|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PLTP |
Top |
Phenotypic Information for PLTP(metabolism pathway, cancer, disease, phenome) |
![]() | |
Cancer | CGAP: PLTP |
Familial Cancer Database: PLTP |
* 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/ |
![]() | |
REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS REACTOME_LIPOPROTEIN_METABOLISM |
![]() | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: PLTP |
MedGen: PLTP (Human Medical Genetics with Condition) | |
ClinVar: PLTP | |
Phenotype | MGI: PLTP (International Mouse Phenotyping Consortium) |
PhenomicDB: PLTP |
Mutations for PLTP |
* 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. |
![]() |
- Statistics for Tissue and Mutation type | Top |
![]() |
- For Inter-chromosomal Variations |
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'. |
![]() |
- 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 |
breast | PLTP | chr20 | 44534111 | 44534111 | chr20 | 44576980 | 44576980 | |
pancreas | PLTP | chr20 | 44535361 | 44535381 | PLTP | chr20 | 44535774 | 44535794 |
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) |
![]() |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PLTP 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 |
![]() |
Top |
![]() |
There's no copy number variation information in COSMIC data for this gene. |
Top |
![]() |
|
![]() |
Top |
![]() |
Stat. for Non-Synonymous SNVs (# total SNVs=46) | (# total SNVs=13) |
![]() | ![]() |
(# total SNVs=0) | (# total SNVs=0) |
Top |
![]() |
* 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 |
chr20:44530927-44530927 | p.R385L | 3 |
chr20:44540080-44540080 | p.F4F | 2 |
chr20:44533618-44533618 | p.R282Q | 2 |
chr20:44534909-44534909 | p.R235W | 1 |
chr20:44540031-44540031 | p.G21C | 1 |
chr20:44527588-44527588 | p.A492T | 1 |
chr20:44530910-44530910 | p.R391C | 1 |
chr20:44538168-44538168 | p.G158W | 1 |
chr20:44533593-44533593 | p.L290L | 1 |
chr20:44538650-44538650 | p.E87G | 1 |
Top |
![]() |
|
![]() |
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 | 1 | 1 |   | 8 | 1 |   |   |   | 3 | 1 |   | 7 | 3 | 1 | 1 |   | 1 | 4 |   | 7 |
# mutation | 1 | 1 |   | 11 | 1 |   |   |   | 3 | 1 |   | 7 | 3 | 1 | 1 |   | 1 | 5 |   | 7 |
nonsynonymous SNV | 1 | 1 |   | 10 | 1 |   |   |   | 2 |   |   | 5 | 2 |   | 1 |   | 1 | 4 |   | 7 |
synonymous SNV |   |   |   | 1 |   |   |   |   | 1 | 1 |   | 2 | 1 | 1 |   |   |   | 1 |   |   |
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]) |
Top |
![]() |
* 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 |
chr20:44540080 | p.F4F,PLTP | 2 |
chr20:44538612 | p.P160T,PLTP | 1 |
chr20:44527588 | p.R12S,PLTP | 1 |
chr20:44533495 | p.A397T,PLTP | 1 |
chr20:44534981 | p.A157T,PLTP | 1 |
chr20:44538623 | p.S8Y,PLTP | 1 |
chr20:44527599 | p.P393L,PLTP | 1 |
chr20:44533604 | p.R156W,PLTP | 1 |
chr20:44536337 | p.E87G,PLTP | 1 |
chr20:44538650 | p.E378A,PLTP | 1 |
![]() |
![]() |
* 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] |
Top |
Gene Expression for PLTP |
![]() |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
![]() |
![]() |
* 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)) |
![]() |
Top |
![]() |
* This plots show the correlation between CNV and gene expression. |
![]() | |
![]() |
Top |
Gene-Gene Network Information |
![]() |
* 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 |
![]() | |
MILR1,CD248,COL6A2,DAZL,DEFB124,FOLR2,GP9, LAMC3,LCE3C,LCE3D,LCNL1,MMP9,LINC00162,PCOLCE, PLTP,PTGDS,RCN3,SPON2,SPRR2G,STAB1,XPNPEP2 | C1QA,C1QB,C1QC,C2,CD14,CD163,CD209, CLEC10A,CRYBB1,CSF1R,FOLR2,LGMN,LILRB2,LILRB5, MCOLN1,PLTP,RASGRP4,RNASE1,SIGLEC1,STAB1,VSIG4 |
![]() | |
CTNNBL1,DDX27,DGAT2,FAM117A,FBXO17,LOC644538,LRRC29, MAMSTR,LINC00086,PAPLN,PLTP,PTPN1,RAB3IL1,RGN, SMO,SNTA1,SNX21,TSPY26P,TTC7B,TTPAL,USP27X | AQPEP,C4A,CHI3L1,CLDN11,CNBD1,CPXM1,DEFB124, DYDC1,FAM20A,GLYCAM1,GREM1,LIM2,LOC55908,MARCO, OR3A4P,PLTP,REG1A,REG1B,RNASE2,SCN1B,SNORA22, |
![]() |
* 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 |
Top |
![]() |
Top |
Pharmacological Information for PLTP |
There's no related Drug. |
Top |
Cross referenced IDs for PLTP |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |