.E280* | UCEC | 2 |
p.K121T | READ | 1 |
p.E142Q | LUSC | 1 |
p.G139E | SKCM | 1 |
p.D169N | SKCM | 1 |
p.Q13* | LUAD | 1 |
p.Q173H | LGG | 1 |
p.T133I | CHOL | 1 |
p.F164I | STAD | 1 |
p.E147Q | LUAD | 1 |
p.T242N | ESCA | 1 |
p.S52C | LUSC | 1 |
p.S22A | LIHC | 1 |
p.L59I | LUSC | 1 |
p.G34W | STAD | 1 |
p.E83Q | LUSC | 1 |
p.K226R | LUSC | 1 |
p.R120I | BLCA | 1 |
p.D19H | BRCA | 1 |
p.L194S | UCEC | 1 |
p.S195A | LIHC | 1 |
p.A77V | SKCM | 1 |
p.F123I | BLCA | 1 |
p.R263I | UCEC | 1 |
p.R48K | SKCM | 1 |
p.C86F | LUAD | 1 |
p.S76L | SKCM | 1 |
p.A210V | CESC | 1 |
p.L257F | STAD | 1 |
p.L152F | UCEC | 1 |
p.P22L | THYM | 1 |
p.A112V | LGG | 1 |
p.S54Y | BLCA | 1 |
p.M203T | LUSC | 1 |
p.P141L | READ | 1 |
p.R193M | UCEC | 1 |
p.S195L | BRCA | 1 |
p.G78S | KIRC | 1 |
p.V11F | HNSC | 1 |
p.G9W | STAD | 1 |
p.R155P | CESC | 1 |
p.K303N | READ | 1 |
p.D17Y | UCS | 1 |
p.A37V | CESC | 1 |
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TissGeneCNV for SPATA4 |
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 SPATA4 |
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 |
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TissGeneNet for SPATA4 |
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 SPATA4 |
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 SPATA4 |
TissGeneDrug for SPATA4 |
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 SPATA4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |