TissGeneSummary for SLIT1 |
Gene summary |
Basic gene information | Gene symbol | SLIT1 |
Gene name | slit homolog 1 (Drosophila) | |
Synonyms | MEGF4|SLIL1|SLIT-1|SLIT3 | |
Cytomap | UCSC genome browser: 10q23.3-q24 | |
Type of gene | protein-coding | |
RefGenes | NM_003061.2, | |
Description | multiple EGF-like domains protein 4multiple epidermal growth factor-like domains protein 4slit homolog 1 protein | |
Modification date | 20141207 | |
dbXrefs | MIM : 603742 | |
HGNC : HGNC | ||
Ensembl : ENSG00000187122 | ||
HPRD : 04773 | ||
Vega : OTTHUMG00000018843 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SLIT1 | |
BioGPS: 6585 | ||
Pathway | NCI Pathway Interaction Database: SLIT1 | |
KEGG: SLIT1 | ||
REACTOME: SLIT1 | ||
Pathway Commons: SLIT1 | ||
Context | iHOP: SLIT1 | |
ligand binding site mutation search in PubMed: SLIT1 | ||
UCL Cancer Institute: SLIT1 | ||
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 SLIT1 | ||
Description by TissGene annotations | Protective TissGene in RFS Fused withOncogene Fused withTSGene |
* 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 | GO:0007411 | axon guidance | 11748139 | GO:0021834 | chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration | 11748139 | GO:0048846 | axon extension involved in axon guidance | 16840550 | GO:0050919 | negative chemotaxis | 11748139 | GO:0007411 | axon guidance | 11748139 | GO:0021834 | chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration | 11748139 | GO:0048846 | axon extension involved in axon guidance | 16840550 | GO:0050919 | negative chemotaxis | 11748139 |
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TissGeneExp for SLIT1 |
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 |
THCA | 3.729448134 | -1.626865426 | 5.356313559 | 1.30E-22 | 8.47E-21 |
PRAD | 2.737078642 | -0.579721358 | 3.3168 | 1.31E-18 | 4.89E-16 |
STAD | -2.524046358 | -1.474646358 | -1.0494 | 0.00214 | 0.009606507 |
KIRP | -2.205952608 | -3.256777608 | 1.050825 | 0.00135 | 0.003586137 |
COAD | -2.348559819 | -1.237521358 | -1.111038462 | 0.000937 | 0.002701272 |
LUSC | -1.838915475 | -0.706848809 | -1.132066667 | 7.82E-05 | 0.000164125 |
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TissGene-miRNA for SLIT1 |
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-340-5p | MIMAT0004692 | 0.028 | -0.29 | 60 |
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TissGeneMut for SLIT1 |
TissGeneSNV for SLIT1 |
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.R1460L | LUAD | 2 |
p.V1258M | SKCM | 2 |
p.G850D | SKCM | 2 |
p.G683V | BLCA | 1 |
p.R1481C | COAD | 1 |
p.R88W | LIHC | 1 |
p.E1282K | COAD | 1 |
p.R1481H | COAD | 1 |
p.Y381C | THCA | 1 |
