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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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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HOXA1 (homeobox A1)

Identity

Other namesBSAS
HOX1
HOX1F
HGNC (Hugo) HOXA1
LocusID (NCBI) 3198
Location 7p15.2
Location_base_pair Starts at 27132614 and ends at 27135625 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)HOXA1   5099
Cards
Entrez_Gene (NCBI)HOXA1  3198  homeobox A1
GeneCards (Weizmann)HOXA1
Ensembl hg19 (Hinxton)ENSG00000105991 [Gene_View]  chr7:27132614-27135625 [Contig_View]  HOXA1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000105991 [Gene_View]  chr7:27132614-27135625 [Contig_View]  HOXA1 [Vega]
ICGC DataPortalENSG00000105991
cBioPortalHOXA1
AceView (NCBI)HOXA1
Genatlas (Paris)HOXA1
WikiGenes3198
SOURCE (Princeton)HOXA1
Genomic and cartography
GoldenPath hg19 (UCSC)HOXA1  -     chr7:27132614-27135625 -  7p15.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)HOXA1  -     7p15.2   [Description]    (hg38-Dec_2013)
EnsemblHOXA1 - 7p15.2 [CytoView hg19]  HOXA1 - 7p15.2 [CytoView hg38]
Mapping of homologs : NCBIHOXA1 [Mapview hg19]  HOXA1 [Mapview hg38]
OMIM142955   601536   
Gene and transcription
Genbank (Entrez)AK308067 AK313514 BC032547 DB246535 DQ890884
RefSeq transcript (Entrez)NM_005522 NM_153620
RefSeq genomic (Entrez)NC_000007 NC_018918 NG_011813 NG_033087 NT_007819 NW_004929329
Consensus coding sequences : CCDS (NCBI)HOXA1
Cluster EST : UnigeneHs.67397 [ NCBI ]
CGAP (NCI)Hs.67397
Alternative Splicing : Fast-db (Paris)GSHG0028073
Alternative Splicing GalleryENSG00000105991
Gene ExpressionHOXA1 [ NCBI-GEO ]     HOXA1 [ SEEK ]   HOXA1 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP49639 (Uniprot)
NextProtP49639  [Medical]
With graphics : InterProP49639
Splice isoforms : SwissVarP49639 (Swissvar)
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)Homeobox_CS    Homeobox_dom    Homeobox_metazoa    Homeodomain-like   
Related proteins : CluSTrP49639
Domain families : Pfam (Sanger)Homeobox (PF00046)   
Domain families : Pfam (NCBI)pfam00046   
Domain families : Smart (EMBL)HOX (SM00389)  
DMDM Disease mutations3198
Blocks (Seattle)P49639
Human Protein AtlasENSG00000105991
Peptide AtlasP49639
HPRD00843
IPIIPI00027694   IPI00218317   IPI00218318   
Protein Interaction databases
DIP (DOE-UCLA)P49639
IntAct (EBI)P49639
FunCoupENSG00000105991
BioGRIDHOXA1
IntegromeDBHOXA1
STRING (EMBL)HOXA1
Ontologies - Pathways
QuickGOP49639
Ontology : AmiGOprotein binding  nucleus  transcription, DNA-templated  multicellular organismal development  sensory perception of sound  optokinetic behavior  motor neuron axon guidance  anatomical structure morphogenesis  anterior/posterior pattern specification  rhombomere 3 development  rhombomere 4 development  rhombomere 5 development  abducens nerve formation  facial nerve structural organization  facial nucleus development  central nervous system neuron differentiation  outer ear morphogenesis  sequence-specific DNA binding  positive regulation of transcription from RNA polymerase II promoter  embryonic neurocranium morphogenesis  inner ear development  artery morphogenesis  regulation of behavior  cognition  neuromuscular process  artery development  semicircular canal formation  cellular response to retinoic acid  cochlea development  cochlea morphogenesis  
Ontology : EGO-EBIprotein binding  nucleus  transcription, DNA-templated  multicellular organismal development  sensory perception of sound  optokinetic behavior  motor neuron axon guidance  anatomical structure morphogenesis  anterior/posterior pattern specification  rhombomere 3 development  rhombomere 4 development  rhombomere 5 development  abducens nerve formation  facial nerve structural organization  facial nucleus development  central nervous system neuron differentiation  outer ear morphogenesis  sequence-specific DNA binding  positive regulation of transcription from RNA polymerase II promoter  embryonic neurocranium morphogenesis  inner ear development  artery morphogenesis  regulation of behavior  cognition  neuromuscular process  artery development  semicircular canal formation  cellular response to retinoic acid  cochlea development  cochlea morphogenesis  
Protein Interaction DatabaseHOXA1
DoCM (Curated mutations)HOXA1
Wikipedia pathwaysHOXA1
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerHOXA1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HOXA1
dbVarHOXA1
ClinVarHOXA1
1000_GenomesHOXA1 
Exome Variant ServerHOXA1
SNP (GeneSNP Utah)HOXA1
SNP : HGBaseHOXA1
Genetic variants : HAPMAPHOXA1
Genomic Variants (DGV)HOXA1 [DGVbeta]
Mutations
ICGC Data PortalENSG00000105991 
Somatic Mutations in Cancer : COSMICHOXA1 
CONAN: Copy Number AnalysisHOXA1 
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
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)7:27132614-27135625
Mutations and Diseases : HGMDHOXA1
OMIM142955    601536   
MedgenHOXA1
NextProtP49639 [Medical]
GENETestsHOXA1
Disease Genetic AssociationHOXA1
Huge Navigator HOXA1 [HugePedia]  HOXA1 [HugeCancerGEM]
snp3D : Map Gene to Disease3198
DGIdb (Drug Gene Interaction db)HOXA1
General knowledge
Homologs : HomoloGeneHOXA1
Homology/Alignments : Family Browser (UCSC)HOXA1
Phylogenetic Trees/Animal Genes : TreeFamHOXA1
Chemical/Protein Interactions : CTD3198
Chemical/Pharm GKB GenePA29376
Clinical trialHOXA1
Cancer Resource (Charite)ENSG00000105991
Other databases
Probes
Litterature
PubMed61 Pubmed reference(s) in Entrez
CoreMineHOXA1
GoPubMedHOXA1
iHOPHOXA1
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 15:38:04 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.