Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CHD1 (chromodomain helicase DNA binding protein 1)

Identity

Other alias-
HGNC (Hugo) CHD1
LocusID (NCBI) 1105
Atlas_Id 43208
Location 5q15  [Link to chromosome band 5q15]
Location_base_pair Starts at 98855204 and ends at 98926534 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CAPNS1 (19q13.12) / CHD1 (5q15)CHD1 (5q15) / MTOR (1p36.22)CHD1 (5q15) / RPSA (3p22.1)
FUS (16p11.2) / CHD1 (5q15)GPM6B (Xp22.2) / CHD1 (5q15)S100P (4p16.1) / CHD1 (5q15)
CAPNS1 19q13.12 / CHD1 5q15CHD1 5q15 / MTOR 1p36.22FUS 16p11.2 / CHD1 5q15
GPM6B Xp22.2 / CHD1 5q15S100P 4p16.1 / CHD1 5q15

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)CHD1   1915
Cards
Entrez_Gene (NCBI)CHD1  1105  chromodomain helicase DNA binding protein 1
Aliases
GeneCards (Weizmann)CHD1
Ensembl hg19 (Hinxton)ENSG00000153922 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000153922 [Gene_View]  chr5:98855204-98926534 [Contig_View]  CHD1 [Vega]
ICGC DataPortalENSG00000153922
TCGA cBioPortalCHD1
AceView (NCBI)CHD1
Genatlas (Paris)CHD1
WikiGenes1105
SOURCE (Princeton)CHD1
Genetics Home Reference (NIH)CHD1
Genomic and cartography
GoldenPath hg38 (UCSC)CHD1  -     chr5:98855204-98926534 -  5q15   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CHD1  -     5q15   [Description]    (hg19-Feb_2009)
EnsemblCHD1 - 5q15 [CytoView hg19]  CHD1 - 5q15 [CytoView hg38]
Mapping of homologs : NCBICHD1 [Mapview hg19]  CHD1 [Mapview hg38]
OMIM602118   
Gene and transcription
Genbank (Entrez)AF006513 AK094871 BC054860 BC117134 BM698633
RefSeq transcript (Entrez)NM_001270
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CHD1
Cluster EST : UnigeneHs.643465 [ NCBI ]
CGAP (NCI)Hs.643465
Alternative Splicing GalleryENSG00000153922
Gene ExpressionCHD1 [ NCBI-GEO ]   CHD1 [ EBI - ARRAY_EXPRESS ]   CHD1 [ SEEK ]   CHD1 [ MEM ]
Gene Expression Viewer (FireBrowse)CHD1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1105
GTEX Portal (Tissue expression)CHD1
Protein : pattern, domain, 3D structure
UniProt/SwissProtO14646   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO14646  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO14646
Splice isoforms : SwissVarO14646
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 ]   
PhosPhoSitePlusO14646
Domaine pattern : Prosite (Expaxy)CHROMO_1 (PS00598)    CHROMO_2 (PS50013)    HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)   
Domains : Interpro (EBI)Chromo/chromo_shadow_dom    Chromo_domain    Chromodomain-like    Chromodomain_CS    DUF4208    Helicase_ATP-bd    Helicase_C    P-loop_NTPase    SNF2_N   
Domain families : Pfam (Sanger)Chromo (PF00385)    DUF4208 (PF13907)    Helicase_C (PF00271)    SNF2_N (PF00176)   
Domain families : Pfam (NCBI)pfam00385    pfam13907    pfam00271    pfam00176   
Domain families : Smart (EMBL)CHROMO (SM00298)  DEXDc (SM00487)  DUF4208 (SM01176)  HELICc (SM00490)  
Conserved Domain (NCBI)CHD1
DMDM Disease mutations1105
Blocks (Seattle)CHD1
PDB (SRS)2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
PDB (PDBSum)2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
PDB (IMB)2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
PDB (RSDB)2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
Structural Biology KnowledgeBase2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
SCOP (Structural Classification of Proteins)2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
