Atlas of Genetics and Cytogenetics in Oncology and Haematology


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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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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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TNFSF13 (tumor necrosis factor (ligand) superfamily, member 13)

Identity

Other namesAPRIL
CD256
TALL-2
TALL2
TRDL-1
UNQ383/PRO715
ZTNF2
HGNC (Hugo) TNFSF13
LocusID (NCBI) 8741
Location 17p13.1
Location_base_pair Starts at 7461609 and ends at 7464925 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)TNFSF13   11928
Cards
Entrez_Gene (NCBI)TNFSF13  8741  tumor necrosis factor (ligand) superfamily, member 13
GeneCards (Weizmann)TNFSF13
Ensembl hg19 (Hinxton)ENSG00000161955 [Gene_View]  chr17:7461609-7464925 [Contig_View]  TNFSF13 [Vega]
Ensembl hg38 (Hinxton)ENSG00000161955 [Gene_View]  chr17:7461609-7464925 [Contig_View]  TNFSF13 [Vega]
ICGC DataPortalENSG00000161955
cBioPortalTNFSF13
AceView (NCBI)TNFSF13
Genatlas (Paris)TNFSF13
WikiGenes8741
SOURCE (Princeton)TNFSF13
Genomic and cartography
GoldenPath hg19 (UCSC)TNFSF13  -     chr17:7461609-7464925 +  17p13.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TNFSF13  -     17p13.1   [Description]    (hg38-Dec_2013)
EnsemblTNFSF13 - 17p13.1 [CytoView hg19]  TNFSF13 - 17p13.1 [CytoView hg38]
Mapping of homologs : NCBITNFSF13 [Mapview hg19]  TNFSF13 [Mapview hg38]
OMIM604472   
Gene and transcription
Genbank (Entrez)AF046888 AF114011 AF114012 AF114013 AF136294
RefSeq transcript (Entrez)NM_001198622 NM_001198623 NM_001198624 NM_003808 NM_172087 NM_172088
RefSeq genomic (Entrez)NC_000017 NC_018928 NG_029949 NT_010718 NW_004929405
Consensus coding sequences : CCDS (NCBI)TNFSF13
Cluster EST : UnigeneHs.54673 [ NCBI ]
CGAP (NCI)Hs.54673
Alternative Splicing : Fast-db (Paris)GSHG0012197
Alternative Splicing GalleryENSG00000161955
Gene ExpressionTNFSF13 [ NCBI-GEO ]     TNFSF13 [ SEEK ]   TNFSF13 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75888 (Uniprot)
NextProtO75888  [Medical]
With graphics : InterProO75888
Splice isoforms : SwissVarO75888 (Swissvar)
Domaine pattern : Prosite (Expaxy)TNF_1 (PS00251)    TNF_2 (PS50049)   
Domains : Interpro (EBI)TNF_CS    TNF_dom    Tumour_necrosis_fac-like_dom   
Related proteins : CluSTrO75888
Domain families : Pfam (Sanger)TNF (PF00229)   
Domain families : Pfam (NCBI)pfam00229   
Domain families : Smart (EMBL)TNF (SM00207)  
DMDM Disease mutations8741
Blocks (Seattle)O75888
Human Protein AtlasENSG00000161955
Peptide AtlasO75888
Protein Interaction databases
DIP (DOE-UCLA)O75888
IntAct (EBI)O75888
FunCoupENSG00000161955
BioGRIDTNFSF13
IntegromeDBTNFSF13
STRING (EMBL)TNFSF13
Ontologies - Pathways
QuickGOO75888
Ontology : AmiGOimmunoglobulin production in mucosal tissue  positive regulation of germinal center formation  receptor binding  cytokine activity  tumor necrosis factor receptor binding  extracellular space  nucleoplasm  cytoplasm  cytosol  signal transduction  positive regulation of cell proliferation  external side of plasma membrane  gene expression  positive regulation of isotype switching to IgA isotypes  extracellular exosome  
Ontology : EGO-EBIimmunoglobulin production in mucosal tissue  positive regulation of germinal center formation  receptor binding  cytokine activity  tumor necrosis factor receptor binding  extracellular space  nucleoplasm  cytoplasm  cytosol  signal transduction  positive regulation of cell proliferation  external side of plasma membrane  gene expression  positive regulation of isotype switching to IgA isotypes  extracellular exosome  
Pathways : BIOCARTATACI and BCMA stimulation of B cell immune responses. [Genes]   
Pathways : KEGGCytokine-cytokine receptor interaction    Intestinal immune network for IgA production    Rheumatoid arthritis   
Protein Interaction DatabaseTNFSF13
DoCM (Curated mutations)TNFSF13
Wikipedia pathwaysTNFSF13
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerTNFSF13 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TNFSF13
dbVarTNFSF13
ClinVarTNFSF13
1000_GenomesTNFSF13 
Exome Variant ServerTNFSF13
SNP (GeneSNP Utah)TNFSF13
SNP : HGBaseTNFSF13
Genetic variants : HAPMAPTNFSF13
Genomic Variants (DGV)TNFSF13 [DGVbeta]
Mutations
ICGC Data PortalENSG00000161955 
Somatic Mutations in Cancer : COSMICTNFSF13 
CONAN: Copy Number AnalysisTNFSF13 
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)17:7461609-7464925
Mutations and Diseases : HGMDTNFSF13
OMIM604472   
MedgenTNFSF13
NextProtO75888 [Medical]
GENETestsTNFSF13
Disease Genetic AssociationTNFSF13
Huge Navigator TNFSF13 [HugePedia]  TNFSF13 [HugeCancerGEM]
snp3D : Map Gene to Disease8741
DGIdb (Drug Gene Interaction db)TNFSF13
General knowledge
Homologs : HomoloGeneTNFSF13
Homology/Alignments : Family Browser (UCSC)TNFSF13
Phylogenetic Trees/Animal Genes : TreeFamTNFSF13
Chemical/Protein Interactions : CTD8741
Chemical/Pharm GKB GenePA36621
Clinical trialTNFSF13
Cancer Resource (Charite)ENSG00000161955
Other databases
Probes
Litterature
PubMed142 Pubmed reference(s) in Entrez
CoreMineTNFSF13
GoPubMedTNFSF13
iHOPTNFSF13
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 17:40:58 CET 2015

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jlhuret@AtlasGeneticsOncology.org.