TissGeneSummary for SCML2 |
Gene summary |
Basic gene information | Gene symbol | SCML2 |
Gene name | sex comb on midleg-like 2 (Drosophila) | |
Synonyms | - | |
Cytomap | UCSC genome browser: Xp22 | |
Type of gene | protein-coding | |
RefGenes | NM_006089.2, NR_033717.1, | |
Description | sex comb on midleg-like protein 2 | |
Modification date | 20141207 | |
dbXrefs | MIM : 300208 | |
HGNC : HGNC | ||
Ensembl : ENSG00000102098 | ||
HPRD : 02195 | ||
Vega : OTTHUMG00000021212 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SCML2 | |
BioGPS: 10389 | ||
Pathway | NCI Pathway Interaction Database: SCML2 | |
KEGG: SCML2 | ||
REACTOME: SCML2 | ||
Pathway Commons: SCML2 | ||
Context | iHOP: SCML2 | |
ligand binding site mutation search in PubMed: SCML2 | ||
UCL Cancer Institute: SCML2 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | 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 SCML2 | ||
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 SCML2 |
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 | -0.009406213 | -1.481235624 | 1.471829412 | 3.60E-07 | 9.47E-07 |
THCA | -0.853136588 | 0.72620748 | -1.579344068 | 5.01E-18 | 1.19E-16 |
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TissGene-miRNA for SCML2 |
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 |
LUAD | hsa-miR-29c-3p | MIMAT0000681 | 0.042 | -0.27 | 60 |
THYM | hsa-miR-519d-3p | MIMAT0002853 | 0.0024 | -0.28 | 122 |
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TissGeneMut for SCML2 |
TissGeneSNV for SCML2 |
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.D572N | SKCM | 2 |
p.G697E | SKCM | 2 |
p.R338C | STAD | 2 |
p.G348A | LUAD | 1 |
p.D214H | LUSC | 1 |
p.D207N | HNSC | 1 |
p.T148K | THYM | 1 |
p.R103S | LUAD | 1 |
p.V359I | LGG | 1 |
p.V577A | STAD | 1 |
p.D337N | BLCA | 1 |
p.H454Y | GBM | 1 |
p.M154I | SKCM | 1 |
p.C688F | LUSC | 1 |
p.D627A | SKCM | 1 |
p.P557S | SKCM | 1 |
p.S327Y | UCEC | 1 |
p.P628H | GBM | 1 |
p.R103I | COAD | 1 |
p.P617H | UCEC | 1 |
p.R307S | CESC | 1 |
p.T84M | UCEC | 1 |
p.Q279E | LIHC | 1 |
p.D32N | SKCM | 1 |
p.T4P | STAD | 1 |
p.E488Q | LUAD | 1 |
p.P373S | SKCM | 1 |
p.G649E | LUAD | 1 |
p.P683T | SARC | 1 |
p.A47D | UCEC | 1 |
p.P295A | LUSC | 1 |
p.P311S | SKCM | 1 |
p.A47S | LAML | 1 |
p.P257L | SKCM | 1 |
p.P306Q | HNSC | 1 |
p.T491S | BLCA | 1 |
p.L275S | HNSC | 1 |
p.Q54* | BLCA | 1 |
p.Y554X | ESCA | 1 |
p.D31H | KIRC | 1 |
p.G419E | COAD | 1 |
p.K161N | UCEC | 1 |
p.I86V | BRCA | 1 |
p.P165L | SKCM | 1 |
p.T326A | LUAD | 1 |
p.S333L | SKCM | 1 |
p.G579D | UCEC | 1 |
p.Q435H | LUAD | 1 |
p.Y554* | ESCA | 1 |
p.A529V | LGG | 1 |
p.G43W | ACC | 1 |
p.P295L | LUAD | 1 |
p.S426C | BLCA | 1 |
p.R575X | READ | 1 |
p.E538D | UCEC | 1 |
p.P438L | PRAD | 1 |
p.G90R | LUAD | 1 |
p.A260E | LUSC | 1 |
p.M143V | UCEC | 1 |
p.G133A | HNSC | 1 |
p.G348V | LUAD | 1 |
p.L462F | ESCA | 1 |
p.S632Y | UCS | 1 |
p.G552E | SKCM | 1 |
p.D111N | SKCM | 1 |
p.L585Q | LUAD | 1 |
p.K626N | UCEC | 1 |
p.T643I | COAD | 1 |
p.H454Y | LUAD | 1 |
p.S49* | BLCA | 1 |
p.L540F | SKCM | 1 |
p.R53G | SKCM | 1 |
p.K198R | SKCM | 1 |
p.H596L | LUAD | 1 |
p.V569F | UCEC | 1 |
p.K147N | UCEC | 1 |
p.L159I | SKCM | 1 |
p.P415A | LUAD | 1 |
p.G649D | LUAD | 1 |
p.S26F | SKCM | 1 |
p.P387T | UCEC | 1 |
p.R418C | SKCM | 1 |
p.S470F | SKCM | 1 |
p.D481H | STAD | 1 |
p.S255F | BLCA | 1 |
p.R498L | COAD | 1 |
p.S670I | LUAD | 1 |
p.K161N | BLCA | 1 |
p.K13X | READ | 1 |
p.H475Q | SKCM | 1 |
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TissGeneCNV for SCML2 |
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 SCML2 |
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 | AL833937 | SCML2-SCML2 | chrX:18275025 | chrX:18257437 | |
Chimerdb3.0 | FusionScan | BRCA | TCGA-AN-A0AM-01A | SCML2-MAP7D2 | In-Frame | chrX:18323091 | chrX:20082923 |
Chimerdb3.0 | TopHat-Fusion | KIRC | TCGA-CJ-4897-01A | TMSB10-SCML2 | CDS-5'UTR | chr2:85133209 | chrX:18359438 |
TCGAfusionPortal | PRADA | BRCA | TCGA-AN-A0AM-01A | SCML2-MAP7D2 | In-frame | ChrX:18323092 | ChrX:20082923 |
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TissGeneNet for SCML2 |
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 SCML2 |
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 SCML2 |
TissGeneDrug for SCML2 |
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 SCML2 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0025149 | Medulloblastoma | 1 | CTD_human |