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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for FHL2 |
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Phenotypic Information for FHL2(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: FHL2 |
Familial Cancer Database: FHL2 |
* 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_LIPIDS_AND_LIPOPROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: FHL2 |
MedGen: FHL2 (Human Medical Genetics with Condition) | |
ClinVar: FHL2 | |
Phenotype | MGI: FHL2 (International Mouse Phenotyping Consortium) |
PhenomicDB: FHL2 |
Mutations for FHL2 |
* 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 FHL2 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 |
AB024057 | FHL2 | 1 | 441 | 2 | 106002816 | 106015508 | RPL31 | 438 | 4399 | 2 | 101623695 | 101676003 | |
BF844047 | FHL2 | 82 | 103 | 2 | 106025408 | 106025429 | TNKS1BP1 | 92 | 356 | 11 | 57067207 | 57067473 |
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=16) | (# total SNVs=5) |
(# total SNVs=0) | (# 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 |
chr2:105984137-105984137 | p.R131S | 1 |
chr2:106002833-106002833 | p.I47I | 1 |
chr2:105977776-105977776 | p.D268D | 1 |
chr2:105990019-105990019 | p.P110A | 1 |
chr2:106002900-106002900 | p.S25I | 1 |
chr2:105977855-105977855 | p.R242Q | 1 |
chr2:105990056-105990056 | p.Y97* | 1 |
chr2:106002913-106002913 | p.L21L | 1 |
chr2:105977880-105977880 | p.T234A | 1 |
chr2:105990062-105990062 | p.N95K | 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 | 2 |   | 2 |   |   |   |   | 1 |   |   |   | 1 | 1 |   |   | 1 | 2 |   | 3 |
# mutation | 1 | 2 |   | 2 |   |   |   |   | 1 |   |   |   | 1 | 1 |   |   | 1 | 2 |   | 3 |
nonsynonymous SNV |   | 2 |   | 2 |   |   |   |   | 1 |   |   |   | 1 |   |   |   |   | 2 |   | 2 |
synonymous SNV | 1 |   |   |   |   |   |   |   |   |   |   |   |   | 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 |
chr2:106002913 | p.D205Y,FHL2 | 1 |
chr2:105979817 | p.R203R,FHL2 | 1 |
chr2:106002940 | p.R199C,FHL2 | 1 |
chr2:105979821 | p.L195Q,FHL2 | 1 |
chr2:105979835 | p.R131S,FHL2 | 1 |
chr2:105979846 | p.N95K,FHL2 | 1 |
chr2:105984137 | p.N95S,FHL2 | 1 |
chr2:105990062 | p.T90T,FHL2 | 1 |
chr2:105990063 | p.L75L,FHL2 | 1 |
chr2:105990077 | p.S25I,FHL2 | 1 |
Other DBs for Point Mutations |
Copy Number for FHL2 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 FHL2 |
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 |
ATP10A,CLIC5,CLIC6,DOK7,EIF4E1B,FHL2,GADD45A, GPR26,ITPRIPL2,AJUBA,KCNS3,PGR,PLCD3,RAB31, RBBP8,SEMA3B,SUSD3,TMEM26,TUBA3D,UGDH,WT1 | PIFO,FHL2,GPR87,KIF9,KLK5,KLK7,KRT14, KRT17,KRT5,KRT9,MGP,NXT1,PDLIM1,PDLIM4, SF3B4,SFN,TACSTD2,TES,TMEM51,ZNF165,ZYX |
AGR2,ANG,B3GNT5,SMCO4,GSKIP,CYSTM1,MCU, DDB2,EGLN3,FHL2,FOXA3,FUT8,GMDS,FFAR4, LIMA1,MLPH,MRAP2,SEMA4B,TC2N,TRIM16,TSPAN15 | ADRM1,AKIRIN2,BCL10,LURAP1L,CASP5,CD55,DGCR11, FHL2,PLAUR,PSMC4,PSMD12,RAB35,RND1,RNF19B, SEMA4B,SERPINB8,SERTAD1,TNFRSF1A,TRIM15,TRIM40,TTC39B |
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 FHL2 |
There's no related Drug. |
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Cross referenced IDs for FHL2 |
* 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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