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APOD (apolipoprotein D)

Identity

Other alias-
HGNC (Hugo) APOD
LocusID (NCBI) 347
Atlas_Id 46055
Location 3q29  [Link to chromosome band 3q29]
Location_base_pair Starts at 195568702 and ends at 195584205 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ACAP2 (3q29) / APOD (3q29)APOD (3q29) / BAIAP2L1 (7q21.3)APOD (3q29) / CLDN7 (17p13.1)
APOD (3q29) / TCFL5 (20q13.33)FN1 (2q35) / APOD (3q29)ACAP2 3q29 / APOD 3q29
APOD 3q29 / CLDN7 17p13.1

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)APOD   612
Cards
Entrez_Gene (NCBI)APOD  347  apolipoprotein D
Aliases
GeneCards (Weizmann)APOD
Ensembl hg19 (Hinxton)ENSG00000189058 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000189058 [Gene_View]  chr3:195568702-195584205 [Contig_View]  APOD [Vega]
ICGC DataPortalENSG00000189058
TCGA cBioPortalAPOD
AceView (NCBI)APOD
Genatlas (Paris)APOD
WikiGenes347
SOURCE (Princeton)APOD
Genetics Home Reference (NIH)APOD
Genomic and cartography
GoldenPath hg38 (UCSC)APOD  -     chr3:195568702-195584205 -  3q29   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)APOD  -     3q29   [Description]    (hg19-Feb_2009)
EnsemblAPOD - 3q29 [CytoView hg19]  APOD - 3q29 [CytoView hg38]
Mapping of homologs : NCBIAPOD [Mapview hg19]  APOD [Mapview hg38]
OMIM107740   
Gene and transcription
Genbank (Entrez)AK294523 AK312090 BC007402 BQ008672 BT019860
RefSeq transcript (Entrez)NM_001647
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)APOD
Cluster EST : UnigeneHs.522555 [ NCBI ]
CGAP (NCI)Hs.522555
Alternative Splicing GalleryENSG00000189058
Gene ExpressionAPOD [ NCBI-GEO ]   APOD [ EBI - ARRAY_EXPRESS ]   APOD [ SEEK ]   APOD [ MEM ]
Gene Expression Viewer (FireBrowse)APOD [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)347
GTEX Portal (Tissue expression)APOD
Protein : pattern, domain, 3D structure
UniProt/SwissProtP05090   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP05090  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP05090
Splice isoforms : SwissVarP05090
PhosPhoSitePlusP05090
Domaine pattern : Prosite (Expaxy)LIPOCALIN (PS00213)   
Domains : Interpro (EBI)ApoD_vertbrte    ApolipopD    Calycin    Calycin-like    Lipocalin    Lipocalin_ApoD    Lipocalin_CS    Lipocln_cytosolic_FA-bd_dom   
Domain families : Pfam (Sanger)Lipocalin_2 (PF08212)   
Domain families : Pfam (NCBI)pfam08212   
Conserved Domain (NCBI)APOD
DMDM Disease mutations347
Blocks (Seattle)APOD
PDB (SRS)2APD    2HZQ    2HZR   
PDB (PDBSum)2APD    2HZQ    2HZR   
PDB (IMB)2APD    2HZQ    2HZR   
PDB (RSDB)2APD    2HZQ    2HZR   
Structural Biology KnowledgeBase2APD    2HZQ    2HZR   
SCOP (Structural Classification of Proteins)2APD    2HZQ    2HZR   
CATH (Classification of proteins structures)2APD    2HZQ    2HZR   
SuperfamilyP05090
Human Protein AtlasENSG00000189058
Peptide AtlasP05090
HPRD00134
IPIIPI00006662   IPI00927707   IPI00927914   IPI00924574   
Protein Interaction databases
DIP (DOE-UCLA)P05090
IntAct (EBI)P05090
FunCoupENSG00000189058
BioGRIDAPOD
STRING (EMBL)APOD
ZODIACAPOD
Ontologies - Pathways
QuickGOP05090
Ontology : AmiGOresponse to reactive oxygen species  angiogenesis  lipid transporter activity  protein binding  extracellular region  extracellular space  endoplasmic reticulum  glucose metabolic process  lipid metabolic process  lipid transport  brain development  aging  negative regulation of platelet-derived growth factor receptor signaling pathway  peripheral nervous system axon regeneration  cholesterol binding  cytosolic ribosome  dendrite  tissue regeneration  negative regulation of protein import into nucleus  response to drug  neuronal cell body  perinuclear region of cytoplasm  negative regulation of smooth muscle cell proliferation  response to axon injury  negative regulation of focal adhesion assembly  negative regulation of lipoprotein lipid oxidation  extracellular exosome  negative regulation of monocyte chemotactic protein-1 production  negative regulation of cytokine production involved in inflammatory response  negative regulation of smooth muscle cell-matrix adhesion  negative regulation of T cell migration  
Ontology : EGO-EBIresponse to reactive oxygen species  angiogenesis  lipid transporter activity  protein binding  extracellular region  extracellular space  endoplasmic reticulum  glucose metabolic process  lipid metabolic process  lipid transport  brain development  aging  negative regulation of platelet-derived growth factor receptor signaling pathway  peripheral nervous system axon regeneration  cholesterol binding  cytosolic ribosome  dendrite  tissue regeneration  negative regulation of protein import into nucleus  response to drug  neuronal cell body  perinuclear region of cytoplasm  negative regulation of smooth muscle cell proliferation  response to axon injury  negative regulation of focal adhesion assembly  negative regulation of lipoprotein lipid oxidation  extracellular exosome  negative regulation of monocyte chemotactic protein-1 production  negative regulation of cytokine production involved in inflammatory response  negative regulation of smooth muscle cell-matrix adhesion  negative regulation of T cell migration  
NDEx NetworkAPOD
Atlas of Cancer Signalling NetworkAPOD
Wikipedia pathwaysAPOD
Orthology - Evolution
OrthoDB347
GeneTree (enSembl)ENSG00000189058
Phylogenetic Trees/Animal Genes : TreeFamAPOD
HOVERGENP05090
HOGENOMP05090
Homologs : HomoloGeneAPOD
Homology/Alignments : