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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for RPL36A |
Basic gene info. | Gene symbol | RPL36A |
Gene name | ribosomal protein L36a | |
Synonyms | L36A|L44L|MIG6|RPL44 | |
Cytomap | UCSC genome browser: Xq22.1 | |
Genomic location | chrX :100645877-100651142 | |
Type of gene | protein-coding | |
RefGenes | NM_001199972.1, NM_021029.5, | |
Ensembl id | ENSG00000269315 | |
Description | 60S ribosomal protein L36a60S ribosomal protein L44L44-like ribosomal proteincell growth-inhibiting gene 15 proteincell migration-inducing gene 6 proteindJ164F3.3 (ribosomal protein L44) | |
Modification date | 20141207 | |
dbXrefs | MIM : 300902 | |
HGNC : HGNC | ||
Ensembl : ENSG00000241343 | ||
HPRD : 06709 | ||
Vega : OTTHUMG00000022027 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RPL36A | |
BioGPS: 6173 | ||
Gene Expression Atlas: ENSG00000269315 | ||
The Human Protein Atlas: ENSG00000269315 | ||
Pathway | NCI Pathway Interaction Database: RPL36A | |
KEGG: RPL36A | ||
REACTOME: RPL36A | ||
ConsensusPathDB | ||
Pathway Commons: RPL36A | ||
Metabolism | MetaCyc: RPL36A | |
HUMANCyc: RPL36A | ||
Regulation | Ensembl's Regulation: ENSG00000269315 | |
miRBase: chrX :100,645,877-100,651,142 | ||
TargetScan: NM_001199972 | ||
cisRED: ENSG00000269315 | ||
Context | iHOP: RPL36A | |
cancer metabolism search in PubMed: RPL36A | ||
UCL Cancer Institute: RPL36A | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for RPL36A(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: RPL36A |
Familial Cancer Database: RPL36A |
* 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_MRNA REACTOME_METABOLISM_OF_RNA |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: RPL36A |
MedGen: RPL36A (Human Medical Genetics with Condition) | |
ClinVar: RPL36A | |
Phenotype | MGI: RPL36A (International Mouse Phenotyping Consortium) |
PhenomicDB: RPL36A |
Mutations for RPL36A |
* 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 RPL36A 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 |
BE540117 | ZNF195 | 1 | 257 | 11 | 3381262 | 3381519 | RPL36A | 252 | 624 | X | 100645962 | 100650446 |
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=5) | (# total SNVs=4) |
(# total SNVs=0) | (# total SNVs=2) |
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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 |
chr23:100646742-100646742 | p.? | 2 |
chr23:100646036-100646036 | p.? | 2 |
chr23:100650445-100650445 | p.K100K | 2 |
chr23:100646510-100646511 | p.T24fs*19 | 1 |
chr23:100646511-100646512 | p.T24fs*19 | 1 |
chr23:100646748-100646748 | p.R39W | 1 |
chr23:100646780-100646780 | p.G49G | 1 |
chr23:100646803-100646803 | p.R57Q | 1 |
chr23:100646034-100646034 | p.M1I | 1 |
chr23:100646812-100646812 | p.? | 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 |   |
# mutation |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | 1 |   |
nonsynonymous SNV |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | 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 |
chrX:100650727 | p.I140I | 1 |
Other DBs for Point Mutations |
Copy Number for RPL36A 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 RPL36A |
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 |
CDCA3,EIF5AL1,FAM136A,LYAR,MRPL9,NOP2,NPM3, PFDN2,PUS1,RPL35A,RPL36A,RPS24,RPS2,RPS7, SF3B14,SNHG1,SNHG3,SNRPA,TIMM8A,UCK2,UQCRH | AHCY,ZFAS1,FAM83A,GINS2,GNB2L1,IMPDH2,DANCR, NPM1,PRPS2,RPL10A,RPL12,RPL36A,RPS18,RPS24, RPS4X,S100A14,SMPDL3B,NELFCD,TPRXL,TSPAN1,WNT4 |
HIST1H4K,LCE2B,LOC100132247,LOC613037,FTX,OR6N2,OR8B3, POTEE,PPIAL4G,PRAMEF17,PRAMEF3,RPL13AP20,RPL13AP6,RPL21, RPL36A,RPL39,RPS26P11,RPSAP9,SNORA38,SNORD16,SNORD35B, SNORD88C,TBC1 | ATAD5,BLM,BRIP1,RMI2,ZGRF1,CHAF1B,CHEK1, CSTF3,DTL,EHF,FAM111B,GPX2,JAK2,KNTC1, LOC100129066,MCM7,RPL36A,SHCBP1,TIFA,TMEM173,TYMS |
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 RPL36A |
There's no related Drug. |
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Cross referenced IDs for RPL36A |
* 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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