Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

BDNF (brain-derived neurotrophic factor)

Identity

Other namesANON2
BULN2
HGNC (Hugo) BDNF
LocusID (NCBI) 627
Location 11p14.1
Location_base_pair Starts at 27676442 and ends at 27742326 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)BDNF   1033
Cards
Entrez_Gene (NCBI)BDNF  627  brain-derived neurotrophic factor
GeneCards (Weizmann)BDNF
Ensembl (Hinxton)ENSG00000176697 [Gene_View]  chr11:27676442-27742326 [Contig_View]  BDNF [Vega]
ICGC DataPortalENSG00000176697
cBioPortalBDNF
AceView (NCBI)BDNF
Genatlas (Paris)BDNF
WikiGenes627
SOURCE (Princeton)NM_001143805 NM_001143806 NM_001143807 NM_001143808 NM_001143809 NM_001143810 NM_001143811 NM_001143812 NM_001143813 NM_001143814 NM_001143815 NM_001143816 NM_001709 NM_170731 NM_170732 NM_170733 NM_170734 NM_170735
Genomic and cartography
GoldenPath (UCSC)BDNF  -  11p14.1   chr11:27676442-27742326 -  11p14.1   [Description]    (hg19-Feb_2009)
EnsemblBDNF - 11p14.1 [CytoView]
Mapping of homologs : NCBIBDNF [Mapview]
OMIM113505   164230   209880   607499   610269   
Gene and transcription
Genbank (Entrez)AB038670 AB038671 AB038672 AB038673 AB038674
RefSeq transcript (Entrez)NM_001143805 NM_001143806 NM_001143807 NM_001143808 NM_001143809 NM_001143810 NM_001143811 NM_001143812 NM_001143813 NM_001143814 NM_001143815 NM_001143816 NM_001709 NM_170731 NM_170732 NM_170733 NM_170734 NM_170735
RefSeq genomic (Entrez)AC_000143 NC_000011 NC_018922 NG_011794 NT_009237 NW_001838022 NW_004929378
Consensus coding sequences : CCDS (NCBI)BDNF
Cluster EST : UnigeneHs.502182 [ NCBI ]
CGAP (NCI)Hs.502182
Alternative Splicing : Fast-db (Paris)GSHG0005663
Alternative Splicing GalleryENSG00000176697
Gene ExpressionBDNF [ NCBI-GEO ]     BDNF [ SEEK ]   BDNF [ MEM ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP23560 (Uniprot)
NextProtP23560  [Medical]
With graphics : InterProP23560
Splice isoforms : SwissVarP23560 (Swissvar)
Domaine pattern : Prosite (Expaxy)NGF_1 (PS00248)    NGF_2 (PS50270)   
Domains : Interpro (EBI)Brain-der_neurotrophic_factor [organisation]   Cystine-knot_cytokine [organisation]   Nerve_growth_factor-like [organisation]   Nerve_growth_factor-rel [organisation]   Nerve_growth_factor_CS [organisation]  
Related proteins : CluSTrP23560
Domain families : Pfam (Sanger)NGF (PF00243)   
Domain families : Pfam (NCBI)pfam00243   
Domain families : Smart (EMBL)NGF (SM00140)  
Domain structure : Prodom (Prabi Lyon)Nerve_growth_factor-rel (PD002052)   
DMDM Disease mutations627
Blocks (Seattle)P23560
PDB (SRS)1B8M    1BND   
PDB (PDBSum)1B8M    1BND   
PDB (IMB)1B8M    1BND   
PDB (RSDB)1B8M    1BND   
Human Protein AtlasENSG00000176697 [gene] [tissue] [antibody] [cell] [cancer]
Peptide AtlasP23560
HPRD00214
IPIIPI00012058   IPI00336003   IPI00855724   IPI00917851   IPI00377232   IPI00979471   IPI00977029   
Protein Interaction databases
DIP (DOE-UCLA)P23560
IntAct (EBI)P23560
FunCoupENSG00000176697
BioGRIDBDNF
InParanoidP23560
Interologous Interaction database P23560
IntegromeDBBDNF
STRING (EMBL)BDNF
Ontologies - Pathways
