Atlas of Genetics and Cytogenetics in Oncology and Haematology


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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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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CHD7 (chromodomain helicase DNA binding protein 7)

Identity

Other namesCRG
HH5
IS3
KAL5
HGNC (Hugo) CHD7
LocusID (NCBI) 55636
Location 8q12.1
Location_base_pair Starts at 61591324 and ends at 61780586 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

Other Solid tumors implicated (Data extracted from papers in the Atlas)

Solid Tumors AmeloblastomID5945

External links

Nomenclature
HGNC (Hugo)CHD7   20626
Cards
Entrez_Gene (NCBI)CHD7  55636  chromodomain helicase DNA binding protein 7
GeneCards (Weizmann)CHD7
Ensembl hg19 (Hinxton)ENSG00000171316 [Gene_View]  chr8:61591324-61780586 [Contig_View]  CHD7 [Vega]
Ensembl hg38 (Hinxton)ENSG00000171316 [Gene_View]  chr8:61591324-61780586 [Contig_View]  CHD7 [Vega]
ICGC DataPortalENSG00000171316
cBioPortalCHD7
AceView (NCBI)CHD7
Genatlas (Paris)CHD7
WikiGenes55636
SOURCE (Princeton)CHD7
Genomic and cartography
GoldenPath hg19 (UCSC)CHD7  -     chr8:61591324-61780586 +  8q12.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CHD7  -     8q12.1   [Description]    (hg38-Dec_2013)
EnsemblCHD7 - 8q12.1 [CytoView hg19]  CHD7 - 8q12.1 [CytoView hg38]
Mapping of homologs : NCBICHD7 [Mapview hg19]  CHD7 [Mapview hg38]
OMIM189960   214800   608892   612370   
Gene and transcription
Genbank (Entrez)AB037837 AK000364 AK000368 AK123158 AK225354
RefSeq transcript (Entrez)NM_017780
RefSeq genomic (Entrez)NC_000008 NC_018919 NG_007009 NT_008183 NW_004929339
Consensus coding sequences : CCDS (NCBI)CHD7
Cluster EST : UnigeneHs.733236 [ NCBI ]
CGAP (NCI)Hs.733236
Alternative Splicing : Fast-db (Paris)GSHG0029038
Alternative Splicing GalleryENSG00000171316
Gene ExpressionCHD7 [ NCBI-GEO ]     CHD7 [ SEEK ]   CHD7 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9P2D1 (Uniprot)
NextProtQ9P2D1  [Medical]
With graphics : InterProQ9P2D1
Splice isoforms : SwissVarQ9P2D1 (Swissvar)
Catalytic activity : Enzyme3.6.4.12 [ Enzyme-Expasy ]   3.6.4.123.6.4.12 [ IntEnz-EBI ]   3.6.4.12 [ BRENDA ]   3.6.4.12 [ KEGG ]   
Domaine pattern : Prosite (Expaxy)CHROMO_2 (PS50013)    HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)   
Domains : Interpro (EBI)BRK_domain    Chromo_domain    Chromo_domain/shadow    Chromodomain-like    Helicase_ATP-bd    Helicase_C    P-loop_NTPase    SANT/Myb    SNF2_N   
Related proteins : CluSTrQ9P2D1
Domain families : Pfam (Sanger)BRK (PF07533)    Chromo (PF00385)    Helicase_C (PF00271)    SNF2_N (PF00176)   
Domain families : Pfam (NCBI)pfam07533    pfam00385    pfam00271    pfam00176   
Domain families : Smart (EMBL)BRK (SM00592)  CHROMO (SM00298)  DEXDc (SM00487)  HELICc (SM00490)  SANT (SM00717)  
DMDM Disease mutations55636
Blocks (Seattle)Q9P2D1
PDB (SRS)2CKC    2V0E    2V0F   
PDB (PDBSum)2CKC    2V0E    2V0F   
PDB (IMB)2CKC    2V0E    2V0F   
PDB (RSDB)2CKC    2V0E    2V0F   
Human Protein AtlasENSG00000171316
Peptide AtlasQ9P2D1
HPRD10595
IPIIPI00794880   IPI00472901   IPI00983150   IPI00954579   IPI00982953   IPI00982277   
Protein Interaction databases
DIP (DOE-UCLA)Q9P2D1
IntAct (EBI)Q9P2D1
FunCoupENSG00000171316
BioGRIDCHD7
IntegromeDBCHD7
STRING (EMBL)CHD7
Ontologies - Pathways
QuickGOQ9P2D1
