TissGeneSummary for SLITRK1 |
Gene summary |
Basic gene information | Gene symbol | SLITRK1 |
Gene name | SLIT and NTRK-like family, member 1 | |
Synonyms | LRRC12|TTM | |
Cytomap | UCSC genome browser: 13q31.1 | |
Type of gene | protein-coding | |
RefGenes | NM_001281503.1, NM_052910.2, | |
Description | SLIT and NTRK-like protein 1leucine-rich repeat-containing protein 12slit and trk like gene 1 | |
Modification date | 20141219 | |
dbXrefs | MIM : 609678 | |
HGNC : HGNC | ||
Ensembl : ENSG00000178235 | ||
HPRD : 18063 | ||
Vega : OTTHUMG00000017149 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SLITRK1 | |
BioGPS: 114798 | ||
Pathway | NCI Pathway Interaction Database: SLITRK1 | |
KEGG: SLITRK1 | ||
REACTOME: SLITRK1 | ||
Pathway Commons: SLITRK1 | ||
Context | iHOP: SLITRK1 | |
ligand binding site mutation search in PubMed: SLITRK1 | ||
UCL Cancer Institute: SLITRK1 | ||
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 SLITRK1 | ||
Description by TissGene annotations | Protective TissGene in OS TissgsKTS CNV lost TissGeneKTS |
* 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 SLITRK1 |
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 | -0.921980833 | 0.101149723 | -1.023130556 | 1.67E-13 | 7.61E-13 |
STAD | -0.520487777 | 0.630018473 | -1.15050625 | 0.000902 | 0.004888188 |
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TissGene-miRNA for SLITRK1 |
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 SLITRK1 |
TissGeneSNV for SLITRK1 |
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.R391Q | SKCM | 4 |
p.E257K | SKCM | 3 |
p.S58F | SKCM | 3 |
p.S663F | SKCM | 2 |
p.E550K | SKCM | 2 |
p.R646Q | STAD | 2 |
p.K356T | STAD | 2 |
p.T560M | UCEC | 2 |
p.K27N | UCEC | 2 |
p.K420N | UCEC | 2 |
p.D219N | SKCM | 2 |
p.R122Q | SKCM | 2 |
p.D138N | SKCM | 2 |
p.Y687C | SKCM | 1 |
p.G352E | SKCM | 1 |
p.F467S | CESC | 1 |
p.S586L | SKCM | 1 |
p.D431Y | SKCM | 1 |
p.R266* | STAD | 1 |
p.A304D | COAD | 1 |
p.D297N | SKCM | 1 |
p.A492T | BLCA | 1 |
p.L581M | LUAD | 1 |
p.N408S | SKCM | 1 |
p.P231H | LUAD | 1 |
p.S303Y | LUSC | 1 |
p.R238X | STAD | 1 |
p.V396E | HNSC | 1 |
p.H181Y | BLCA | 1 |
p.T10K | LUAD | 1 |
p.C29S | LUAD | 1 |
p.G603W | LUAD | 1 |
p.E660K | BRCA | 1 |
p.R110M | STAD | 1 |
p.H298Y | SKCM | 1 |
p.E660K | SKCM | 1 |
p.A632T | STAD | 1 |
p.V538L | UCEC | 1 |
p.L367V | COAD | 1 |
p.R391* | SKCM | 1 |
p.P289T | LUAD | 1 |
p.G46C | LUAD | 1 |
p.R391X | SKCM | 1 |
p.L165R | STAD | 1 |
p.H349Y | UCEC | 1 |
