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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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
Donations are also welcome

Donate (in Euros)

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CTSD (cathepsin D)

Identity

Other namesCLN10
CPSD
HEL-S-130P
HGNC (Hugo) CTSD
LocusID (NCBI) 1509
Location 11p15.5
Location_base_pair Starts at 1773982 and ends at 1785222 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

 

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

Solid Tumors AmeloblastomID5945

External links

Nomenclature
HGNC (Hugo)CTSD   2529
Cards
Entrez_Gene (NCBI)CTSD  1509  cathepsin D
GeneCards (Weizmann)CTSD
Ensembl hg19 (Hinxton)ENSG00000117984 [Gene_View]  chr11:1773982-1785222 [Contig_View]  CTSD [Vega]
Ensembl hg38 (Hinxton)ENSG00000117984 [Gene_View]  chr11:1773982-1785222 [Contig_View]  CTSD [Vega]
ICGC DataPortalENSG00000117984
cBioPortalCTSD
AceView (NCBI)CTSD
Genatlas (Paris)CTSD
WikiGenes1509
SOURCE (Princeton)CTSD
Genomic and cartography
GoldenPath hg19 (UCSC)CTSD  -     chr11:1773982-1785222 -  11p15.5   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CTSD  -     11p15.5   [Description]    (hg38-Dec_2013)
EnsemblCTSD - 11p15.5 [CytoView hg19]  CTSD - 11p15.5 [CytoView hg38]
Mapping of homologs : NCBICTSD [Mapview hg19]  CTSD [Mapview hg38]
OMIM116840   610127   
Gene and transcription
Genbank (Entrez)AK130178 BC001574 BC016320 BM762986 BM976200
RefSeq transcript (Entrez)NM_001909
RefSeq genomic (Entrez)AC_000143 NC_000011 NC_018922 NG_008655 NT_009237 NW_001838017 NW_004929378
Consensus coding sequences : CCDS (NCBI)CTSD
Cluster EST : UnigeneHs.654447 [ NCBI ]
CGAP (NCI)Hs.654447
Alternative Splicing : Fast-db (Paris)GSHG0005464
Alternative Splicing GalleryENSG00000117984
Gene ExpressionCTSD [ NCBI-GEO ]     CTSD [ SEEK ]   CTSD [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP07339 (Uniprot)
NextProtP07339  [Medical]
With graphics : InterProP07339
Splice isoforms : SwissVarP07339 (Swissvar)
Catalytic activity : Enzyme3.4.23.5 [ Enzyme-Expasy ]   3.4.23.53.4.23.5 [ IntEnz-EBI ]   3.4.23.5 [ BRENDA ]   3.4.23.5 [ KEGG ]   
Domaine pattern : Prosite (Expaxy)ASP_PROTEASE (PS00141)   
Domains : Interpro (EBI)Aspartic_peptidase    Aspartic_peptidase_AS    Aspartic_peptidase_N    Peptidase_aspartic_dom   
Related proteins : CluSTrP07339
Domain families : Pfam (Sanger)A1_Propeptide (PF07966)    Asp (PF00026)   
Domain families : Pfam (NCBI)pfam07966    pfam00026   
DMDM Disease mutations1509
Blocks (Seattle)P07339
PDB (SRS)1LYA    1LYB    1LYW   
PDB (PDBSum)1LYA    1LYB    1LYW   
PDB (IMB)1LYA    1LYB    1LYW   
PDB (RSDB)1LYA    1LYB    1LYW   
Human Protein AtlasENSG00000117984
Peptide AtlasP07339
HPRD00291
IPIIPI00011229   IPI00658053   IPI00852597   IPI00879328   IPI00892793   
Protein Interaction databases
DIP (DOE-UCLA)P07339
IntAct (EBI)P07339
FunCoupENSG00000117984
BioGRIDCTSD
IntegromeDBCTSD
STRING (EMBL)CTSD
Ontologies - Pathways
QuickGOP07339
Ontology : AmiGOautophagic vacuole assembly  aspartic-type endopeptidase activity  protein binding  extracellular region  extracellular region  extracellular space  extracellular space  mitochondrion  lysosome  proteolysis  cell death  antigen processing and presentation of exogenous peptide antigen via MHC class II  extracellular matrix disassembly  extracellular matrix organization  collagen catabolic process  extracellular matrix  melanosome  lysosomal lumen  extracellular vesicular exosome  
Ontology : EGO-EBIautophagic vacuole assembly  aspartic-type endopeptidase activity  protein binding  extracellular region  extracellular region  extracellular space  extracellular space  mitochondrion  lysosome  proteolysis  cell death  antigen processing and presentation of exogenous peptide antigen via MHC class II  extracellular matrix disassembly  extracellular matrix organization  collagen catabolic process  extracellular matrix  melanosome  lysosomal lumen  extracellular vesicular exosome  
Pathways : BIOCARTADownregulated of MTA-3 in ER-negative Breast Tumors [Genes]   
Pathways : KEGGLysosome    Tuberculosis   
Protein Interaction DatabaseCTSD
DoCM (Curated mutations)CTSD
Wikipedia pathwaysCTSD
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerCTSD [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CTSD
dbVarCTSD
ClinVarCTSD
1000_GenomesCTSD 
Exome Variant ServerCTSD
SNP (GeneSNP Utah)CTSD
SNP : HGBaseCTSD
Genetic variants : HAPMAPCTSD
Genomic Variants (DGV)CTSD [DGVbeta]
Mutations
ICGC Data PortalENSG00000117984 
Somatic Mutations in Cancer : COSMICCTSD 
CONAN: Copy Number AnalysisCTSD 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Mendelian genes
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)11:1773982-1785222
Mutations and Diseases : HGMDCTSD
OMIM116840    610127   
MedgenCTSD
NextProtP07339 [Medical]
GENETestsCTSD
Disease Genetic AssociationCTSD
Huge Navigator CTSD [HugePedia]  CTSD [HugeCancerGEM]
snp3D : Map Gene to Disease1509
DGIdb (Drug Gene Interaction db)CTSD
General knowledge
Homologs : HomoloGeneCTSD
Homology/Alignments : Family Browser (UCSC)CTSD
Phylogenetic Trees/Animal Genes : TreeFamCTSD
Chemical/Protein Interactions : CTD1509
Chemical/Pharm GKB GenePA27029
Clinical trialCTSD
Cancer Resource (Charite)ENSG00000117984
Other databases
Probes
Litterature
PubMed236 Pubmed reference(s) in Entrez
CoreMineCTSD
GoPubMedCTSD
iHOPCTSD
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
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Feb 14 15:21:02 CET 2015

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