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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret jlhuret@AtlasGeneticsOncology.org
Donations are also welcome
If each casual visitor gives 3 Euros or Dollars, the Atlas is saved in a week !
If each professional gives 100 Euros or Dollars once a year (now), the Atlas is saved in 2 weeks !
Don't let the Atlas imminent demise
Note: we send fiscal receipts for donations equal or above 50 Euros or Dollars

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FGD4 (FYVE, RhoGEF and PH domain containing 4)

Identity

Other namesCMT4H
FRABP
ZFYVE6
HGNC (Hugo) FGD4
LocusID (NCBI) 121512
Location 12p11.21
Location_base_pair Starts at 32687227 and ends at 32798984 bp from pter ( according to hg19-Feb_2009)
Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)FGD4   19125
Cards
Entrez_Gene (NCBI)FGD4  121512  FYVE, RhoGEF and PH domain containing 4
GeneCards (Weizmann)FGD4
Ensembl hg19 (Hinxton)ENSG00000139132 [Gene_View]  chr12:32687227-32798984 [Contig_View]  FGD4 [Vega]
Ensembl hg38 (Hinxton)ENSG00000139132 [Gene_View]  chr12:32687227-32798984 [Contig_View]  FGD4 [Vega]
ICGC DataPortalENSG00000139132
cBioPortalFGD4
AceView (NCBI)FGD4
Genatlas (Paris)FGD4
WikiGenes121512
SOURCE (Princeton)FGD4
Genomic and cartography
GoldenPath hg19 (UCSC)FGD4  -     chr12:32687227-32798984 +  12p11.21   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)FGD4  -     12p11.21   [Description]    (hg38-Dec_2013)
EnsemblFGD4 - 12p11.21 [CytoView hg19]  FGD4 - 12p11.21 [CytoView hg38]
Mapping of homologs : NCBIFGD4 [Mapview hg19]  FGD4 [Mapview hg38]
OMIM609311   611104   
Gene and transcription
Genbank (Entrez)AK057294 AK091689 AK124654 AK297025 AK303334
RefSeq transcript (Entrez)NM_001304480 NM_001304481 NM_001304483 NM_001304484 NM_139241
RefSeq genomic (Entrez)NC_000012 NC_018923 NG_008626 NT_009714 NW_004929383
Consensus coding sequences : CCDS (NCBI)FGD4
Cluster EST : UnigeneHs.117835 [ NCBI ]
CGAP (NCI)Hs.117835
Alternative Splicing : Fast-db (Paris)GSHG0006579
Alternative Splicing GalleryENSG00000139132
Gene ExpressionFGD4 [ NCBI-GEO ]     FGD4 [ SEEK ]   FGD4 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96M96 (Uniprot)
NextProtQ96M96  [Medical]
With graphics : InterProQ96M96
Splice isoforms : SwissVarQ96M96 (Swissvar)
Domaine pattern : Prosite (Expaxy)DH_2 (PS50010)    PH_DOMAIN (PS50003)    ZF_FYVE (PS50178)   
Domains : Interpro (EBI)DH-domain    PH_domain    PH_like_dom    Znf_FYVE    Znf_FYVE-rel    Znf_RING/FYVE/PHD   
Related proteins : CluSTrQ96M96
Domain families : Pfam (Sanger)FYVE (PF01363)    PH (PF00169)    RhoGEF (PF00621)   
Domain families : Pfam (NCBI)pfam01363    pfam00169    pfam00621   
Domain families : Smart (EMBL)FYVE (SM00064)  PH (SM00233)  RhoGEF (SM00325)  
DMDM Disease mutations121512
Blocks (Seattle)Q96M96
Human Protein AtlasENSG00000139132
Peptide AtlasQ96M96
HPRD16891
IPIIPI00065435   IPI00940940   IPI00429579   IPI01009704   IPI01022292   IPI01021852   IPI01022310   IPI00554726   IPI00983851   IPI00980854   IPI00980605   IPI00982642   
Protein Interaction databases
DIP (DOE-UCLA)Q96M96
IntAct (EBI)Q96M96
FunCoupENSG00000139132
BioGRIDFGD4
IntegromeDBFGD4
STRING (EMBL)FGD4
Ontologies - Pathways
QuickGOQ96M96
Ontology : AmiGOruffle  actin binding  guanyl-nucleotide exchange factor activity  Rho guanyl-nucleotide exchange factor activity  cytoplasm  Golgi apparatus  cytosol  cytoskeleton organization  small GTPase mediated signal transduction  regulation of cell shape  actin cytoskeleton  lamellipodium  lamellipodium assembly  microspike assembly  actin cytoskeleton organization  filopodium  small GTPase binding  positive regulation of apoptotic process  regulation of GTPase activity  positive regulation of GTPase activity  positive regulation of GTPase activity  filopodium assembly  metal ion binding  neurotrophin TRK receptor signaling pathway  regulation of small GTPase mediated signal transduction  apoptotic signaling pathway  
Ontology : EGO-EBIruffle  actin binding  guanyl-nucleotide exchange factor activity  Rho guanyl-nucleotide exchange factor activity  cytoplasm  Golgi apparatus  cytosol  cytoskeleton organization  small GTPase mediated signal transduction  regulation of cell shape  actin cytoskeleton  lamellipodium  lamellipodium assembly  microspike assembly  actin cytoskeleton organization  filopodium  small GTPase binding  positive regulation of apoptotic process  regulation of GTPase activity  positive regulation of GTPase activity  positive regulation of GTPase activity  filopodium assembly  metal ion binding  neurotrophin TRK receptor signaling pathway  regulation of small GTPase mediated signal transduction  apoptotic signaling pathway  
Protein Interaction DatabaseFGD4
DoCM (Curated mutations)FGD4
Wikipedia pathwaysFGD4
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerFGD4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)FGD4
dbVarFGD4
ClinVarFGD4
1000_GenomesFGD4 
Exome Variant ServerFGD4
SNP (GeneSNP Utah)FGD4
SNP : HGBaseFGD4
Genetic variants : HAPMAPFGD4
Genomic Variants (DGV)FGD4 [DGVbeta]
Mutations
ICGC Data PortalENSG00000139132 
Somatic Mutations in Cancer : COSMICFGD4 
CONAN: Copy Number AnalysisFGD4 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)Leiden Muscular Dystrophy pages
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)12:32687227-32798984
Mutations and Diseases : HGMDFGD4
OMIM609311    611104   
MedgenFGD4
NextProtQ96M96 [Medical]
GENETestsFGD4
Disease Genetic AssociationFGD4
Huge Navigator FGD4 [HugePedia]  FGD4 [HugeCancerGEM]
snp3D : Map Gene to Disease121512
DGIdb (Drug Gene Interaction db)FGD4
General knowledge
Homologs : HomoloGeneFGD4
Homology/Alignments : Family Browser (UCSC)FGD4
Phylogenetic Trees/Animal Genes : TreeFamFGD4
Chemical/Protein Interactions : CTD121512
Chemical/Pharm GKB GenePA134907925
Clinical trialFGD4
Cancer Resource (Charite)ENSG00000139132
Other databases
Probes
Litterature
PubMed24 Pubmed reference(s) in Entrez
CoreMineFGD4
GoPubMedFGD4
iHOPFGD4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Mar 28 15:24:06 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.