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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for IMPA1 |
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Phenotypic Information for IMPA1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: IMPA1 |
Familial Cancer Database: IMPA1 |
* 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/ |
Metabolic Pathway Description | |
KEGG_INOSITOL_PHOSPHATE_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: IMPA1 |
MedGen: IMPA1 (Human Medical Genetics with Condition) | |
ClinVar: IMPA1 | |
Phenotype | MGI: IMPA1 (International Mouse Phenotyping Consortium) |
PhenomicDB: IMPA1 |
Mutations for IMPA1 |
* 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 |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows IMPA1 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 |   |   |   |   | 1 |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   | |||
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=15) | (# total SNVs=7) |
(# total SNVs=0) | (# 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 |
chr8:82591466-82591466 | p.? | 2 |
chr8:82572881-82572881 | p.A196A | 2 |
chr8:82586109-82586109 | p.N142D | 1 |
chr8:82593018-82593018 | p.V22L | 1 |
chr8:82571627-82571627 | p.E265Q | 1 |
chr8:82583214-82583214 | p.L176I | 1 |
chr8:82588523-82588523 | p.? | 1 |
chr8:82571638-82571638 | p.R261K | 1 |
chr8:82593740-82593740 | p.A19D | 1 |
chr8:82583228-82583228 | p.T171N | 1 |
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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 | 1 | 1 | 8 |   |   | 2 |   |   |   |   | 3 | 3 |   |   | 1 | 1 | 4 |   | 3 |
# mutation | 2 | 1 | 1 | 7 |   |   | 2 |   |   |   |   | 3 | 3 |   |   | 1 | 1 | 4 |   | 3 |
nonsynonymous SNV | 1 | 1 |   | 4 |   |   | 2 |   |   |   |   | 3 | 2 |   |   | 1 | 1 | 3 |   | 3 |
synonymous SNV | 1 |   | 1 | 3 |   |   |   |   |   |   |   |   | 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]) |
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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 |
chr8:82583228 | p.T171I,IMPA1 | 2 |
chr8:82592977 | p.E265Q,IMPA1 | 1 |
chr8:82571627 | p.N142D,IMPA1 | 1 |
chr8:82583270 | p.R261K,IMPA1 | 1 |
chr8:82592988 | p.H100R,IMPA1 | 1 |
chr8:82571638 | p.V238V,IMPA1 | 1 |
chr8:82583273 | p.G94E,IMPA1 | 1 |
chr8:82593018 | p.V234M,IMPA1 | 1 |
chr8:82572755 | p.E51Q,IMPA1 | 1 |
chr8:82586095 | p.W178L,IMPA1 | 1 |
Other DBs for Point Mutations |
Copy Number for IMPA1 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 IMPA1 |
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 |
ARMC1,ATP6V1C1,AZIN1,DPY19L4,RMDN1,FAM91A1,IMPA1, IMPAD1,MTDH,OTUD6B,RB1CC1,SNX16,STAU2,TCEA1, TERF1,TMEM68,TRAM1,EMC2,UBE2W,ZBTB10,ZFAND1 | ABHD13,ARL5A,BRMS1L,C16orf52,C2orf69,EIF1AX,FEM1C, IMPA1,LRRC40,MARCH7,MOB4,MOSPD1,MTMR6,OTUD6B, PLEKHA1,RB1,SLC25A32,SMNDC1,TSNAX,YTHDF3,ZCCHC10 | ||||
AZIN1,CPNE3,DERL1,RMDN1,FAM91A1,HNF4G,IMPA1, LACTB2,MAL2,MTFR1,PEX2,PLEKHF2,RAD21,STK3, TMEM70,TPD52,TRAM1,UBE2W,YTHDF3,YWHAZ,ZFAND1 | ABI1,ARPC4,ARPC5,SPRYD7,CASP3,CDC42,GHITM, GTF2A2,HCCS,IMPA1,MRPS36,MYL12B,NDUFB3,PDCD10, SFT2D1,STX12,TPMT,TSG101,UBE2D3,USMG5,VAMP8 |
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 IMPA1 |
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 |
DB01356 | inositol(myo)-1(or 4)-monophosphatase 1 | approved | Lithium | ||
DB03542 | inositol(myo)-1(or 4)-monophosphatase 1 | experimental | L-Myo-Inositol-1-Phosphate |
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Cross referenced IDs for IMPA1 |
* 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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