CATH (Classification of proteins structures)2B2T    2B2U    2B2V    2B2W    2B2Y    2N39    4B4C    4NW2    4O42    5AFW   
SuperfamilyO14646
Human Protein AtlasENSG00000153922
Peptide AtlasO14646
HPRD03668
IPIIPI00297851   IPI00954192   IPI00902738   IPI00966228   IPI00967152   
Protein Interaction databases
DIP (DOE-UCLA)O14646
IntAct (EBI)O14646
FunCoupENSG00000153922
BioGRIDCHD1
STRING (EMBL)CHD1
ZODIACCHD1
Ontologies - Pathways
QuickGOO14646
Ontology : AmiGOfibrillar center  DNA binding  ATP-dependent DNA helicase activity  protein binding  ATP binding  nucleus  cytoplasm  chromatin remodeling  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  covalent chromatin modification  DNA duplex unwinding  methylated histone binding  positive regulation by host of viral transcription  
Ontology : EGO-EBIfibrillar center  DNA binding  ATP-dependent DNA helicase activity  protein binding  ATP binding  nucleus  cytoplasm  chromatin remodeling  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  covalent chromatin modification  DNA duplex unwinding  methylated histone binding  positive regulation by host of viral transcription  
NDEx NetworkCHD1
Atlas of Cancer Signalling NetworkCHD1
Wikipedia pathwaysCHD1
Orthology - Evolution
OrthoDB1105
GeneTree (enSembl)ENSG00000153922
Phylogenetic Trees/Animal Genes : TreeFamCHD1
HOVERGENO14646
HOGENOMO14646
Homologs : HomoloGeneCHD1
Homology/Alignments : Family Browser (UCSC)CHD1
Gene fusions - Rearrangements
Fusion : MitelmanCAPNS1/CHD1 [19q13.12/5q15]  [t(5;19)(q21;q13)]  
Fusion : MitelmanCHD1/MTOR [5q15/1p36.22]  [t(1;5)(p36;q21)]  
Fusion : MitelmanFUS/CHD1 [16p11.2/5q15]  [t(5;16)(q21;p11)]  
Fusion : MitelmanGPM6B/CHD1 [Xp22.2/5q15]  [t(X;5)(p22;q21)]  
Fusion : MitelmanS100P/CHD1 [4p16.1/5q15]  [t(4;5)(p16;q21)]  
Fusion: TCGACAPNS1 19q13.12 CHD1 5q15 LUAD
Fusion: TCGACHD1 5q15 MTOR 1p36.22 LAML
Fusion: TCGAFUS 16p11.2 CHD1 5q15 BRCA
Fusion: TCGAGPM6B Xp22.2 CHD1 5q15 LGG
Fusion: TCGAS100P 4p16.1 CHD1 5q15 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCHD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CHD1
dbVarCHD1
ClinVarCHD1
1000_GenomesCHD1 
Exome Variant ServerCHD1
ExAC (Exome Aggregation Consortium)CHD1 (select the gene name)
Genetic variants : HAPMAP1105
Genomic Variants (DGV)CHD1 [DGVbeta]
DECIPHERCHD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCHD1 
Mutations
ICGC Data PortalCHD1 
TCGA Data PortalCHD1 
Broad Tumor PortalCHD1
OASIS PortalCHD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCHD1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCHD1
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
BioMutasearch CHD1
DgiDB (Drug Gene Interaction Database)CHD1
DoCM (Curated mutations)CHD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CHD1 (select a term)
intoGenCHD1
Cancer3DCHD1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602118   
Orphanet
MedgenCHD1
Genetic Testing Registry CHD1
NextProtO14646 [Medical]
TSGene1105
GENETestsCHD1
Target ValidationCHD1
Huge Navigator CHD1 [HugePedia]
snp3D : Map Gene to Disease1105
BioCentury BCIQCHD1
ClinGenCHD1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1105
Chemical/Pharm GKB GenePA26451
Clinical trialCHD1
Miscellaneous
canSAR (ICR)CHD1 (select the gene name)
Probes
Litterature
PubMed53 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCHD1
EVEXCHD1
GoPubMedCHD1
iHOPCHD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 18 13:49:45 CEST 2017

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