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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for RPS24 |
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Phenotypic Information for RPS24(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: RPS24 |
Familial Cancer Database: RPS24 |
* 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: RPS24 |
MedGen: RPS24 (Human Medical Genetics with Condition) | |
ClinVar: RPS24 | |
Phenotype | MGI: RPS24 (International Mouse Phenotyping Consortium) |
PhenomicDB: RPS24 |
Mutations for RPS24 |
* 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 |
pancreas | RPS24 | chr10 | 79801672 | 79801692 | chr10 | 83618878 | 83618898 | |
pancreas | RPS24 | chr10 | 79816142 | 79816162 | RPS24 | chr10 | 79816192 | 79816212 |
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 RPS24 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 |
BQ027949 | RPS24 | 18 | 314 | 10 | 79795400 | 79800455 | CLASP1 | 310 | 560 | 2 | 122122756 | 122125309 | |
AI908980 | RPS23 | 14 | 188 | 5 | 81573514 | 81574155 | RPS24 | 189 | 253 | 10 | 79799960 | 79800413 | |
AW838568 | RPS24 | 66 | 402 | 10 | 79795105 | 79797006 | PMPCB | 397 | 501 | 7 | 102963027 | 102963201 | |
BU153261 | IDH1 | 94 | 480 | 2 | 209104672 | 209108329 | RPS24 | 471 | 772 | 10 | 79795397 | 79800459 | |
BG489521 | RPS24 | 10 | 84 | 10 | 79797037 | 79800399 | LUZP1 | 82 | 794 | 1 | 23420165 | 23420874 | |
AW838567 | RPS24 | 52 | 389 | 10 | 79795104 | 79797006 | PMPCB | 384 | 488 | 7 | 102963027 | 102963201 | |
BG287995 | SMAP2 | 2 | 239 | 1 | 40882518 | 40882755 | RPS24 | 231 | 297 | 10 | 79800389 | 79800455 | |
M31520 | RPS27 | 1 | 116 | 1 | 153964127 | 153964629 | RPS24 | 106 | 620 | 10 | 79793623 | 79800460 | |
AA535098 | RPS24 | 1 | 165 | 10 | 79797005 | 79800454 | CTNND1 | 164 | 373 | 11 | 57575661 | 57575966 | |
CF130069 | RPS24 | 53 | 155 | 10 | 79799964 | 79800455 | LOC100134368 | 149 | 207 | 16 | 437240 | 437298 | |
AI826669 | RPS24 | 2 | 156 | 10 | 79797031 | 79800455 | CLSTN2 | 152 | 283 | 3 | 139768311 | 139768442 | |
AI810209 | RPS24 | 2 | 156 | 10 | 79797031 | 79800455 | CLSTN2 | 152 | 283 | 3 | 139768311 | 139768442 | |
AW130504 | RPS24 | 1 | 280 | 10 | 79800107 | 79800385 | RPS24 | 275 | 340 | 10 | 79800088 | 79800153 | |
BG621223 | PAPPA | 1 | 325 | 9 | 119139912 | 119140236 | RPS24 | 313 | 462 | 10 | 79797017 | 79800454 | |
N33853 | RPS24 | 1 | 329 | 10 | 79795369 | 79800454 | CPEB2 | 324 | 390 | 4 | 15068957 | 15069023 |
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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 |   |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   | |||
LOSS (# sample) | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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Stat. for Non-Synonymous SNVs (# total SNVs=13) | (# total SNVs=1) |
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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 |
chr10:79797001-79797001 | p.R110H | 3 |
chr10:79795125-79795125 | p.I7V | 2 |
chr10:79793660-79793660 | p.M1L | 1 |
chr10:79796974-79796974 | p.K101R | 1 |
chr10:79795119-79795119 | p.V5I | 1 |
chr10:79796976-79796976 | p.T102A | 1 |
chr10:79795304-79795304 | p.V35V | 1 |
chr10:79797042-79797042 | p.N124D | 1 |
chr10:79795312-79795312 | p.T38R | 1 |
chr10:79795341-79795341 | p.Y48N | 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 |   |   |   |   |   | 1 |   |   |   | 1 |   |   | 1 | 2 |   | 3 |
# mutation |   |   |   | 1 |   |   |   |   |   | 1 |   |   |   | 1 |   |   | 1 | 2 |   | 2 |
nonsynonymous SNV |   |   |   | 1 |   |   |   |   |   | 1 |   |   |   | 1 |   |   | 1 | 1 |   | 2 |
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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* 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 |
chr10:79797001 | p.R110H,RPS24 | 2 |
chr10:79795119 | p.V5I,RPS24 | 1 |
chr10:79795304 | p.V35V,RPS24 | 1 |
chr10:79795312 | p.T38R,RPS24 | 1 |
chr10:79795386 | p.H63Y,RPS24 | 1 |
chr10:79796974 | p.K101R,RPS24 | 1 |
chr10:79797042 | p.N124D,RPS24 | 1 |
chr10:79814360 | p.K154N | 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 RPS24 |
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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,RPL11,RPL12,RPL24,RPL27A,RPL29,RPL31, RPL32,RPL35A,RPL37,RPL38,RPL39,RPL6,RPL7A, RPS11,RPS18,RPS19,RPS24,RPS2,RPS7,RPS8 | BTF3,RPL12,RPL22,RPL24,RPL26,RPL27A,RPL30, RPL32,RPL35A,RPL38,RPL41,RPL5,RPL6,RPS11, RPS15A,RPS24,RPS25,RPS29,RPS3A,RPS4X,RPS7 |
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NACA,RPL11,RPL12,RPL14,RPL26,RPL29,RPL31, RPL32,RPL34,RPL35A,RPL37,RPL37A,RPL6,RPL7A, RPS13,RPS18,RPS23,RPS24,RPS25,RPS27A,RPS6 | C12orf57,EEF1A1P9,HSCB,MED28,RPL12,RPL15,RPL19, RPL24,RPL32,RPL35A,RPL41,RPL5,RPL6,RPL7, RPL7A,RPS11,RPS13,RPS24,RPS25,RPS6,ZNF22 |
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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 RPS24 |
There's no related Drug. |
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Cross referenced IDs for RPS24 |
* 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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