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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PCK2 |
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Phenotypic Information for PCK2(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: PCK2 |
Familial Cancer Database: PCK2 |
* 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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KEGG_GLYCOLYSIS_GLUCONEOGENESIS KEGG_PYRUVATE_METABOLISM REACTOME_METABOLISM_OF_CARBOHYDRATES REACTOME_GLUCOSE_METABOLISM |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: PCK2 |
MedGen: PCK2 (Human Medical Genetics with Condition) | |
ClinVar: PCK2 | |
Phenotype | MGI: PCK2 (International Mouse Phenotyping Consortium) |
PhenomicDB: PCK2 |
Mutations for PCK2 |
* 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 PCK2 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=43) | (# total SNVs=8) |
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(# total SNVs=1) | (# 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 |
chr14:24568323-24568323 | p.R244W | 2 |
chr14:24567582-24567582 | p.P149L | 2 |
chr14:24572402-24572402 | p.R469L | 2 |
chr14:24571977-24571977 | p.C417F | 2 |
chr14:24568857-24568857 | p.R315W | 2 |
chr14:24568928-24568928 | p.E338D | 2 |
chr14:24572012-24572012 | p.R429C | 2 |
chr14:24572735-24572735 | p.H495H | 2 |
chr14:24568320-24568320 | p.Q243K | 1 |
chr14:24572751-24572751 | p.R501W | 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 | 1 | 5 |   | 6 | 1 |   | 4 |   | 2 | 1 |   | 3 | 1 |   |   | 1 | 5 | 8 | 1 | 8 |
# mutation | 1 | 5 |   | 6 | 1 |   | 4 |   | 2 | 1 |   | 3 | 1 |   |   | 1 | 5 | 8 | 1 | 8 |
nonsynonymous SNV | 1 | 3 |   | 5 |   |   | 3 |   | 2 | 1 |   | 3 | 1 |   |   | 1 | 4 | 6 | 1 | 7 |
synonymous SNV |   | 2 |   | 1 | 1 |   | 1 |   |   |   |   |   |   |   |   |   | 1 | 2 |   | 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]) |
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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 |
chr14:24568928 | p.E338D,PCK2 | 2 |
chr14:24569212 | p.Q243K,PCK2 | 1 |
chr14:24572088 | p.A314V,PCK2 | 1 |
chr14:24567525 | p.I268V,PCK2 | 1 |
chr14:24572967 | p.R320H,PCK2 | 1 |
chr14:24569275 | p.G20G,PCK2 | 1 |
chr14:24566131 | p.P291H,PCK2 | 1 |
chr14:24572402 | p.R335H,PCK2 | 1 |
chr14:24567684 | p.H50Y,PCK2 | 1 |
chr14:24573040 | p.R315W,PCK2 | 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 PCK2 |
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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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ACSF2,ACSM1,ALDH4A1,AP1G2,C15orf43,DCAF11,DHRS4, DHRS4L2,EMC9,GCM1,MDP1,MVK,NEDD8,NRL, PCK2,PSME1,RABGGTA,RNF31,TM9SF1,TMIGD1,UGT3A2 | ADH1A,ANKRD53,ASS1,APMAP,CALCRL,CIDEA,CYP1A2, DNAH9,ECHDC3,GLUL,GLYCTK,MOCS1,MOGAT1,ORMDL3, PC,PCK1,PCK2,PCYT2,PMM1,PXMP2,TM7SF2 | ||||
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ADCK1,APEX1,ATP5S,C14orf166,COQ6,DCAF11,DHRS4, DHRS4L2,GLRX5,HAUS4,HOMEZ,HSD17B8,ISCA2,NGDN, OXA1L,PCK2,PSMB5,SETD3,TIMM9,TMEM55B,VTI1B | ACE2,ALPI,ANPEP,TMEM253,CHN2,CYP2J2,DGAT1, GBA3,SLC52A1,MMEL1,MS4A8,MYO1A,NAT8B,OIT3, PCK2,PKLR,PLCB3,PTGR1,SLC23A1,TM6SF2,AGMO |
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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 PCK2 |
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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 |
DB00121 | phosphoenolpyruvate carboxykinase 2 (mitochondrial) | approved; nutraceutical | Biotin | ![]() | ![]() |
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Cross referenced IDs for PCK2 |
* 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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