p.A1440V | LGG | 1 |
p.V1470A | UCS | 1 |
p.R374H | UCEC | 1 |
p.V1292M | PRAD | 1 |
p.R1439H | PRAD | 1 |
p.C1497Y | STAD | 1 |
p.A1058V | READ | 1 |
p.R1300H | BLCA | 1 |
p.G478E | SKCM | 1 |
p.V511M | LUAD | 1 |
p.L920M | ESCA | 1 |
p.R537H | COAD | 1 |
p.G1139V | COAD | 1 |
p.R15W | COAD | 1 |
p.D1514Y | LUAD | 1 |
p.Q1137H | LIHC | 1 |
p.H941D | PCPG | 1 |
p.F441Y | SKCM | 1 |
p.D294G | ESCA | 1 |
p.L1279I | COAD | 1 |
p.N1169K | COAD | 1 |
p.E1119D | LGG | 1 |
p.P933Q | LUAD | 1 |
p.N79S | LGG | 1 |
p.N474K | LUAD | 1 |
p.G1095R | SKCM | 1 |
p.S1233F | SKCM | 1 |
p.L920M | LUAD | 1 |
p.Q163E | OV | 1 |
p.N936S | LUSC | 1 |
p.A1234T | LGG | 1 |
p.P1073T | LUAD | 1 |
p.L1285R | SKCM | 1 |
p.G1416R | PAAD | 1 |
p.N161H | UCS | 1 |
p.R605Q | SKCM | 1 |
p.E101K | SKCM | 1 |
p.F329I | LUAD | 1 |
p.S1281N | SKCM | 1 |
p.G42A | KIRC | 1 |
p.R637C | STAD | 1 |
p.N474I | LUSC | 1 |
p.L839I | READ | 1 |
p.R835H | COAD | 1 |
p.P708S | SKCM | 1 |
p.G559V | LUAD | 1 |
p.H213Q | HNSC | 1 |
p.G559W | LUAD | 1 |
p.E551Q | BLCA | 1 |
p.C1533F | MESO | 1 |
p.G655E | SKCM | 1 |
p.T1240M | PAAD | 1 |
p.L364F | SKCM | 1 |
p.R1091H | UCEC | 1 |
p.A1440V | LIHC | 1 |
p.E974K | SKCM | 1 |
p.G175V | PRAD | 1 |
p.D1078N | HNSC | 1 |
p.E184D | LGG | 1 |
p.S411P | PAAD | 1 |
p.P918S | SKCM | 1 |
p.Q1178K | ACC | 1 |
p.L1323Q | LIHC | 1 |
p.Q706H | BLCA | 1 |
p.T1480M | PRAD | 1 |
p.E491* | UCEC | 1 |
p.R1187W | LIHC | 1 |
p.L180V | BLCA | 1 |
p.K484T | PAAD | 1 |
p.N319S | COAD | 1 |
p.H77Y | LGG | 1 |
p.D1226N | SKCM | 1 |
p.P701A | OV | 1 |
p.L663F | SKCM | 1 |
p.E260K | CESC | 1 |
p.A179V | UCEC | 1 |
p.P325S | SKCM | 1 |
p.G694R | LUAD | 1 |
p.E1322K | COAD | 1 |
p.G559V | UCEC | 1 |
p.C286F | LUAD | 1 |
p.D1462N | THYM | 1 |
p.R429W | PAAD | 1 |
p.R118Q | SKCM | 1 |
p.K1164E | COAD | 1 |
p.F401L | BRCA | 1 |
p.L412Q | STAD | 1 |
p.R181W | LGG | 1 |
p.Q1137H | BLCA | 1 |
p.S1449L | SKCM | 1 |
p.P735S | ACC | 1 |
p.T1196M | STAD | 1 |
p.P373S | SKCM | 1 |
p.N794H | BLCA | 1 |
p.L775M | SARC | 1 |
p.P1155L | MESO | 1 |
p.I145M | LUSC | 1 |
p.V639I | UCEC | 1 |
p.G587S | SKCM | 1 |
p.G1146C | COAD | 1 |
p.D399N | SKCM | 1 |
p.R233G | LUSC | 1 |
p.N623K | HNSC | 1 |
p.G375D | KIRC | 1 |
p.E1322K | HNSC | 1 |
p.P760L | SKCM | 1 |
p.N1026I | OV | 1 |
p.A713T | COAD | 1 |
p.A1197T | KIRC | 1 |
p.R1439H | UCEC | 1 |
p.R455H | UCEC | 1 |
p.G1244V | STAD | 1 |
p.R178H | SARC | 1 |
p.A1213T | UCEC | 1 |
p.D943N | SKCM | 1 |
p.G98V | HNSC | 1 |
p.E1451K | READ | 1 |
p.A473T | UCEC | 1 |
p.D1172N | SKCM | 1 |
p.F177C | OV | 1 |
p.G1133R | LUSC | 1 |
p.Q1030R | STAD | 1 |
p.S857F | SKCM | 1 |
p.E1365K | UCEC | 1 |
p.H873Y | BLCA | 1 |
p.E317K | SKCM | 1 |
p.P514S | SKCM | 1 |
