TissGeneSummary for LECT2 |
Gene summary |
Basic gene information | Gene symbol | LECT2 |
Gene name | leukocyte cell-derived chemotaxin 2 | |
Synonyms | chm-II|chm2 | |
Cytomap | UCSC genome browser: 5q31.1 | |
Type of gene | protein-coding | |
RefGenes | NM_002302.2, | |
Description | chondromodulin-IIleukocyte cell-derived chemotaxin-2 | |
Modification date | 20141207 | |
dbXrefs | MIM : 602882 | |
HGNC : HGNC | ||
Ensembl : ENSG00000145826 | ||
HPRD : 04196 | ||
Vega : OTTHUMG00000129146 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LECT2 | |
BioGPS: 3950 | ||
Pathway | NCI Pathway Interaction Database: LECT2 | |
KEGG: LECT2 | ||
REACTOME: LECT2 | ||
Pathway Commons: LECT2 | ||
Context | iHOP: LECT2 | |
ligand binding site mutation search in PubMed: LECT2 | ||
UCL Cancer Institute: LECT2 | ||
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) | Liver | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | LIHC | |
Reference showing the relevant tissue of LECT2 | Functional diets modulate the acute phase protein response in Oncorhynchus mykiss subjected to chronic stress and challenged with Vibrio anguillarum. Castro-Osses D, Carrera-Naipil C, Gallardo-Escárate C, Gonçalves AT. Fish Shellfish Immunol. 2017 Jul;66:62-70. doi: 10.1016/j.fsi.2017.05.001. Epub 2017 May 2. (pmid:28476670) go to article | |
Description by TissGene annotations | 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 LECT2 |
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 |
LIHC | 7.638506471 | 10.72074047 | -3.082234 | 3.53E-07 | 2.14E-06 |
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TissGene-miRNA for LECT2 |
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 LECT2 |
TissGeneSNV for LECT2 |
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.P113H | UCEC | 2 |
p.A68P | BLCA | 1 |
p.G19V | LUAD | 1 |
p.Q82* | SKCM | 1 |
p.G112D | SKCM | 1 |
p.R92* | SKCM | 1 |
p.K109N | BLCA | 1 |
p.K115E | SKCM | 1 |
p.P69L | SKCM | 1 |
p.C25Y | HNSC | 1 |
p.C25Y | LUAD | 1 |
p.E32D | BLCA | 1 |
p.T15I | LUAD | 1 |
p.I58S | UCEC | 1 |
p.Q82X | SKCM | 1 |
p.I13F | UCEC | 1 |
p.G76R | OV | 1 |
p.Y104C | KICH | 1 |
p.G27V | COAD | 1 |
p.E78D | UCEC | 1 |
p.Y110N | LUAD | 1 |
p.Y44F | SKCM | 1 |
p.S3C | BLCA | 1 |
p.F98Y | SKCM | 1 |
p.K115T | UCEC | 1 |
p.E140K | BLCA | 1 |
p.K84N | HNSC | 1 |
p.E32K | THYM | 1 |
p.P125H | LUAD | 1 |
p.Q74P | UCEC | 1 |
p.R92X | SKCM | 1 |
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TissGeneCNV for LECT2 |
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 LECT2 |
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 LECT2 |
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 LECT2 |
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 LECT2 |
TissGeneDrug for LECT2 |
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 LECT2 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C2239176 | Liver carcinoma | 3 | BeFree |
umls:C0028754 | Obesity | 2 | BeFree |
umls:C0002726 | Amyloidosis | 1 | BeFree |
umls:C0003873 | Rheumatoid Arthritis | 1 | BeFree |
umls:C0015695 | Fatty Liver | 1 | BeFree |
umls:C0020459 | Hyperinsulinism | 1 | BeFree |
umls:C0023290 | Leishmaniasis, Visceral | 1 | BeFree |
umls:C0023903 | Liver neoplasms | 1 | BeFree |
umls:C0085605 | Liver Failure | 1 | LHGDN |
umls:C0206624 | Hepatoblastoma | 1 | BeFree |
umls:C0268382 | Amyloid nephropathy | 1 | BeFree |
umls:C0341439 | Chronic liver disease | 1 | BeFree |
umls:C0400966 | Non-alcoholic Fatty Liver Disease | 1 | BeFree |
umls:C0403447 | Chronic Kidney Insufficiency | 1 | BeFree |
umls:C0746556 | metabolic disturbance | 1 | BeFree |
umls:C1512409 | Hepatocarcinogenesis | 1 | BeFree |
umls:C1561643 | Chronic Kidney Diseases | 1 | BeFree |
umls:C1709246 | Non-Neoplastic Disorder | 1 | BeFree |
umls:C2711227 | Steatohepatitis | 1 | BeFree |