TissGeneSummary for SMCP |
Gene summary |
Basic gene information | Gene symbol | SMCP |
Gene name | sperm mitochondria-associated cysteine-rich protein | |
Synonyms | HSMCSGEN1|MCS|MCSP | |
Cytomap | UCSC genome browser: 1q21.3 | |
Type of gene | protein-coding | |
RefGenes | NM_030663.2, | |
Description | mitochondrial capsule selenoproteinsperm mitochondrial-associated cysteine-rich protein | |
Modification date | 20141207 | |
dbXrefs | MIM : 601148 | |
HGNC : HGNC | ||
Ensembl : ENSG00000163206 | ||
HPRD : 03093 | ||
Vega : OTTHUMG00000012452 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SMCP | |
BioGPS: 4184 | ||
Pathway | NCI Pathway Interaction Database: SMCP | |
KEGG: SMCP | ||
REACTOME: SMCP | ||
Pathway Commons: SMCP | ||
Context | iHOP: SMCP | |
ligand binding site mutation search in PubMed: SMCP | ||
UCL Cancer Institute: SMCP | ||
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 SMCP | ||
Description by TissGene annotations |
* 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 SMCP |
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 |
LUSC | -0.943904161 | -2.139423769 | 1.195519608 | 9.21E-06 | 2.10E-05 |
HNSC | -0.95218656 | -2.001665629 | 1.04947907 | 0.0011 | 0.003661243 |
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TissGene-miRNA for SMCP |
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 SMCP |
TissGeneSNV for SMCP |
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.Q17X | SKCM | 1 |
p.P92L | UCEC | 1 |
p.C65Y | STAD | 1 |
p.Q22L | LIHC | 1 |
p.E88K | BRCA | 1 |
p.C2S | HNSC | 1 |
p.P92R | UCS | 1 |
p.Q17* | SKCM | 1 |
p.Q4L | STAD | 1 |
p.Q60H | SARC | 1 |
p.P52Q | LUAD | 1 |
p.P82L | STAD | 1 |
p.C42Y | CESC | 1 |
p.E75Q | BLCA | 1 |
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TissGeneCNV for SMCP |
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 SMCP |
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 | ChiTaRs | NA | DB043882 | SMCP-C9orf43 | chr1:152857043 | chr9:116173207 | |
Chimerdb3.0 | ChiTaRs | NA | AK058132 | SBNO2-SMCP | chr19:1108816 | chr1:152850797 | |
TCGAfusionPortal | PRADA | BRCA | TCGA-A7-A4SF-01A | BCL9-SMCP | 5UTR-5UTR | Chr1:147013444 | Chr1:152856879 |
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TissGeneNet for SMCP |
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 SMCP |
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 SMCP |
TissGeneDrug for SMCP |
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 SMCP |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0025202 | melanoma | 3 | BeFree |
umls:C0678222 | Breast Carcinoma | 2 | BeFree |
umls:C0699790 | Colon Carcinoma | 2 | BeFree |
umls:C0878544 | Cardiomyopathies | 2 | BeFree |
umls:C0023449 | Acute lymphocytic leukemia | 1 | BeFree |
umls:C0023976 | Long QT Syndrome | 1 | BeFree |
umls:C0027819 | Neuroblastoma | 1 | BeFree |
umls:C0029925 | Ovarian Carcinoma | 1 | BeFree |
umls:C0041234 | Chagas Disease | 1 | BeFree |
umls:C0410158 | Muscle damage | 1 | BeFree |
umls:C0410179 | Scleroatonic muscular dystrophy | 1 | BeFree |
umls:C0700095 | Central neuroblastoma | 1 | BeFree |
umls:C1140680 | Malignant neoplasm of ovary | 1 | BeFree |
umls:C1292769 | Precursor B-cell lymphoblastic leukemia | 1 | BeFree |
umls:C1631597 | VENTRICULAR TACHYCARDIA, CATECHOLAMINERGIC POLYMORPHIC, 1 (disorder) | 1 | BeFree |
umls:C1961102 | Precursor Cell Lymphoblastic Leukemia Lymphoma | 1 | BeFree |