Ontology : AmiGOskeletal system development  in utero embryonic development  heart morphogenesis  DNA binding  chromatin binding  helicase activity  protein binding  ATP binding  nucleus  nucleus  nucleoplasm  nucleolus  transcription, DNA-templated  regulation of transcription, DNA-templated  rRNA processing  central nervous system development  adult heart development  sensory perception of sound  adult walking behavior  blood circulation  chromatin modification  cranial nerve development  olfactory nerve development  olfactory bulb development  T cell differentiation  female genitalia development  embryonic hindlimb morphogenesis  positive regulation of multicellular organism growth  olfactory behavior  inner ear morphogenesis  nose development  semicircular canal morphogenesis  genitalia development  artery morphogenesis  regulation of neurogenesis  cognition  palate development  retina development in camera-type eye  regulation of growth hormone secretion  limb development  face development  epithelium development  
Ontology : EGO-EBIskeletal system development  in utero embryonic development  heart morphogenesis  DNA binding  chromatin binding  helicase activity  protein binding  ATP binding  nucleus  nucleus  nucleoplasm  nucleolus  transcription, DNA-templated  regulation of transcription, DNA-templated  rRNA processing  central nervous system development  adult heart development  sensory perception of sound  adult walking behavior  blood circulation  chromatin modification  cranial nerve development  olfactory nerve development  olfactory bulb development  T cell differentiation  female genitalia development  embryonic hindlimb morphogenesis  positive regulation of multicellular organism growth  olfactory behavior  inner ear morphogenesis  nose development  semicircular canal morphogenesis  genitalia development  artery morphogenesis  regulation of neurogenesis  cognition  palate development  retina development in camera-type eye  regulation of growth hormone secretion  limb development  face development  epithelium development  
Protein Interaction DatabaseCHD7
DoCM (Curated mutations)CHD7
Wikipedia pathwaysCHD7
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerCHD7 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CHD7
dbVarCHD7
ClinVarCHD7
1000_GenomesCHD7 
Exome Variant ServerCHD7
SNP (GeneSNP Utah)CHD7
SNP : HGBaseCHD7
Genetic variants : HAPMAPCHD7
Genomic Variants (DGV)CHD7 [DGVbeta]
Mutations
ICGC Data PortalENSG00000171316 
Somatic Mutations in Cancer : COSMICCHD7 
CONAN: Copy Number AnalysisCHD7 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)**PUBLIC** CCHMC Molecular Genetics Laboratory Mutation Database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)8:61591324-61780586
Mutations and Diseases : HGMDCHD7
OMIM189960    214800    608892    612370   
MedgenCHD7
NextProtQ9P2D1 [Medical]
GENETestsCHD7
Disease Genetic AssociationCHD7
Huge Navigator CHD7 [HugePedia]  CHD7 [HugeCancerGEM]
snp3D : Map Gene to Disease55636
DGIdb (Drug Gene Interaction db)CHD7
General knowledge
Homologs : HomoloGeneCHD7
Homology/Alignments : Family Browser (UCSC)CHD7
Phylogenetic Trees/Animal Genes : TreeFamCHD7
Chemical/Protein Interactions : CTD55636
Chemical/Pharm GKB GenePA134948695
Clinical trialCHD7
Cancer Resource (Charite)ENSG00000171316
Other databases
Probes
Litterature
PubMed84 Pubmed reference(s) in Entrez
CoreMineCHD7
GoPubMedCHD7
iHOPCHD7
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 15:02:22 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.