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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CLPS |
Basic gene info. | Gene symbol | CLPS |
Gene name | colipase, pancreatic | |
Synonyms | - | |
Cytomap | UCSC genome browser: 6p21.31 | |
Genomic location | chr6 :35762758-35765121 | |
Type of gene | protein-coding | |
RefGenes | NM_001252597.1, NM_001252598.1,NM_001832.3, | |
Ensembl id | ENSG00000137392 | |
Description | colipasepancreatic colipase preproprotein | |
Modification date | 20141207 | |
dbXrefs | MIM : 120105 | |
HGNC : HGNC | ||
Ensembl : ENSG00000137392 | ||
HPRD : 00356 | ||
Vega : OTTHUMG00000014578 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CLPS | |
BioGPS: 1208 | ||
Gene Expression Atlas: ENSG00000137392 | ||
The Human Protein Atlas: ENSG00000137392 | ||
Pathway | NCI Pathway Interaction Database: CLPS | |
KEGG: CLPS | ||
REACTOME: CLPS | ||
ConsensusPathDB | ||
Pathway Commons: CLPS | ||
Metabolism | MetaCyc: CLPS | |
HUMANCyc: CLPS | ||
Regulation | Ensembl's Regulation: ENSG00000137392 | |
miRBase: chr6 :35,762,758-35,765,121 | ||
TargetScan: NM_001252597 | ||
cisRED: ENSG00000137392 | ||
Context | iHOP: CLPS | |
cancer metabolism search in PubMed: CLPS | ||
UCL Cancer Institute: CLPS | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for CLPS(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: CLPS |
Familial Cancer Database: CLPS |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
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REACTOME_METABOLISM_OF_STEROID_HORMONES_AND_VITAMINS_A_AND_D REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: CLPS |
MedGen: CLPS (Human Medical Genetics with Condition) | |
ClinVar: CLPS | |
Phenotype | MGI: CLPS (International Mouse Phenotyping Consortium) |
PhenomicDB: CLPS |
Mutations for CLPS |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows CLPS related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=11) | (# total SNVs=2) |
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(# total SNVs=0) | (# total SNVs=0) |
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* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr6:35762936-35762936 | p.R109H | 2 |
chr6:35762943-35762943 | p.A107T | 2 |
chr6:35764997-35764997 | p.G23G | 2 |
chr6:35762976-35762976 | p.I96V | 2 |
chr6:35765001-35765001 | p.R22P | 2 |
chr6:35765035-35765035 | p.A11T | 2 |
chr6:35763027-35763027 | p.P79S | 2 |
chr6:35762933-35762933 | p.S110F | 1 |
chr6:35763610-35763610 | p.M35I | 1 |
chr6:35763630-35763630 | p.E29K | 1 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   |   |   | 3 |   |   |   |   |   | 1 |   | 3 | 1 |   |   |   | 9 | 2 |   |   |
# mutation |   |   |   | 2 |   |   |   |   |   | 1 |   | 3 | 1 |   |   |   | 8 | 2 |   |   |
nonsynonymous SNV |   |   |   | 2 |   |   |   |   |   | 1 |   | 1 |   |   |   |   | 6 | 2 |   |   |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   | 2 | 1 |   |   |   | 2 |   |   |   |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr6:35762936 | p.A11T,CLPS | 2 |
chr6:35765035 | p.R68H,CLPS | 2 |
chr6:35764997 | p.G23G,CLPS | 2 |
chr6:35765004 | p.I4I,CLPS | 1 |
chr6:35765005 | p.M1I,CLPS | 1 |
chr6:35762985 | p.V52M,CLPS | 1 |
chr6:35765033 | p.T50I,CLPS | 1 |
chr6:35762990 | p.G47R,CLPS | 1 |
chr6:35763000 | p.R41C,CLPS | 1 |
chr6:35765054 | p.S61S,CLPS | 1 |
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* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
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cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for CLPS |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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CELA3A,CELA3B,CLPS,CPA1,CTRB1,CTRB2,CTRC, EFCAB10,GRK1,GRXCR1,LOC339788,LOXHD1,NOBOX,NT5C1B, POM121L8P,POU5F1B,REG3A,SYCN,TPD52L3,TSGA10IP,ZAR1L | VRTN,C1QTNF8,C7orf33,CHD5,CLPS,COL9A1,CPNE6, DRP2,HBG1,HBG2,ITIH3,ITLN1,KIF1A,MLC1, NKX2-3,NOBOX,P2RX1,POU5F1B,SOST,WFDC1,ZFP42 | ||||
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AMY2A,C11orf40,BPIFB3,NAT16,CELA2A,CELA2B,CELA3A, CELA3B,CLPS,CPA1,CPB1,CTRB1,CTRB2,CTRC, DEFB109P1,OPRM1,OR6X1,PCDH19,PLA2G1B,PNLIP,SYCN | ANKRD30B,CYP4F30P,SPTSSB,CLPS,CREB3L4,GPR98,HAPLN1, HMGN1,HPVC1,IGFALS,LOC100128023,LOC284578,LRRC36,LYPD6, MFSD6L,PARP8,PAX4,RLN2,TMEFF2,TMEM231,WFDC2 |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Pharmacological Information for CLPS |
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DB Category | DB Name | DB's ID and Url link |
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* Gene Centered Interaction Network. |
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* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB04233 | colipase, pancreatic | experimental | (Hydroxyethyloxy)Tri(Ethyloxy)Octane | ![]() | ![]() |
DB08222 | colipase, pancreatic | experimental | METHOXYUNDECYLPHOSPHINIC ACID | ![]() | ![]() |
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Cross referenced IDs for CLPS |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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