 |
| |
| |
| |
| |
| |
| |
|
| TissGeneSummary for TIMD4 |
 Gene summary |
| Basic gene information | Gene symbol | TIMD4 |
| Gene name | T-cell immunoglobulin and mucin domain containing 4 | |
| Synonyms | SMUCKLER|TIM4 | |
| Cytomap | UCSC genome browser: 5q33.3 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001146726.1, NM_138379.2, | |
| Description | T-cell immunoglobulin and mucin domain-containing protein 4T-cell immunoglobulin mucin receptor 4T-cell membrane protein 4TIM-4TIMD-4 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 610096 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000145850 | ||
| HPRD : 15508 | ||
| Vega : OTTHUMG00000130244 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_TIMD4 | |
| BioGPS: 91937 | ||
| Pathway | NCI Pathway Interaction Database: TIMD4 | |
| KEGG: TIMD4 | ||
| REACTOME: TIMD4 | ||
| Pathway Commons: TIMD4 | ||
| Context | iHOP: TIMD4 | |
| ligand binding site mutation search in PubMed: TIMD4 | ||
| UCL Cancer Institute: TIMD4 | ||
| 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 TIMD4 | ||
| 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 |
| Top |
| TissGeneExp for TIMD4 |
| 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 | 2.382028998 | 1.279956775 | 1.102072222 | 2.20E-06 | 5.47E-06 |
| KICH | 4.660905164 | 1.255913164 | 3.404992 | 7.16E-06 | 2.33E-05 |
| LIHC | -1.346944836 | 3.077969164 | -4.424914 | 3.53E-19 | 2.01E-17 |
| KIRP | 2.508039414 | 1.164130039 | 1.343909375 | 0.000519 | 0.001519057 |
| COAD | -1.860055297 | -0.285497605 | -1.574557692 | 0.000485 | 0.001500897 |
| LUSC | -1.678835463 | -0.094984483 | -1.58385098 | 5.46E-05 | 0.000116109 |
| Top |
| TissGene-miRNA for TIMD4 |
| 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 |
| Top |
| TissGeneMut for TIMD4 |
| TissGeneSNV for TIMD4 |
| 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.S44F | SKCM | 3 |
| p.D122N | SKCM | 2 |
| p.G73R | SKCM | 2 |
| p.G368R | SKCM | 2 |
| p.R147H | UCEC | 2 |
| p.A67V | UCEC | 1 |
| p.A245T | COAD | 1 |
| p.R128H | COAD | 1 |
| p.S264P | STAD | 1 |
| p.L260H | LIHC | 1 |
| p.D357N | BLCA | 1 |
| p.V36M | BRCA | 1 |
| p.A67V | COAD | 1 |
| p.T29M | COAD | 1 |
| p.P5T | LUSC | 1 |
| p.A333V | COAD | 1 |
| p.P164S | SKCM | 1 |
| p.L340H | COAD | 1 |
| p.W237* | LUAD | 1 |
| p.L19Q | LUAD | 1 |
| p.A320V | SKCM | 1 |
| p.S78L | SKCM | 1 |
| p.Q184* | SKCM | 1 |
| p.T201A | SKCM | 1 |
| p.S51N | SKCM | 1 |
| p.T137N | LUAD | 1 |
| p.W54R | HNSC | 1 |
| p.E4D | COAD | 1 |
| p.M310L | LGG | 1 |
| p.D57N | SKCM | 1 |
| p.T29M | HNSC | 1 |
| p.E208K | SKCM | 1 |
| p.Q298K | LUAD | 1 |
| p.P39H | THYM | 1 |
| p.R79I | BLCA | 1 |
| p.R140K | SKCM | 1 |
| p.R128H | ESCA | 1 |
| p.N101T | PAAD | 1 |
| p.L8H | SKCM | 1 |
| p.P206Q | LUAD | 1 |
| p.P303H | LIHC | 1 |
| p.D57N | BLCA | 1 |
| p.Q290K | LUAD | 1 |
| p.T77I | SKCM | 1 |
| p.A226S | PRAD | 1 |
| p.L232F | SKCM | 1 |
| p.T210I | LUSC | 1 |
| p.V172L | LUAD | 1 |
| p.D235N | SKCM | 1 |
| p.W269* | SKCM | 1 |
| p.P164L | LUAD | 1 |
| p.V266M | BLCA | 1 |
| p.Q184X | SKCM | 1 |
| p.T71N | LUAD | 1 |
| p.P202S | LGG | 1 |
| p.L249R | LUAD | 1 |
| p.E115* | UCEC | 1 |
| p.S283C | BLCA | 1 |
| p.D284N | LUAD | 1 |
| p.P175L | SKCM | 1 |
| p.R92I | READ | 1 |
| p.G221E | SKCM | 1 |
| p.G301R | LUAD | 1 |
| p.P60H | STAD | 1 |
| p.L8I | LUAD | 1 |
| p.M306I | HNSC | 1 |
| p.V31F | LUAD | 1 |
| p.L335F | SKCM | 1 |
| p.R128C | STAD | 1 |
| p.P206A | COAD | 1 |
| p.E229K | SKCM | 1 |
| p.F325C | UCEC | 1 |
| p.D364H | LUSC | 1 |
| p.L327I | LUAD | 1 |
| p.G301V | LUAD | 1 |
| p.R70H | GBM | 1 |
| p.P168S | SKCM | 1 |
| p.H349Q | THYM | 1 |
| p.A282S | LUAD | 1 |
| p.P288S | SKCM | 1 |
| p.R133G | HNSC | 1 |
| p.L183I | UCEC | 1 |
| p.S346L | SKCM | 1 |
| p.G211V | LUAD | 1 |
| p.S228L | HNSC | 1 |
| p.Q279* | BLCA | 1 |
| p.L205I | LIHC | 1 |
| p.S2C | LUSC | 1 |
| p.H34Y | LUSC | 1 |
| p.D94Y | LUAD | 1 |
| p.Q290X | LIHC | 1 |
| p.G338E | SKCM | 1 |
| p.W269X | SKCM | 1 |
| p.E13A | ESCA | 1 |
| p.S203N | LUSC | 1 |
| Top |
| TissGeneCNV for TIMD4 |
| 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) |
 |
| Top |
| TissGeneFusions for TIMD4 |
| 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 |
| Top |
| TissGeneNet for TIMD4 |
| 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) |
| Top |
| TissGeneProg for TIMD4 |
| 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. |
 |
| Top |
| TissGeneClin for TIMD4 |
| TissGeneDrug for TIMD4 |
| Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
| DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| Top |
| TissGeneDisease for TIMD4 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0004096 | Asthma | 4 | BeFree,GAD,LHGDN |
| umls:C0003873 | Rheumatoid Arthritis | 3 | BeFree |
| umls:C0004364 | Autoimmune Diseases | 2 | BeFree |
| umls:C0024141 | Lupus Erythematosus, Systemic | 2 | BeFree |
| umls:C0242339 | Dyslipidemias | 2 | BeFree,GAD |
| umls:C2607914 | Allergic rhinitis (disorder) | 2 | BeFree |
| umls:C3539909 | Allergic disposition | 2 | BeFree |
| umls:C0024534 | Malaria, Cerebral | 1 | GAD |
| umls:C0029927 | Ovarian Cysts | 1 | CTD_human |
| umls:C0477474 | Dermatitis and eczema | 1 | GAD |
Copyright 2016-Present - The University of Texas Health Science Center at Houston (UTHealth) Web File Viewing | How to Report, Fraud, Waste and Abuse | State of Texas | Statewide Search | Texas Homeland Security | Site Policies |