p.R181W | COAD | 1 |
p.R1502Q | PAAD | 1 |
p.Q1353L | LUAD | 1 |
p.D646N | SKCM | 1 |
p.R835C | COAD | 1 |
p.L1203I | ESCA | 1 |
p.G1133V | LUAD | 1 |
p.A437E | ESCA | 1 |
p.K563T | UCEC | 1 |
p.R1187W | COAD | 1 |
p.E721K | SKCM | 1 |
p.R687W | UCEC | 1 |
p.A451T | HNSC | 1 |
p.G49C | KIRP | 1 |
p.A1213T | BLCA | 1 |
p.G267E | SKCM | 1 |
p.G694R | SKCM | 1 |
p.R357H | LGG | 1 |
p.G1379S | LIHC | 1 |
p.R465H | ESCA | 1 |
p.D510Y | LUAD | 1 |
p.R637H | UCEC | 1 |
p.N575S | STAD | 1 |
p.A82V | COAD | 1 |
p.S1048C | CESC | 1 |
p.D220N | COAD | 1 |
p.A473T | HNSC | 1 |
p.C519* | LUAD | 1 |
p.Q133H | LUAD | 1 |
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TissGeneCNV for SLIT1 |
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 SLIT1 |
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 | BM676949 | SLIT1-FAM208B | chr10:98758125 | chr10:5789503 | |
Chimerdb3.0 | ChiTaRs | NA | BF934573 | SLIT1-RAB10 | chr10:98850810 | chr2:26357905 | |
Chimerdb3.0 | FusionScan | BRCA | TCGA-A7-A6VV-01A | TM9SF3-SLIT1 | Out-of-Frame | chr10:98346490 | chr10:98808875 |
TCGAfusionPortal | PRADA | BRCA | TCGA-A7-A6VV-01A | TM9SF3-SLIT1 | Out-of-frame | Chr10:98346491 | Chr10:98808875 |
TCGAfusionPortal | PRADA | GBM | TCGA-12-5299-01A | SLIT1-SFRP5 | Out-of-frame | Chr10:98790514 | Chr10:99527617 |
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TissGeneNet for SLIT1 |
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 SLIT1 |
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 SLIT1 |
TissGeneDrug for SLIT1 |
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 SLIT1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0024623 | Malignant neoplasm of stomach | 2 | BeFree |
umls:C0699791 | Stomach Carcinoma | 2 | BeFree |
umls:C1527249 | Colorectal Cancer | 2 | BeFree |
umls:C0003873 | Rheumatoid Arthritis | 1 | BeFree |
umls:C0006111 | Brain Diseases | 1 | GAD |
umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |
umls:C0007115 | Malignant neoplasm of thyroid | 1 | BeFree |
umls:C0014175 | Endometriosis | 1 | BeFree |
umls:C0017638 | Glioma | 1 | BeFree |
umls:C0019270 | Hernia | 1 | BeFree |
umls:C0036341 | Schizophrenia | 1 | BeFree |
umls:C0242379 | Malignant neoplasm of lung | 1 | BeFree |
umls:C0346429 | Multiple malignancy | 1 | BeFree |
umls:C0428886 | Mean blood pressure | 1 | GWASCAT |
umls:C0549473 | Thyroid carcinoma | 1 | BeFree |
umls:C0596263 | Carcinogenesis | 1 | BeFree |
umls:C0678222 | Breast Carcinoma | 1 | BeFree |
umls:C0684249 | Carcinoma of lung | 1 | BeFree |
umls:C1302401 | Adenoma of large intestine | 1 | BeFree |
umls:C1458155 | Mammary Neoplasms | 1 | LHGDN |
umls:C1519670 | Tumor Angiogenesis | 1 | BeFree |