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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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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PALB2 (partner and localizer of BRCA2)

Identity

Other namesFANCN
PNCA3
HGNC (Hugo) PALB2
LocusID (NCBI) 79728
Location 16p12.2
Location_base_pair Starts at 23614483 and ends at 23652678 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)PALB2   26144
Cards
Entrez_Gene (NCBI)PALB2  79728  partner and localizer of BRCA2
GeneCards (Weizmann)PALB2
Ensembl hg19 (Hinxton)ENSG00000083093 [Gene_View]  chr16:23614483-23652678 [Contig_View]  PALB2 [Vega]
Ensembl hg38 (Hinxton)ENSG00000083093 [Gene_View]  chr16:23614483-23652678 [Contig_View]  PALB2 [Vega]
ICGC DataPortalENSG00000083093
cBioPortalPALB2
AceView (NCBI)PALB2
Genatlas (Paris)PALB2
WikiGenes79728
SOURCE (Princeton)PALB2
Genomic and cartography
GoldenPath hg19 (UCSC)PALB2  -     chr16:23614483-23652678 -  16p12.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PALB2  -     16p12.2   [Description]    (hg38-Dec_2013)
EnsemblPALB2 - 16p12.2 [CytoView hg19]  PALB2 - 16p12.2 [CytoView hg38]
Mapping of homologs : NCBIPALB2 [Mapview hg19]  PALB2 [Mapview hg38]
OMIM114480   189960   610355   610832   613348   
Gene and transcription
Genbank (Entrez)AK025469 AK097533 AK299152 AL834425 BC044254
RefSeq transcript (Entrez)NM_024675
RefSeq genomic (Entrez)NC_000016 NC_018927 NG_007406 NT_187260 NW_004929400
Consensus coding sequences : CCDS (NCBI)PALB2
Cluster EST : UnigeneHs.444664 [ NCBI ]
CGAP (NCI)Hs.444664
Alternative Splicing : Fast-db (Paris)GSHG0011714
Alternative Splicing GalleryENSG00000083093
Gene ExpressionPALB2 [ NCBI-GEO ]     PALB2 [ SEEK ]   PALB2 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86YC2 (Uniprot)
NextProtQ86YC2  [Medical]
With graphics : InterProQ86YC2
Splice isoforms : SwissVarQ86YC2 (Swissvar)
Domains : Interpro (EBI)WD40/YVTN_repeat-like_dom    WD40_repeat_dom   
Related proteins : CluSTrQ86YC2
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
DMDM Disease mutations79728
Blocks (Seattle)Q86YC2
PDB (SRS)2W18    3EU7   
PDB (PDBSum)2W18    3EU7   
PDB (IMB)2W18    3EU7   
PDB (RSDB)2W18    3EU7   
Human Protein AtlasENSG00000083093
Peptide AtlasQ86YC2
HPRD07966
IPIIPI00172559   
Protein Interaction databases
DIP (DOE-UCLA)Q86YC2
IntAct (EBI)Q86YC2
FunCoupENSG00000083093
BioGRIDPALB2
IntegromeDBPALB2
STRING (EMBL)PALB2
Ontologies - Pathways
QuickGOQ86YC2
Ontology : AmiGOdouble-strand break repair via homologous recombination  somitogenesis  inner cell mass cell proliferation  DNA binding  protein binding  nucleoplasm  nucleoplasm  DNA repair  mesoderm development  organ morphogenesis  post-anal tail morphogenesis  negative regulation of apoptotic process  
Ontology : EGO-EBIdouble-strand break repair via homologous recombination  somitogenesis  inner cell mass cell proliferation  DNA binding  protein binding  nucleoplasm  nucleoplasm  DNA repair  mesoderm development  organ morphogenesis  post-anal tail morphogenesis  negative regulation of apoptotic process  
Pathways : KEGGFanconi anemia pathway   
Protein Interaction DatabasePALB2
DoCM (Curated mutations)PALB2
Wikipedia pathwaysPALB2
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerPALB2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PALB2
dbVarPALB2
ClinVarPALB2
1000_GenomesPALB2 
Exome Variant ServerPALB2
SNP (GeneSNP Utah)PALB2
SNP : HGBasePALB2
Genetic variants : HAPMAPPALB2
Genomic Variants (DGV)PALB2 [DGVbeta]
Mutations
ICGC Data PortalENSG00000083093 
Cancer Gene: CensusPALB2 
Somatic Mutations in Cancer : COSMICPALB2 
CONAN: Copy Number AnalysisPALB2 
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)Zhejiang University Center for Genetic and Genomic Medicine (ZJU-CGGM)
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
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)16:23614483-23652678
Mutations and Diseases : HGMDPALB2
OMIM114480    189960    610355    610832    613348   
MedgenPALB2
NextProtQ86YC2 [Medical]
GENETestsPALB2
Disease Genetic AssociationPALB2
Huge Navigator PALB2 [HugePedia]  PALB2 [HugeCancerGEM]
snp3D : Map Gene to Disease79728
DGIdb (Drug Gene Interaction db)PALB2
General knowledge
Homologs : HomoloGenePALB2
Homology/Alignments : Family Browser (UCSC)PALB2
Phylogenetic Trees/Animal Genes : TreeFamPALB2
Chemical/Protein Interactions : CTD79728
Chemical/Pharm GKB GenePA162398608
Clinical trialPALB2
Cancer Resource (Charite)ENSG00000083093
Other databases
Probes
Litterature
PubMed123 Pubmed reference(s) in Entrez
CoreMinePALB2
GoPubMedPALB2
iHOPPALB2
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 16:50:35 CET 2015

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jlhuret@AtlasGeneticsOncology.org.