p.H88N | LUAD | 1 |
p.E206K | LUAD | 1 |
p.N385T | ESCA | 1 |
p.N140D | OV | 1 |
p.G493A | STAD | 1 |
p.L526I | LUAD | 1 |
p.G344D | STAD | 1 |
p.G548V | LUSC | 1 |
p.S365N | COAD | 1 |
p.R238X | PRAD | 1 |
p.P147T | LUAD | 1 |
p.R238* | PRAD | 1 |
p.A368V | SKCM | 1 |
p.T560M | CESC | 1 |
p.E296D | OV | 1 |
p.M430I | SKCM | 1 |
p.H181R | HNSC | 1 |
p.S596C | LIHC | 1 |
p.D41N | SKCM | 1 |
p.K650Q | KIRP | 1 |
p.P272L | UCEC | 1 |
p.G100R | SKCM | 1 |
p.A658E | HNSC | 1 |
p.P75A | LUAD | 1 |
p.S596I | UCEC | 1 |
p.K232R | ESCA | 1 |
p.S606F | LUAD | 1 |
p.N83K | HNSC | 1 |
p.G307V | PRAD | 1 |
p.Q277K | LUAD | 1 |
p.G623* | HNSC | 1 |
p.S432R | LUAD | 1 |
p.T560M | ESCA | 1 |
p.F419V | SKCM | 1 |
p.A205V | HNSC | 1 |
p.A55S | LUAD | 1 |
p.R652* | HNSC | 1 |
p.P351T | STAD | 1 |
p.Q124K | LUAD | 1 |
p.K310Q | UCEC | 1 |
p.E254K | SKCM | 1 |
p.P289I | LUAD | 1 |
p.L65M | UCEC | 1 |
p.K399T | ESCA | 1 |
p.K25N | ESCA | 1 |
p.K27T | STAD | 1 |
p.A276S | THCA | 1 |
p.S693P | STAD | 1 |
p.D431N | SKCM | 1 |
p.R440W | DLBC | 1 |
p.V158L | LUAD | 1 |
p.L461V | LUAD | 1 |
p.S303Y | LUAD | 1 |
p.S86T | PRAD | 1 |
p.A234T | STAD | 1 |
p.V615M | SKCM | 1 |
p.D211Y | READ | 1 |
p.T437K | COAD | 1 |
p.G528R | SKCM | 1 |
p.T191K | CESC | 1 |
p.E550K | STAD | 1 |
p.A654V | STAD | 1 |
p.K647N | LUSC | 1 |
p.T245N | THYM | 1 |
p.L367V | STAD | 1 |
p.D144G | UCEC | 1 |
p.R646Q | SKCM | 1 |
p.E559K | BLCA | 1 |
p.P289L | LUAD | 1 |
p.Q523K | LIHC | 1 |
p.L438V | BLCA | 1 |
p.D268V | LUAD | 1 |
p.F564V | STAD | 1 |
p.C216Y | STAD | 1 |
p.C341S | STAD | 1 |
p.P289L | SKCM | 1 |
p.P579T | LUAD | 1 |
p.E96D | STAD | 1 |
p.E576* | LUAD | 1 |
p.I236V | LUAD | 1 |
p.G513R | LUAD | 1 |
p.R110G | MESO | 1 |
p.E210Q | HNSC | 1 |
p.V239L | HNSC | 1 |
p.W673L | LUAD | 1 |
p.E576D | STAD | 1 |
p.R391Q | BLCA | 1 |
p.E242K | BRCA | 1 |
p.D251V | LUAD | 1 |
p.D669G | UCEC | 1 |
p.A444V | STAD | 1 |
p.R646* | HNSC | 1 |
p.C533* | BLCA | 1 |
p.L476I | STAD | 1 |
p.P289T | UCS | 1 |
p.S86G | LUAD | 1 |
p.D653N | UCEC | 1 |
p.E133K | SKCM | 1 |
p.E601K | SKCM | 1 |
p.T418S | DLBC | 1 |
p.H527Y | KIRC | 1 |
p.E242K | COAD | 1 |
p.W673R | LUAD | 1 |
p.A84V | UCEC | 1 |
p.G328C | STAD | 1 |
p.P334L | SKCM | 1 |
p.Q151H | READ | 1 |
p.G186R | LUSC | 1 |
p.K45R | ESCA | 1 |
p.D424N | LUAD | 1 |
p.D525H | BLCA | 1 |
p.S659Y | LUAD | 1 |
p.G100R | STAD | 1 |
p.S573Y | LUAD | 1 |
p.P283H | UCEC | 1 |
p.S11F | SKCM | 1 |
p.G548C | LUSC | 1 |
p.P272S | SKCM | 1 |
p.R566K | BLCA | 1 |
p.T437M | CHOL | 1 |
