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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SRP72 |
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Phenotypic Information for SRP72(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: SRP72 |
Familial Cancer Database: SRP72 |
* 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/ |
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REACTOME_METABOLISM_OF_PROTEINS |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: SRP72 |
MedGen: SRP72 (Human Medical Genetics with Condition) | |
ClinVar: SRP72 | |
Phenotype | MGI: SRP72 (International Mouse Phenotyping Consortium) |
PhenomicDB: SRP72 |
Mutations for SRP72 |
* 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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- Statistics for Tissue and Mutation type | Top |
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- 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'. |
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Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | SRP72 | chr4 | 57357760 | 57357780 | SRP72 | chr4 | 57357812 | 57357832 |
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) |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows SRP72 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 |
U81554 | CAMK2G | 1 | 165 | 10 | 75597226 | 75602293 | SRP72 | 166 | 910 | 4 | 57349375 | 57357734 | |
CV357489 | OXSR1 | 63 | 88 | 3 | 38289046 | 38289311 | SRP72 | 80 | 184 | 4 | 57338968 | 57339072 |
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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=53) | (# total SNVs=18) |
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(# total SNVs=2) | (# total SNVs=1) |
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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 |
chr4:57333822-57333822 | p.G7G | 3 |
chr4:57350915-57350915 | p.R324L | 3 |
chr4:57356562-57356562 | p.R462W | 3 |
chr4:57361553-57361553 | p.K557K | 2 |
chr4:57349351-57349351 | p.A291V | 2 |
chr4:57337912-57337912 | p.Y86C | 2 |
chr4:57349352-57349352 | p.A291A | 2 |
chr4:57357604-57357604 | p.K504fs*11 | 2 |
chr4:57333838-57333838 | p.A13P | 2 |
chr4:57354125-57354125 | p.S390S | 2 |
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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 |   | 7 |   |   |   |   | 3 |   |   | 4 | 4 | 3 | 1 |   | 1 | 5 | 1 | 12 |
# mutation | 2 | 2 |   | 8 |   |   |   |   | 3 |   |   | 5 | 4 | 3 | 1 |   | 1 | 5 | 1 | 13 |
nonsynonymous SNV | 1 | 1 |   | 7 |   |   |   |   | 2 |   |   | 4 | 2 | 2 | 1 |   |   | 5 | 1 | 11 |
synonymous SNV | 1 | 1 |   | 1 |   |   |   |   | 1 |   |   | 1 | 2 | 1 |   |   | 1 |   |   | 2 |
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 |
chr4:57354131 | p.A331A,SRP72 | 2 |
chr4:57342839 | p.L205I,SRP72 | 2 |
chr4:57354130 | p.K493K,SRP72 | 1 |
chr4:57357655 | p.S139Y,SRP72 | 1 |
chr4:57340275 | p.R263L,SRP72 | 1 |
chr4:57344662 | p.P507Q,SRP72 | 1 |
chr4:57361544 | p.V154L,SRP72 | 1 |
chr4:57340281 | p.P274P,SRP72 | 1 |
chr4:57344766 | p.R520Q,SRP72 | 1 |
chr4:57354175 | p.E167D,SRP72 | 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 SRP72 |
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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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AASDH,ABCE1,NOA1,CEP135,CLOCK,DCUN1D4,EXOC1, FIP1L1,IARS,LARP1B,NAA15,NAA25,PAICS,POLR2B, PPAT,SCFD2,SLC30A6,SMARCA5,SMEK2,SRP72,USP46 | ABCE1,API5,BCLAF1,DDX18,DDX52,DHX40,CFAP97, MATR3,PPAT,PRPF40A,PRRC1,PTBP3,SENP1,SMARCAD1, SRP72,SYNCRIP,TFAM,WAPAL,WDR35,ZNF146,ZNF562 |
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ABCE1,NOA1,C4orf46,CISD2,COPS4,DCK,DHX15, DR1,GRSF1,HMGXB4,NUP54,PAICS,PAQR3,PGM2, POLR2B,PPAT,RCHY1,SRP72,TMEM165,UBE2D3,USP46 | ACTL6A,BRIX1,C4orf46,CCT2,CDK4,DCUN1D5,DDX47, EEF1E1,ENOPH1,EXOSC2,MRPL3,NPM1,NUDCD1,NUP35, POLE3,POT1,PRMT1,PRMT5,PRPF4,SRP72,UBA2 |
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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 SRP72 |
There's no related Drug. |
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Cross referenced IDs for SRP72 |
* 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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