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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for RPS7 |
Basic gene info. | Gene symbol | RPS7 |
Gene name | ribosomal protein S7 | |
Synonyms | DBA8|S7 | |
Cytomap | UCSC genome browser: 2p25 | |
Genomic location | chr2 :3622852-3628509 | |
Type of gene | protein-coding | |
RefGenes | NM_001011.3, | |
Ensembl id | ENSG00000171863 | |
Description | 40S ribosomal protein S7 | |
Modification date | 20141219 | |
dbXrefs | MIM : 603658 | |
HGNC : HGNC | ||
Ensembl : ENSG00000171863 | ||
HPRD : 04712 | ||
Vega : OTTHUMG00000090305 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RPS7 | |
BioGPS: 6201 | ||
Gene Expression Atlas: ENSG00000171863 | ||
The Human Protein Atlas: ENSG00000171863 | ||
Pathway | NCI Pathway Interaction Database: RPS7 | |
KEGG: RPS7 | ||
REACTOME: RPS7 | ||
ConsensusPathDB | ||
Pathway Commons: RPS7 | ||
Metabolism | MetaCyc: RPS7 | |
HUMANCyc: RPS7 | ||
Regulation | Ensembl's Regulation: ENSG00000171863 | |
miRBase: chr2 :3,622,852-3,628,509 | ||
TargetScan: NM_001011 | ||
cisRED: ENSG00000171863 | ||
Context | iHOP: RPS7 | |
cancer metabolism search in PubMed: RPS7 | ||
UCL Cancer Institute: RPS7 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for RPS7(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: RPS7 |
Familial Cancer Database: RPS7 |
* 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 REACTOME_METABOLISM_OF_MRNA REACTOME_METABOLISM_OF_RNA |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: RPS7 |
MedGen: RPS7 (Human Medical Genetics with Condition) | |
ClinVar: RPS7 | |
Phenotype | MGI: RPS7 (International Mouse Phenotyping Consortium) |
PhenomicDB: RPS7 |
Mutations for RPS7 |
* 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 RPS7 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 |
BP272543 | ATP6V0D1 | 1 | 310 | 16 | 67487514 | 67515062 | RPS7 | 308 | 370 | 2 | 3623414 | 3623476 | |
U16258 | RPS7 | 1 | 256 | 2 | 3623189 | 3624177 | TONSL | 254 | 1804 | 8 | 145661993 | 145668562 |
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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=9) | (# total SNVs=2) |
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(# total SNVs=0) | (# 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 |
chr2:3627805-3627805 | p.I154I | 2 |
chr2:3627755-3627755 | p.E138K | 2 |
chr2:3623448-3623448 | p.Q39H | 1 |
chr2:3627776-3627776 | p.R145C | 1 |
chr2:3623453-3623453 | p.R41K | 1 |
chr2:3627792-3627792 | p.G150D | 1 |
chr2:3623475-3623475 | p.A48A | 1 |
chr2:3627799-3627799 | p.R152R | 1 |
chr2:3624082-3624082 | p.I51I | 1 |
chr2:3624153-3624153 | p.I75T | 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 | 2 |   |   | 1 |   |   |   |   |   |   |   | 2 |   |   |   |   | 4 | 2 |   | 4 |
# mutation | 2 |   |   | 1 |   |   |   |   |   |   |   | 2 |   |   |   |   | 4 | 2 |   | 3 |
nonsynonymous SNV | 1 |   |   | 1 |   |   |   |   |   |   |   |   |   |   |   |   | 4 |   |   | 3 |
synonymous SNV | 1 |   |   |   |   |   |   |   |   |   |   | 2 |   |   |   |   |   | 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 |
chr2:3627755 | p.E138K | 2 |
chr2:3627805 | p.I154M | 2 |
chr2:3623453 | p.Q39H | 1 |
chr2:3628456 | p.R41K | 1 |
chr2:3624124 | p.P65P | 1 |
chr2:3624207 | p.V93A | 1 |
chr2:3627748 | p.F135F | 1 |
chr2:3627776 | p.R145C | 1 |
chr2:3627792 | p.G150D | 1 |
chr2:3627799 | p.R152R | 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 RPS7 |
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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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RPL11,RPL24,RPL27A,RPL31,RPL32,RPL35A,RPL37, RPL37A,RPL5,RPL6,RPLP2,RPS10,RPS18,RPS19, RPS27A,RPS6,RPS7,RPS8,SF3B14,SNRPA,UQCRH | RPL10,RPL12,RPL14,RPL22,RPL24,RPL32,RPL35A, RPL37,RPL41,RPL4,RPL5,RPL6,RPLP0,RPS12, RPS23,RPS24,RPS3A,RPS4X,RPS6,RPS7,RPS8 |
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COA5,DPY30,EEF1B2,RPL10A,RPL24,RPL27,RPL31, RPL32,RPL35,RPL36,RPL37A,RPL5,RPS10,RPS14, RPS15A,RPS18,RPS21,RPS3,RPS6,RPS7,RPS8 | C12orf29,KANSL2,COMMD10,DPY30,EEF1B2,HSCB,MED28, PRDX3,RPL24,RPL35,RPL5,RPS14,RPS18,RPS3A, RPS6,RPS7,RPS8,RSL24D1,SNRPD2,TMEM14B,ZFAND1 |
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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 RPS7 |
There's no related Drug. |
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Cross referenced IDs for RPS7 |
* 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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