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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for RPL22 |
Basic gene info. | Gene symbol | RPL22 |
Gene name | ribosomal protein L22 | |
Synonyms | EAP|HBP15|HBP15/L22|L22 | |
Cytomap | UCSC genome browser: 1p36.31 | |
Genomic location | chr1 :6245079-6259679 | |
Type of gene | protein-coding | |
RefGenes | NM_000983.3, | |
Ensembl id | ENSG00000116251 | |
Description | 60S ribosomal protein L22EBER-associated proteinEpstein-Barr virus small RNA-associated proteinEpstein-Barr-encoded RNA-associated proteinheparin-binding protein 15heparin-binding protein HBp15 | |
Modification date | 20141207 | |
dbXrefs | MIM : 180474 | |
HGNC : HGNC | ||
Ensembl : ENSG00000116251 | ||
HPRD : 01602 | ||
Vega : OTTHUMG00000000953 | ||
Protein | UniProt: P35268 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RPL22 | |
BioGPS: 6146 | ||
Gene Expression Atlas: ENSG00000116251 | ||
The Human Protein Atlas: ENSG00000116251 | ||
Pathway | NCI Pathway Interaction Database: RPL22 | |
KEGG: RPL22 | ||
REACTOME: RPL22 | ||
ConsensusPathDB | ||
Pathway Commons: RPL22 | ||
Metabolism | MetaCyc: RPL22 | |
HUMANCyc: RPL22 | ||
Regulation | Ensembl's Regulation: ENSG00000116251 | |
miRBase: chr1 :6,245,079-6,259,679 | ||
TargetScan: NM_000983 | ||
cisRED: ENSG00000116251 | ||
Context | iHOP: RPL22 | |
cancer metabolism search in PubMed: RPL22 | ||
UCL Cancer Institute: RPL22 | ||
Assigned class in ccmGDB | B - This gene belongs to cancer gene. |
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Phenotypic Information for RPL22(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: RPL22 |
Familial Cancer Database: RPL22 |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in UCEC 6, |
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, 6 http://www.nature.com/nature/journal/v497/n7447/full/nature12113.html, 7Therapeutic 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 | 180474; gene. |
Orphanet | |
Disease | KEGG Disease: RPL22 |
MedGen: RPL22 (Human Medical Genetics with Condition) | |
ClinVar: RPL22 | |
Phenotype | MGI: RPL22 (International Mouse Phenotyping Consortium) |
PhenomicDB: RPL22 |
Mutations for RPL22 |
* 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 RPL22 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 |
BU858788 | MAP3K2 | 3 | 99 | 2 | 128062363 | 128062459 | RPL22 | 93 | 464 | 1 | 6246094 | 6246465 | |
CR738829 | RPL22 | 1 | 314 | 1 | 6245384 | 6245697 | DLC1 | 301 | 703 | 8 | 12940882 | 12941285 | |
BF846664 | RPL22 | 7 | 224 | 1 | 6245823 | 6246042 | PCSK6 | 216 | 525 | 15 | 101870984 | 101871293 |
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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=15) | (# total SNVs=1) |
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(# total SNVs=3) | (# total SNVs=2) |
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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 |
chr1:6257785-6257785 | p.K15fs*5 | 6 |
chr1:6257784-6257785 | p.K16fs*9 | 2 |
chr1:6246808-6246808 | p.A104D | 2 |
chr1:6246877-6246877 | p.? | 2 |
chr1:6259633-6259633 | p.M1L | 2 |
chr1:6257713-6257713 | p.F39Y | 1 |
chr1:6246855-6246855 | p.K88N | 1 |
chr1:6257728-6257728 | p.M34R | 1 |
chr1:6246862-6246862 | p.L86P | 1 |
chr1:6257746-6257746 | p.P28H | 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 |   | 3 |   |   | 1 |   | 1 |   |   | 1 |   | 1 |   |   | 1 |   |   | 4 |
# mutation |   | 1 |   | 3 |   |   | 1 |   | 1 |   |   | 1 |   | 1 |   |   | 1 |   |   | 4 |
nonsynonymous SNV |   |   |   | 2 |   |   | 1 |   | 1 |   |   | 1 |   | 1 |   |   | 1 |   |   | 4 |
synonymous SNV |   | 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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* 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 |
chr1:6253065 | p.F39Y | 1 |
chr1:6253091 | p.G12G | 1 |
chr1:6253107 | p.R101H | 1 |
chr1:6246817 | p.R101C | 1 |
chr1:6257713 | p.R97C | 1 |
chr1:6246818 | p.L96L | 1 |
chr1:6257793 | p.Y90H | 1 |
chr1:6246830 | p.K89T | 1 |
chr1:6246831 | p.K88N | 1 |
chr1:6246851 | p.L86P | 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 RPL22 |
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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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NACA,RPL10A,RPL11,RPL12,RPL17,RPL22,RPL31, RPL34,RPL3,RPL4,RPL5,RPL6,RPL7A,RPLP0, RPS13,RPS18,RPS23,RPS25,RPS4X,RPS6,RPS8 | BTF3,CCT4,EEF1A1,NPM1,RPL15,RPL22,RPL23A, RPL30,RPL32,RPL34,RPL35A,RPL5,RPL6,RPS15A, RPS23,RPS24,RPS27A,RPS3A,RPS4X,RPS6,RPS7 |
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CAMTA1,HNRNPA1,LRRC47,MRTO4,NACA,PARK7,RMND1, RPL11,RPL12,RPL22,RPL34,RPL3,RPL37,RPL37A, RPL5,RPL6,RPS24,RPS25,RPS2,RPS27A,UBIAD1 | CDKAL1,EIF2S3,EIF3H,EIF3L,EIF4B,FBL,HNRNPA1, HNRNPA1L2,IMPDH2,LARS,LTA4H,MATR3,NACA,PAIP2B, RPL11,RPL22,RPL23A,RPL37,RPL7,SMU1,ZNF830 |
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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 RPL22 |
There's no related Drug. |
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Cross referenced IDs for RPL22 |
* 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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