TissGeneSummary for CALB1 |
Gene summary |
Basic gene information | Gene symbol | CALB1 |
Gene name | calbindin 1, 28kDa | |
Synonyms | CALB | |
Cytomap | UCSC genome browser: 8q21.3 | |
Type of gene | protein-coding | |
RefGenes | NM_004929.2, | |
Description | D-28KRTVL-H proteincalbindincalbindin 1, (28kD)calbindin D28vitamin D-dependent calcium-binding protein, avian-type | |
Modification date | 20141207 | |
dbXrefs | MIM : 114050 | |
HGNC : HGNC | ||
Ensembl : ENSG00000104327 | ||
HPRD : 00229 | ||
Vega : OTTHUMG00000134314 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CALB1 | |
BioGPS: 793 | ||
Pathway | NCI Pathway Interaction Database: CALB1 | |
KEGG: CALB1 | ||
REACTOME: CALB1 | ||
Pathway Commons: CALB1 | ||
Context | iHOP: CALB1 | |
ligand binding site mutation search in PubMed: CALB1 | ||
UCL Cancer Institute: CALB1 | ||
Assigned class in TissGDB* | B | |
Included tissue-specific gene expression resources | HPA,TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Kidney | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICH | |
Reference showing the relevant tissue of CALB1 | ||
Description by TissGene annotations | Have significant anti-correlated miRNA |
* 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 CALB1 |
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 |
KIRP | -1.614183821 | 7.935125554 | -9.549309375 | 1.51E-19 | 8.46E-18 |
HNSC | 1.382804842 | -2.672413763 | 4.055218605 | 3.67E-09 | 5.04E-08 |
LUSC | 0.743534071 | -2.543130634 | 3.286664706 | 1.33E-09 | 4.50E-09 |
KICH | -1.717830321 | 6.493637679 | -8.211468 | 1.41E-12 | 1.65E-11 |
KIRC | -1.77777271 | 6.970581457 | -8.748354167 | 7.77E-30 | 1.44E-28 |
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TissGene-miRNA for CALB1 |
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-301a-3p | MIMAT0000688 | 0.037 | -0.27 | 60 |
UVM | hsa-miR-454-3p | MIMAT0003885 | 0.0089 | -0.29 | 80 |
UCS | hsa-miR-193b-3p | MIMAT0002819 | 0.021 | -0.31 | 56 |
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TissGeneMut for CALB1 |
TissGeneSNV for CALB1 |
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.H114Q | LUAD | 2 |
p.M104K | HNSC | 1 |
p.F23L | BLCA | 1 |
p.D148N | LUSC | 1 |
p.G51R | SKCM | 1 |
p.L43F | CESC | 1 |
p.R249Q | UCEC | 1 |
p.R93Q | LUAD | 1 |
p.E166K | BLCA | 1 |
p.D24G | GBM | 1 |
p.M58I | SKCM | 1 |
p.A46E | LIHC | 1 |
p.Q224K | ESCA | 1 |
p.G183E | COAD | 1 |
p.R47Q | SKCM | 1 |
p.Q95R | STAD | 1 |
p.L6Q | LUAD | 1 |
p.F181L | LUAD | 1 |
p.E86D | UCEC | 1 |
p.I238V | STAD | 1 |
p.Q64H | KIRC | 1 |
p.L130M | LUAD | 1 |
p.E53K | SKCM | 1 |
p.W107* | SKCM | 1 |
p.T141A | STAD | 1 |
p.W107X | SKCM | 1 |
p.L130M | BLCA | 1 |
p.E121K | CESC | 1 |
p.G244R | SKCM | 1 |
p.H80Q | HNSC | 1 |
p.D251N | SKCM | 1 |
p.K48E | SARC | 1 |
p.G259R | SKCM | 1 |
p.L123I | LUAD | 1 |
p.D207A | LIHC | 1 |
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TissGeneCNV for CALB1 |
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 CALB1 |
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 CALB1 |
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 CALB1 |
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 CALB1 |
TissGeneDrug for CALB1 |
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 CALB1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0030567 | Parkinson Disease | 3 | BeFree,GAD |
umls:C0004936 | Mental disorders | 2 | BeFree |
umls:C0005586 | Bipolar Disorder | 2 | BeFree |
umls:C0022658 | Kidney Diseases | 2 | CTD_human |
umls:C0036341 | Schizophrenia | 2 | BeFree |
umls:C0002395 | Alzheimer's Disease | 1 | BeFree |
umls:C0002736 | Amyotrophic Lateral Sclerosis | 1 | BeFree |
umls:C0007134 | Renal Cell Carcinoma | 1 | BeFree |
umls:C0008497 | Choriocarcinoma | 1 | BeFree |
umls:C0020179 | Huntington Disease | 1 | BeFree |
umls:C0020433 | Hyperbilirubinemia | 1 | BeFree,RGD |
umls:C0022665 | Kidney Neoplasm | 1 | BeFree |
umls:C0025149 | Medulloblastoma | 1 | BeFree |
umls:C0025267 | Multiple Endocrine Neoplasia Type 1 | 1 | BeFree |
umls:C0027662 | Multiple Endocrine Neoplasia | 1 | BeFree |
umls:C0035369 | Retroviridae Infections | 1 | BeFree |
umls:C0036572 | Seizures | 1 | BeFree |
umls:C0524851 | Neurodegenerative Disorders | 1 | BeFree |
umls:C0752124 | Spinocerebellar Ataxia Type 6 (disorder) | 1 | BeFree |
umls:C1561535 | Creatinine finding | 1 | GAD |
umls:C1561549 | Glomerular filtration rate finding | 1 | GAD |