Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for FTH1
Basic gene info.Gene symbolFTH1
Gene nameferritin, heavy polypeptide 1
SynonymsFHC|FTH|FTHL6|HFE5|PIG15|PLIF
CytomapUCSC genome browser: 11q13
Genomic locationchr11 :61731756-61735132
Type of geneprotein-coding
RefGenesNM_002032.2,
Ensembl idENSG00000167996
Descriptionapoferritincell proliferation-inducing gene 15 proteinferritin H subunitferritin heavy chainplacenta immunoregulatory factorproliferation-inducing protein 15
Modification date20141207
dbXrefs MIM : 134770
HGNC : HGNC
Ensembl : ENSG00000167996
HPRD : 00615
Vega : OTTHUMG00000166217
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FTH1
BioGPS: 2495
Gene Expression Atlas: ENSG00000167996
The Human Protein Atlas: ENSG00000167996
PathwayNCI Pathway Interaction Database: FTH1
KEGG: FTH1
REACTOME: FTH1
ConsensusPathDB
Pathway Commons: FTH1
MetabolismMetaCyc: FTH1
HUMANCyc: FTH1
RegulationEnsembl's Regulation: ENSG00000167996
miRBase: chr11 :61,731,756-61,735,132
TargetScan: NM_002032
cisRED: ENSG00000167996
ContextiHOP: FTH1
cancer metabolism search in PubMed: FTH1
UCL Cancer Institute: FTH1
Assigned class in ccmGDBC

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Phenotypic Information for FTH1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: FTH1
Familial Cancer Database: FTH1
* This gene is included in those cancer gene databases.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
KEGG_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: FTH1
MedGen: FTH1 (Human Medical Genetics with Condition)
ClinVar: FTH1
PhenotypeMGI: FTH1 (International Mouse Phenotyping Consortium)
PhenomicDB: FTH1

Mutations for FTH1
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows FTH1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AW020886FTH1865116173203661732093FAM162A663793122126184122128846
BI491844FAM162A12623122126184122128794FTH1263320116173203661732093
CF128359FTH11135116173494761735085CAPNS1135663193663203036637138
DA783643FTH11127116173497761735103BCYRN1123576X7051428770517294
AK054816ORAOV111248116948153769490091FTH112492167116173203861735103
BG506265FTH1176116173502861735103EXTL2665151101338424101338873
BG527923FTH12125116173498161735103AVL912463073305924733102232
AI541104LOC1005074121494?115965116046FTH194466116173251161734924
AK127090SLC16A312846178018692180189766FTH128393621116173203861734967
BC001481BLCAP91289203614645736147737FTH112812185116173203761735089
AK095899PYGO2113061154931216154934512FTH113012034116173203561734915
BQ230476FTH11141116173494361735083FBL139666194032835240331286

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample1                
GAIN (# sample)1                
LOSS (# sample)                 
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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check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=9)
Stat. for Synonymous SNVs
(# total SNVs=2)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

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check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr11:61732984-61732984p.Y40H2
chr11:61732337-61732337p.Y138*1
chr11:61732940-61732950p.N51fs*81
chr11:61732514-61732514p.V111A1
chr11:61732945-61732945p.A53P1
chr11:61732517-61732517p.N110fs*21
chr11:61732975-61732975p.D43N1
chr11:61732558-61732558p.S96S1
chr11:61732243-61732243p.L170V1
chr11:61732559-61732559p.S96I1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1  11       212 23 2
# mutation3  11       212 23 2
nonsynonymous SNV3  1        211 23 2
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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check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr11:61732984p.Y40H2
chr11:61732494p.E95D1
chr11:61732514p.W94L1
chr11:61732559p.D90N1
chr11:61732561p.G79V1
chr11:61732243p.L70P1
chr11:61732565p.E62Q1
chr11:61732251p.L170V1
chr11:61732578p.A167V1
chr11:61732267p.D16N1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for FTH1 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 FTH1

check002.gifGene 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.

check002.gifDifferential 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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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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Gene-Gene Network Information
check002.gifCo-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

: Open all plots for all cancer types

AP2S1,ATOX1,TMEM258,LBHD1___C11orf98,UQCC3,COX8A,FTH1,
FTH1P3,FTL,GPX1,LINC00152,NUDT22,POLR2G,PRDX5,
RNF181,SDHAF2,SSSCA1,STX5,TMEM179B,UBXN1,VEGFB
ANXA2,ARPC2,BRI3,C1QA,CAPNS1,CD63,COTL1,
CRYL1,CSTB,FCGRT,FOLR2,FTH1,FTL,COLGALT1,
GMFG,RNASE1,S100A10,S100A6,SH3BGRL3,TMSB4XP8,VKORC1

B3GAT3,BRI3,CHMP1A,COMMD9,COX8A,FADS3,FTH1,
FTH1P3,GBAP1,HS1BP3,OSGIN1,PQLC2,RFNG,RHOD,
SIRT6,SQSTM1,TALDO1,TIAF1,TOM1,ZDHHC24,ZFPL1
ACAA1,C1orf106,C2CD2L,CDKN2B,CHMP4B,CTSD,FTH1,
FTH1P3,MAST2,PLEKHG6,PNPLA2,PRKCD,SERINC2,SMPDL3A,
SPINT1,SPINT2,TICAM1,TNIP1,TRPM6,VILL,ZBTB7B
check002.gifCo-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

: Open all plots for all cancer types

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check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

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Pharmacological Information for FTH1
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00563ferritin, heavy polypeptide 1approvedMethotrexate


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Cross referenced IDs for FTH1
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



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