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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for RPS14 |
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Phenotypic Information for RPS14(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: RPS14 |
Familial Cancer Database: RPS14 |
* 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: RPS14 |
MedGen: RPS14 (Human Medical Genetics with Condition) | |
ClinVar: RPS14 | |
Phenotype | MGI: RPS14 (International Mouse Phenotyping Consortium) |
PhenomicDB: RPS14 |
Mutations for RPS14 |
* 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 RPS14 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 |
AF116710 | WDR26 | 1 | 608 | 1 | 224613921 | 224614528 | RPS14 | 600 | 1134 | 5 | 149823801 | 149829294 | |
BU602070 | RPS14 | 4 | 348 | 5 | 149826368 | 149829300 | RPS19 | 348 | 482 | 19 | 42373271 | 42375484 | |
AA450315 | HDLBP | 1 | 426 | 2 | 242176108 | 242179226 | RPS14 | 418 | 481 | 5 | 149823849 | 149823912 | |
BM680717 | RPS14 | 19 | 128 | 5 | 149823798 | 149823906 | WDR6 | 127 | 730 | 3 | 49050384 | 49050987 | |
CN271804 | METTL4 | 25 | 206 | 18 | 2542393 | 2542574 | RPS14 | 197 | 278 | 5 | 149823801 | 149823882 |
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=9) | (# total SNVs=5) |
(# total SNVs=1) | (# 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 |
chr5:149826426-149826426 | p.R84G | 2 |
chr5:149826385-149826385 | p.L97L | 2 |
chr5:149826424-149826424 | p.R84R | 1 |
chr5:149827277-149827277 | p.K7R | 1 |
chr5:149826448-149826448 | p.L76F | 1 |
chr5:149826455-149826455 | p.A74G | 1 |
chr5:149823883-149823883 | p.R141H | 1 |
chr5:149826457-149826467 | p.S70fs*31 | 1 |
chr5:149825182-149825182 | p.I126I | 1 |
chr5:149826502-149826502 | p.G58G | 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 |   | 2 |   | 2 |   |   |   |   | 1 | 1 |   | 1 |   |   |   |   | 2 | 2 |   |   |
# mutation |   | 2 |   | 1 |   |   |   |   | 1 | 1 |   | 1 |   |   |   |   | 1 | 2 |   |   |
nonsynonymous SNV |   | 1 |   | 1 |   |   |   |   | 1 | 1 |   |   |   |   |   |   |   | 2 |   |   |
synonymous SNV |   | 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 |
chr5:149826385 | p.L97L,RPS14 | 2 |
chr5:149826426 | p.R84G,RPS14 | 2 |
chr5:149827271 | p.I126I,RPS14 | 1 |
chr5:149827277 | p.R98W,RPS14 | 1 |
chr5:149825182 | p.I90I,RPS14 | 1 |
chr5:149826384 | p.L76F,RPS14 | 1 |
chr5:149826406 | p.A74G,RPS14 | 1 |
chr5:149826448 | p.K9R,RPS14 | 1 |
chr5:149826455 | p.K7R,RPS14 | 1 |
Other DBs for Point Mutations |
Copy Number for RPS14 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 RPS14 |
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 |
GNB2L1,PFDN5,RPL10,RPL10A,RPL11,RPL13A,RPL18, RPL24,RPL27A,RPL29,RPL31,RPL32,RPL34,RPL37A, RPL7A,RPS11,RPS14,RPS23,RPS4X,RPS8,RPS9 | EEF1B2,GNB2L1,RPL10,RPL10A,RPL12,RPL13,RPL13A, RPL14,RPL18,RPL19,RPL24,RPL29,RPL37,RPL7A, RPLP0,RPS11,RPS14,RPS2,RPS3,RPS6,RPS8 |
EEF1B2,HINT1,RPL10A,RPL15,RPL29,RPL32,RPL36, RPS10,RPS11,RPS14,RPS15A,RPS18,RPS23,RPS3, RPS3A,RPS6,RPS7,RPS8,RPS9,RPSA,RPSAP58 | ATRAID,EEF1B2,MRPL43,LRRC75A-AS1,RPL24,RPL27A,RPL35, RPS10,RPS11,RPS13,RPS14,RPS18,RPS21,RPS3, RPS3A,RPS5,RPS6,RPS7,RPS8,TMEM14B,TPT1 |
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 RPS14 |
There's no related Drug. |
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Cross referenced IDs for RPS14 |
* 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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