TissGeneSummary for STMN4 |
Gene summary |
Basic gene information | Gene symbol | STMN4 |
Gene name | stathmin-like 4 | |
Synonyms | RB3 | |
Cytomap | UCSC genome browser: 8p21.2 | |
Type of gene | protein-coding | |
RefGenes | NM_001283053.1, NM_001283054.1,NM_001283055.1,NM_030795.3, | |
Description | stathmin-4stathmin-like protein B3stathmin-like-protein RB3 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000015592 | ||
HPRD : 18120 | ||
Vega : OTTHUMG00000099461 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_STMN4 | |
BioGPS: 81551 | ||
Pathway | NCI Pathway Interaction Database: STMN4 | |
KEGG: STMN4 | ||
REACTOME: STMN4 | ||
Pathway Commons: STMN4 | ||
Context | iHOP: STMN4 | |
ligand binding site mutation search in PubMed: STMN4 | ||
UCL Cancer Institute: STMN4 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,TiGER | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Brain | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGG | |
Reference showing the relevant tissue of STMN4 | ||
Description by TissGene annotations | Fused withOncogene 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 STMN4 |
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 |
COAD | -1.580831903 | 1.637868097 | -3.2187 | 1.35E-12 | 3.44E-11 |
STAD | -1.706805701 | -0.132580701 | -1.574225 | 0.000575 | 0.003400063 |
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TissGene-miRNA for STMN4 |
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-532-3p | MIMAT0004780 | 0.047 | -0.27 | 56 |
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TissGeneMut for STMN4 |
TissGeneSNV for STMN4 |
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.R51L | UCEC | 1 |
p.S90F | SKCM | 1 |
p.G200E | SKCM | 1 |
p.L139P | STAD | 1 |
p.R193Q | ESCA | 1 |
p.S178C | CESC | 1 |
p.M10T | UCS | 1 |
p.P14L | SKCM | 1 |
p.P14L | BLCA | 1 |
p.E160K | SKCM | 1 |
p.V73F | LUAD | 1 |
p.A214D | LIHC | 1 |
p.A161D | STAD | 1 |
p.R113W | BRCA | 1 |
p.E138K | UCEC | 1 |
p.D76Y | SKCM | 1 |
p.D26N | CESC | 1 |
p.E170K | SKCM | 1 |
p.V79I | STAD | 1 |
p.E181K | BLCA | 1 |
p.E8V | SKCM | 1 |
p.R166W | STAD | 1 |
p.M167I | KIRC | 1 |
p.A137V | STAD | 1 |
p.R131Q | SKCM | 1 |
p.Q63* | BRCA | 1 |
p.V103I | SKCM | 1 |
p.S99F | SKCM | 1 |
p.L112P | STAD | 1 |
p.E81K | COAD | 1 |
p.A110V | STAD | 1 |
p.Y33H | UCEC | 1 |
p.E59X | READ | 1 |
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TissGeneCNV for STMN4 |
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 STMN4 |
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 | TopHat-Fusion | BRCA | TCGA-BH-A18V-06A | STMN4-RUNX1 | 5'UTR-CDS | chr8:27101317 | chr21:36209242 |
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TissGeneNet for STMN4 |
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 STMN4 |
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 STMN4 |
TissGeneDrug for STMN4 |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
DB01206 | Lomustine | Antagonist | Small molecule | Approved |
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TissGeneDisease for STMN4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0027819 | Neuroblastoma | 1 | BeFree |
umls:C0700095 | Central neuroblastoma | 1 | BeFree |