p.I402L | STAD | 1 |
p.A492P | ESCA | 1 |
p.S554R | LIHC | 1 |
p.P510T | STAD | 1 |
p.L165I | UCEC | 1 |
p.L184F | SKCM | 1 |
p.R266X | STAD | 1 |
p.P231Q | LUAD | 1 |
p.N212T | PAAD | 1 |
p.G528R | UCEC | 1 |
p.R72Q | UCEC | 1 |
p.V177M | SKCM | 1 |
p.P202S | SKCM | 1 |
p.Q517K | LAML | 1 |
p.H66N | LUAD | 1 |
p.G528E | UCS | 1 |
p.R383G | BRCA | 1 |
p.N115K | COAD | 1 |
p.P275R | LUSC | 1 |
p.G100E | PCPG | 1 |
p.V197G | STAD | 1 |
p.A326V | UCEC | 1 |
p.P202H | LUAD | 1 |
p.P99L | UCEC | 1 |
p.K392T | READ | 1 |
p.D348Y | LUAD | 1 |
p.S695L | SKCM | 1 |
p.L694H | STAD | 1 |
p.P262L | KIRC | 1 |
p.R320K | SKCM | 1 |
p.T288N | LUAD | 1 |
p.P334S | SKCM | 1 |
p.L620F | LUAD | 1 |
p.R238* | UCEC | 1 |
p.V85A | LUAD | 1 |
p.G249S | LUAD | 1 |
p.S393L | READ | 1 |
p.E77D | STAD | 1 |
p.D384N | SKCM | 1 |
p.D183E | LUAD | 1 |
p.S500N | SKCM | 1 |
p.S693L | SKCM | 1 |
p.G128W | LUAD | 1 |
p.P312L | SKCM | 1 |
p.G203V | LUAD | 1 |
p.S671F | SKCM | 1 |
p.Q580* | LUAD | 1 |
p.R652Q | SKCM | 1 |
p.L184V | GBM | 1 |
p.E26D | HNSC | 1 |
p.P342S | SKCM | 1 |
p.L142S | KIRP | 1 |
p.F419L | CESC | 1 |
p.S338T | LUAD | 1 |
p.P75S | ESCA | 1 |
p.A583S | LUAD | 1 |
p.G352E | LUAD | 1 |
p.S338N | READ | 1 |
p.C578F | ESCA | 1 |
p.A326E | ESCA | 1 |
p.S613I | LUAD | 1 |
p.D669E | PRAD | 1 |
p.V640M | PAAD | 1 |
p.A234S | ACC | 1 |
p.A583V | KIRP | 1 |
p.M470I | SARC | 1 |
p.P340H | PRAD | 1 |
p.A79T | STAD | 1 |
p.E90K | COAD | 1 |
p.L129Q | LUAD | 1 |
p.M470K | LUAD | 1 |
p.E242K | STAD | 1 |
p.D152Y | LUAD | 1 |
p.V414A | SKCM | 1 |
p.L221V | LUAD | 1 |
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TissGeneCNV for SLITRK1 |
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 SLITRK1 |
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 SLITRK1 |
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 SLITRK1 |
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 SLITRK1 |
TissGeneDrug for SLITRK1 |
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 SLITRK1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0040517 | Gilles de la Tourette syndrome | 19 | BeFree,CLINVAR,CTD_human,GAD,LHGDN,MGD |
umls:C0028768 | Obsessive-Compulsive Disorder | 4 | BeFree |
umls:C0029421 | Osteochondritis Dissecans | 2 | BeFree |
umls:C0004936 | Mental disorders | 1 | BeFree |
umls:C0040953 | Trichotillomania | 1 | BeFree,CLINVAR,CTD_human |
umls:C1263846 | Attention deficit hyperactivity disorder | 1 | BeFree |
umls:C1834570 | Myoclonic dystonia | 1 | BeFree |