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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SAR1B |
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Phenotypic Information for SAR1B(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: SAR1B |
Familial Cancer Database: SAR1B |
* 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 | |
REACTOME_METABOLISM_OF_PROTEINS REACTOME_METABOLISM_OF_LIPIDS_AND_LIPOPROTEINS REACTOME_LIPOPROTEIN_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: SAR1B |
MedGen: SAR1B (Human Medical Genetics with Condition) | |
ClinVar: SAR1B | |
Phenotype | MGI: SAR1B (International Mouse Phenotyping Consortium) |
PhenomicDB: SAR1B |
Mutations for SAR1B |
* 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 SAR1B 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 |
AA491604 | SAR1B | 1 | 70 | 5 | 133936852 | 133936921 | SAR1B | 66 | 333 | 5 | 133936917 | 133937184 | |
CN421624 | SAR1B | 1 | 73 | 5 | 133938876 | 133938949 | KLF12 | 68 | 729 | 13 | 74263123 | 74263784 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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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=14) | (# total SNVs=4) |
(# 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 |
chr5:133945277-133945277 | p.S111* | 2 |
chr5:133942704-133942704 | p.C178F | 2 |
chr5:133956626-133956626 | p.P59S | 1 |
chr5:133945293-133945293 | p.E106K | 1 |
chr5:133956668-133956668 | p.L45L | 1 |
chr5:133942678-133942678 | p.G187R | 1 |
chr5:133945325-133945325 | p.G95A | 1 |
chr5:133956708-133956708 | p.L31L | 1 |
chr5:133945342-133945342 | p.Y89Y | 1 |
chr5:133942733-133942733 | p.L168L | 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 | 1 |   |   | 1 |   |   |   |   | 2 |   |   | 2 | 1 |   |   |   |   | 3 |   | 5 |
# mutation | 1 |   |   | 1 |   |   |   |   | 2 |   |   | 2 | 1 |   |   |   |   | 3 |   | 6 |
nonsynonymous SNV |   |   |   |   |   |   |   |   | 2 |   |   | 1 | 1 |   |   |   |   | 2 |   | 5 |
synonymous SNV | 1 |   |   | 1 |   |   |   |   |   |   |   | 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]) |
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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 |
chr5:133948388 | p.F74C,SAR1B | 1 |
chr5:133948399 | p.T70P,SAR1B | 1 |
chr5:133942678 | p.I66I,SAR1B | 1 |
chr5:133948404 | p.E63V,SAR1B | 1 |
chr5:133942682 | p.L31L,SAR1B | 1 |
chr5:133948417 | p.G187R,SAR1B | 1 |
chr5:133942733 | p.G185G,SAR1B | 1 |
chr5:133948427 | p.L168L,SAR1B | 1 |
chr5:133942748 | p.I163M,SAR1B | 1 |
chr5:133948437 | p.T157S,SAR1B | 1 |
Other DBs for Point Mutations |
Copy Number for SAR1B 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 SAR1B |
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 |
SMIM15,COMMD10,CSNK1A1,ELMOD2,FAF2,HSPA9,MARVELD2, MED7,MRPS36,PGGT1B,PPP2CA,PRRC1,RIOK2,RNF14, SAR1B,SKP1,SRP19,TAF9,TMED7,TMEM167A,YIPF5 | ACADM,IDI2-AS1,CCDC141,CECR2,CRAT,CUL4A,DCAF6, DNAJA4,KLHL31,KPNA1,MFN2,NDUFAF1,NDUFS1,SAR1B, SIX1,SLC38A4,TACC2,UBE2G1,UBR3,VDAC1,ZYG11B |
GSKIP,C14orf142,CALM2,CNIH1,COX7A2,FAM118B,HIGD1A, MRPL22,MRPS36,NDUFA2,NDUFB5,NDUFB6,PPP2CA,RAP1B, SAR1B,SDHD,SELT,TIMM8B,UQCRQ,VPS29,ZCCHC10 | AK2,ATP5J,COX14,CD58,CNIH1,COX7B,DPH3, ELMOD2,FAM32A,LACTB2,MRPS36,NDUFB6,SAR1B,SDHAF2, SF3B14,SLC25A16,SUCLG1,EMC3,TMEM62,ZBTB8OS,ZDHHC6 |
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 SAR1B |
There's no related Drug. |
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Cross referenced IDs for SAR1B |
* 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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