Ontology : AmiGOureteric bud development  behavioral fear response  response to hypoxia  chronic inflammatory response  neurotrophin TRKB receptor binding  extracellular region  cytoplasm  mitochondrial electron transport, NADH to ubiquinone  nervous system development  negative regulation of neuroblast proliferation  axon guidance  axon target recognition  learning or memory  feeding behavior  synaptic vesicle  neuron recognition  growth factor activity  response to hormone  glutamate secretion  response to fluoxetine  dendrite development  regulation of metabolic process  nerve development  response to vitamin A  mechanoreceptor differentiation  negative regulation of neuron apoptotic process  positive regulation of neuron differentiation  negative regulation of striated muscle tissue development  regulation of retinal cell programmed cell death  positive regulation of long-term neuronal synaptic plasticity  regulation of short-term neuronal synaptic plasticity  perinuclear region of cytoplasm  inner ear development  positive regulation of synapse assembly  response to hyperoxia  regulation of excitatory postsynaptic membrane potential  response to anesthetic  
Ontology : EGO-EBIureteric bud development  behavioral fear response  response to hypoxia  chronic inflammatory response  neurotrophin TRKB receptor binding  extracellular region  cytoplasm  mitochondrial electron transport, NADH to ubiquinone  nervous system development  negative regulation of neuroblast proliferation  axon guidance  axon target recognition  learning or memory  feeding behavior  synaptic vesicle  neuron recognition  growth factor activity  response to hormone  glutamate secretion  response to fluoxetine  dendrite development  regulation of metabolic process  nerve development  response to vitamin A  mechanoreceptor differentiation  negative regulation of neuron apoptotic process  positive regulation of neuron differentiation  negative regulation of striated muscle tissue development  regulation of retinal cell programmed cell death  positive regulation of long-term neuronal synaptic plasticity  regulation of short-term neuronal synaptic plasticity  perinuclear region of cytoplasm  inner ear development  positive regulation of synapse assembly  response to hyperoxia  regulation of excitatory postsynaptic membrane potential  response to anesthetic  
Pathways : KEGGMAPK signaling pathway    Neurotrophin signaling pathway    Huntington's disease    Cocaine addiction    Alcoholism   
Protein Interaction DatabaseBDNF
Wikipedia pathwaysBDNF
Gene fusion - rearrangments
Polymorphisms : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)BDNF
snp3D : Map Gene to Disease627
SNP (GeneSNP Utah)BDNF
SNP : HGBaseBDNF
Genetic variants : HAPMAPBDNF
Exome VariantBDNF
1000_GenomesBDNF 
ICGC programENSG00000176697 
Somatic Mutations in Cancer : COSMICBDNF 
CONAN: Copy Number AnalysisBDNF 
Mutations and Diseases : HGMDBDNF
Mutations and Diseases : intOGenBDNF
Genomic VariantsBDNF  BDNF [DGVbeta]
dbVarBDNF
ClinVarBDNF
Pred. of missensesPolyPhen-2  SIFT(SG)  SIFT(JCVI)  Align-GVGD  MutAssessor  Mutanalyser  
Pred. splicesGeneSplicer  Human Splicing Finder  MaxEntScan  
Diseases
OMIM113505    164230    209880    607499    610269   
MedgenBDNF
GENETestsBDNF
Disease Genetic AssociationBDNF
Huge Navigator BDNF [HugePedia]  BDNF [HugeCancerGEM]
General knowledge
Homologs : HomoloGeneBDNF
Homology/Alignments : Family Browser (UCSC)BDNF
Phylogenetic Trees/Animal Genes : TreeFamBDNF
Chemical/Protein Interactions : CTD627
Chemical/Pharm GKB GenePA25335
Clinical trialBDNF
Cancer Resource (Charite)ENSG00000176697
Other databases
Probes
Litterature
PubMed499 Pubmed reference(s) in Entrez
CoreMineBDNF
iHOPBDNF
OncoSearchBDNF
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
Updated12-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Aug 26 16:39:39 CEST 2014

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.