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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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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PDCD10 (programmed cell death 10)

Identity

Other namesCCM3
TFAR15
HGNC (Hugo) PDCD10
LocusID (NCBI) 11235
Location 3q26.1
Location_base_pair Starts at 167401695 and ends at 167452594 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)PDCD10   8761
Cards
Entrez_Gene (NCBI)PDCD10  11235  programmed cell death 10
GeneCards (Weizmann)PDCD10
Ensembl hg19 (Hinxton)ENSG00000114209 [Gene_View]  chr3:167401695-167452594 [Contig_View]  PDCD10 [Vega]
Ensembl hg38 (Hinxton)ENSG00000114209 [Gene_View]  chr3:167401695-167452594 [Contig_View]  PDCD10 [Vega]
ICGC DataPortalENSG00000114209
cBioPortalPDCD10
AceView (NCBI)PDCD10
Genatlas (Paris)PDCD10
WikiGenes11235
SOURCE (Princeton)PDCD10
Genomic and cartography
GoldenPath hg19 (UCSC)PDCD10  -     chr3:167401695-167452594 -  3q26.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PDCD10  -     3q26.1   [Description]    (hg38-Dec_2013)
EnsemblPDCD10 - 3q26.1 [CytoView hg19]  PDCD10 - 3q26.1 [CytoView hg38]
Mapping of homologs : NCBIPDCD10 [Mapview hg19]  PDCD10 [Mapview hg38]
OMIM603285   609118   
Gene and transcription
Genbank (Entrez)AF022385 AK291130 BC002506 BC016353 CR457107
RefSeq transcript (Entrez)NM_007217 NM_145859 NM_145860
RefSeq genomic (Entrez)NC_000003 NC_018914 NG_008158 NT_005612 NW_004929311
Consensus coding sequences : CCDS (NCBI)PDCD10
Cluster EST : UnigeneHs.478150 [ NCBI ]
CGAP (NCI)Hs.478150
Alternative Splicing : Fast-db (Paris)GSHG0022212
Alternative Splicing GalleryENSG00000114209
Gene ExpressionPDCD10 [ NCBI-GEO ]     PDCD10 [ SEEK ]   PDCD10 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BUL8 (Uniprot)
NextProtQ9BUL8  [Medical]
With graphics : InterProQ9BUL8
Splice isoforms : SwissVarQ9BUL8 (Swissvar)
Domains : Interpro (EBI)DUF1241   
Related proteins : CluSTrQ9BUL8
Domain families : Pfam (Sanger)DUF1241 (PF06840)   
Domain families : Pfam (NCBI)pfam06840   
DMDM Disease mutations11235
Blocks (Seattle)Q9BUL8
PDB (SRS)3AJM    3L8I    3L8J    3RQE    3RQF    3RQG    3W8H    3W8I    4GEH   
PDB (PDBSum)3AJM    3L8I    3L8J    3RQE    3RQF    3RQG    3W8H    3W8I    4GEH   
PDB (IMB)3AJM    3L8I    3L8J    3RQE    3RQF    3RQG    3W8H    3W8I    4GEH   
PDB (RSDB)3AJM    3L8I    3L8J    3RQE    3RQF    3RQG    3W8H    3W8I    4GEH   
Human Protein AtlasENSG00000114209
Peptide AtlasQ9BUL8
HPRD10141
IPIIPI00298558   IPI00793567   IPI00945696   IPI00790953   IPI00792092   IPI00947286   IPI00946434   IPI00791474   IPI00793671   
Protein Interaction databases
DIP (DOE-UCLA)Q9BUL8
IntAct (EBI)Q9BUL8
FunCoupENSG00000114209
BioGRIDPDCD10
IntegromeDBPDCD10
STRING (EMBL)PDCD10
Ontologies - Pathways
QuickGOQ9BUL8
Ontology : AmiGOGolgi membrane  angiogenesis  protein binding  cytoplasm  Golgi apparatus  Golgi apparatus  cytosol  plasma membrane  positive regulation of cell proliferation  positive regulation of gene expression  negative regulation of gene expression  protein kinase binding  positive regulation of cell migration  positive regulation of cell migration  positive regulation of stress-activated MAPK cascade  positive regulation of peptidyl-serine phosphorylation  regulation of Rho protein signal transduction  intrinsic apoptotic signaling pathway in response to hydrogen peroxide  response to hydrogen peroxide  protein homodimerization activity  negative regulation of apoptotic process  stress fiber assembly  positive regulation of MAP kinase activity  wound healing, spreading of cells  positive regulation of Notch signaling pathway  protein N-terminus binding  protein stabilization  establishment of Golgi localization  extracellular exosome  positive regulation of protein serine/threonine kinase activity  negative regulation of cell migration involved in sprouting angiogenesis  Golgi reassembly  negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis  
Ontology : EGO-EBIGolgi membrane  angiogenesis  protein binding  cytoplasm  Golgi apparatus  Golgi apparatus  cytosol  plasma membrane  positive regulation of cell proliferation  positive regulation of gene expression  negative regulation of gene expression  protein kinase binding  positive regulation of cell migration  positive regulation of cell migration  positive regulation of stress-activated MAPK cascade  positive regulation of peptidyl-serine phosphorylation  regulation of Rho protein signal transduction  intrinsic apoptotic signaling pathway in response to hydrogen peroxide  response to hydrogen peroxide  protein homodimerization activity  negative regulation of apoptotic process  stress fiber assembly  positive regulation of MAP kinase activity  wound healing, spreading of cells  positive regulation of Notch signaling pathway  protein N-terminus binding  protein stabilization  establishment of Golgi localization  extracellular exosome  positive regulation of protein serine/threonine kinase activity  negative regulation of cell migration involved in sprouting angiogenesis  Golgi reassembly  negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis  
Protein Interaction DatabasePDCD10
DoCM (Curated mutations)PDCD10
Wikipedia pathwaysPDCD10
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerPDCD10 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDCD10
dbVarPDCD10
ClinVarPDCD10
1000_GenomesPDCD10 
Exome Variant ServerPDCD10
SNP (GeneSNP Utah)PDCD10
SNP : HGBasePDCD10
Genetic variants : HAPMAPPDCD10
Genomic Variants (DGV)PDCD10 [DGVbeta]
Mutations
ICGC Data PortalENSG00000114209 
Somatic Mutations in Cancer : COSMICPDCD10 
CONAN: Copy Number AnalysisPDCD10 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Vascular Anomaly and Lymphedema Mutation Database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)3:167401695-167452594
Mutations and Diseases : HGMDPDCD10
OMIM603285    609118   
MedgenPDCD10
NextProtQ9BUL8 [Medical]
GENETestsPDCD10
Disease Genetic AssociationPDCD10
Huge Navigator PDCD10 [HugePedia]  PDCD10 [HugeCancerGEM]
snp3D : Map Gene to Disease11235
DGIdb (Drug Gene Interaction db)PDCD10
General knowledge
Homologs : HomoloGenePDCD10
Homology/Alignments : Family Browser (UCSC)PDCD10
Phylogenetic Trees/Animal Genes : TreeFamPDCD10
Chemical/Protein Interactions : CTD11235
Chemical/Pharm GKB GenePA33111
Clinical trialPDCD10
Cancer Resource (Charite)ENSG00000114209
Other databases
Probes
Litterature
PubMed65 Pubmed reference(s) in Entrez
CoreMinePDCD10
GoPubMedPDCD10
iHOPPDCD10
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 16:52:46 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.