TissGeneSummary for LDHC |
Gene summary |
Basic gene information | Gene symbol | LDHC |
Gene name | lactate dehydrogenase C | |
Synonyms | CT32|LDH3|LDHX | |
Cytomap | UCSC genome browser: 11p15.1 | |
Type of gene | protein-coding | |
RefGenes | NM_002301.4, NM_017448.3, | |
Description | L-lactate dehydrogenase C chainLDH testis subunitLDH-CLDH-Xcancer/testis antigen 32lactate dehydrogenase C4lactate dehydrogenase c variant 1lactate dehydrogenase c variant 3lactate dehydrogenase c variant 4 | |
Modification date | 20141207 | |
dbXrefs | MIM : 150150 | |
HGNC : HGNC | ||
Ensembl : ENSG00000166796 | ||
HPRD : 01027 | ||
Vega : OTTHUMG00000167722 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LDHC | |
BioGPS: 3948 | ||
Pathway | NCI Pathway Interaction Database: LDHC | |
KEGG: LDHC | ||
REACTOME: LDHC | ||
Pathway Commons: LDHC | ||
Context | iHOP: LDHC | |
ligand binding site mutation search in PubMed: LDHC | ||
UCL Cancer Institute: LDHC | ||
Assigned class in TissGDB* | A | |
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 LDHC | LDHC: the ultimate testis-specific gene. Goldberg E, Eddy EM, Duan C, Odet F. J Androl. 2010 Jan-Feb;31(1):86-94. doi: 10.2164/jandrol.109.008367. Epub 2009 Oct 29. Review. (pmid:19875487) go to article | |
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 LDHC |
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 |
KIRC | -1.121501758 | 0.426280186 | -1.547781944 | 2.54E-07 | 6.85E-07 |
KIRP | -2.326294814 | 0.205108311 | -2.531403125 | 2.73E-10 | 2.89E-09 |
KICH | -1.714084314 | -0.111072314 | -1.603012 | 0.000151 | 0.00037948 |
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TissGene-miRNA for LDHC |
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 LDHC |
TissGeneSNV for LDHC |
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.R157C | SKCM | 2 |
p.P292S | SKCM | 1 |
p.L330V | BLCA | 1 |
p.D52N | UCEC | 1 |
p.W227* | SKCM | 1 |
p.T220M | PRAD | 1 |
p.N88S | SKCM | 1 |
p.V304L | SARC | 1 |
p.N18K | LUAD | 1 |
p.E6Q | BRCA | 1 |
p.A108D | COAD | 1 |
p.P122S | SKCM | 1 |
p.S310F | SKCM | 1 |
p.K265I | SKCM | 1 |
p.F71L | READ | 1 |
p.R157C | HNSC | 1 |
p.P129T | HNSC | 1 |
p.S119L | CESC | 1 |
p.L143F | LUAD | 1 |
p.Y247H | CESC | 1 |
p.A168G | COAD | 1 |
p.K76N | STAD | 1 |
p.S319I | HNSC | 1 |
p.G152S | LGG | 1 |
p.S249F | LUSC | 1 |
p.P129N | HNSC | 1 |
p.W227L | LUAD | 1 |
p.R297Q | BLCA | 1 |
p.S119L | SKCM | 1 |
p.R90K | BLCA | 1 |
p.R106C | SKCM | 1 |
p.E192K | BRCA | 1 |
p.E10D | BLCA | 1 |
p.P129H | HNSC | 1 |
p.S151G | LUSC | 1 |
p.D16N | CESC | 1 |
p.L289I | UCEC | 1 |
p.H271R | LIHC | 1 |
p.D43V | LUAD | 1 |
p.K217E | UCEC | 1 |
p.K177R | SKCM | 1 |
p.S2L | UCEC | 1 |
p.L65R | LUAD | 1 |
p.R171H | LUSC | 1 |
p.R269K | COAD | 1 |
p.R112C | LUAD | 1 |
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TissGeneCNV for LDHC |
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 LDHC |
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 LDHC |
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 LDHC |
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 LDHC |
TissGeneDrug for LDHC |
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 LDHC |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0021364 | Male infertility | 2 | CTD_human |
umls:C0007131 | Non-Small Cell Lung Carcinoma | 1 | BeFree |
umls:C0024115 | Lung diseases | 1 | CTD_human |
umls:C0028960 | Oligospermia | 1 | BeFree |
umls:C0040028 | Thrombocythemia, Essential | 1 | LHGDN |
umls:C0041296 | Tuberculosis | 1 | LHGDN |
umls:C0596263 | Carcinogenesis | 1 | BeFree |