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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for LPL |
Basic gene info. | Gene symbol | LPL |
Gene name | lipoprotein lipase | |
Synonyms | HDLCQ11|LIPD | |
Cytomap | UCSC genome browser: 8p22 | |
Genomic location | chr8 :19796581-19824770 | |
Type of gene | protein-coding | |
RefGenes | NM_000237.2, | |
Ensembl id | ENSG00000175445 | |
Description | - | |
Modification date | 20141219 | |
dbXrefs | MIM : 609708 | |
HGNC : HGNC | ||
Ensembl : ENSG00000175445 | ||
HPRD : 01999 | ||
Vega : OTTHUMG00000036645 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LPL | |
BioGPS: 4023 | ||
Gene Expression Atlas: ENSG00000175445 | ||
The Human Protein Atlas: ENSG00000175445 | ||
Pathway | NCI Pathway Interaction Database: LPL | |
KEGG: LPL | ||
REACTOME: LPL | ||
ConsensusPathDB | ||
Pathway Commons: LPL | ||
Metabolism | MetaCyc: LPL | |
HUMANCyc: LPL | ||
Regulation | Ensembl's Regulation: ENSG00000175445 | |
miRBase: chr8 :19,796,581-19,824,770 | ||
TargetScan: NM_000237 | ||
cisRED: ENSG00000175445 | ||
Context | iHOP: LPL | |
cancer metabolism search in PubMed: LPL | ||
UCL Cancer Institute: LPL | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for LPL(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: LPL |
Familial Cancer Database: LPL |
* This gene is included in those cancer gene databases. |
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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/ |
Metabolic Pathway Description | |
KEGG_GLYCEROLIPID_METABOLISM REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS REACTOME_LIPOPROTEIN_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: LPL |
MedGen: LPL (Human Medical Genetics with Condition) | |
ClinVar: LPL | |
Phenotype | MGI: LPL (International Mouse Phenotyping Consortium) |
PhenomicDB: LPL |
Mutations for LPL |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
pancreas | LPL | chr8 | 19817012 | 19817032 | CSMD1 | chr8 | 3489785 | 3489805 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows LPL 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 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=65) | (# total SNVs=20) |
(# total SNVs=1) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* 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 |
chr8:19811857-19811857 | p.G256G | 4 |
chr8:19805714-19805714 | p.E38K | 3 |
chr8:19813468-19813468 | p.E298Q | 2 |
chr8:19818567-19818567 | p.R432K | 2 |
chr8:19811736-19811736 | p.S216F | 2 |
chr8:19811856-19811856 | p.G256A | 2 |
chr8:19809403-19809403 | p.A125T | 2 |
chr8:19810912-19810912 | p.K174T | 2 |
chr8:19819629-19819629 | p.V442V | 2 |
chr8:19813497-19813497 | p.K307N | 2 |
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SNV Counts per Each Loci in TCGA data |
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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 | 2 | 2 |   | 14 |   |   | 1 |   | 3 | 1 |   | 13 | 5 | 1 |   |   | 5 | 4 | 1 | 15 |
# mutation | 2 | 2 |   | 10 |   |   | 1 |   | 3 | 1 |   | 13 | 5 | 1 |   |   | 5 | 5 | 1 | 19 |
nonsynonymous SNV | 1 | 1 |   | 7 |   |   | 1 |   | 2 | 1 |   | 7 | 3 | 1 |   |   | 2 | 3 | 1 | 16 |
synonymous SNV | 1 | 1 |   | 3 |   |   |   |   | 1 |   |   | 6 | 2 |   |   |   | 3 | 2 |   | 3 |
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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Top 10 SNVs Having the Most Samples in TCGA data |
* 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 |
chr8:19811857 | p.G256G | 4 |
chr8:19805714 | p.E38K | 3 |
chr8:19811856 | p.G256E | 2 |
chr8:19809439 | p.R137R | 2 |
chr8:19811832 | p.W141R | 1 |
chr8:19805727 | p.L380L | 1 |
chr8:19813497 | p.D48Y | 1 |
chr8:19809327 | p.N147T | 1 |
chr8:19818481 | p.S390S | 1 |
chr8:19810912 | p.T49I | 1 |
Other DBs for Point Mutations |
Copy Number for LPL in TCGA |
* 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. |
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 LPL |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* 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 |
ACVR1C,ADH1B,ADIPOQ,AOC3,AQP7,AQP7P1,AQPEP, CIDEA,CIDEC,GLYAT,GPAM,GPD1,HEPACAM,HEPN1, KCNIP2,KLB,LIPE,LPL,PLIN1,SLC19A3,TMEM132C | ABCD2,ACO1,ADIPOQ,FAM213A,CIDEC,ESYT1,GNAI1, GYG2,HEPACAM,HEPN1,KCNIP2,LPL,MARC1,PDE3B, PEX19,PLIN1,PPARG,RBP4,SIK2,SLC7A10,TSPAN3 | ||||
ABCA9,ADH1B,ADIPOQ,C7,CD300LG,CD36,CIDEA, FABP4,GLYAT,GPX3,HEPACAM,IRX6,KCNIP2,LGALS12, LIPE,LOC339524,LPL,PI16,PLIN1,PLIN4,TUSC5 | ADIPOQ,CD300LG,CHRDL2,CIDEA,DGAT2,FABP4,G0S2, GPAM,LGALS12,LOC283392,LOC55908,LPL,MRAP,NKX6-2, PFKFB1,PLIN1,SAA1,SCD,SLC7A10,THRSP,TUSC5 |
Co-Expressed gene's Protein-protein interaction Network Plot |
* 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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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for LPL |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00741 | lipoprotein lipase | approved | Hydrocortisone | ||
DB01132 | lipoprotein lipase | approved; investigational | Pioglitazone | ||
DB00412 | lipoprotein lipase | approved; investigational | Rosiglitazone | ||
DB00197 | lipoprotein lipase | withdrawn | Troglitazone | ||
DB01095 | lipoprotein lipase | approved | Fluvastatin | ||
DB00363 | lipoprotein lipase | approved | Clozapine | ||
DB00334 | lipoprotein lipase | approved; investigational | Olanzapine | ||
DB01039 | lipoprotein lipase | approved | Fenofibrate | ||
DB00264 | lipoprotein lipase | approved; investigational | Metoprolol |
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Cross referenced IDs for LPL |
* 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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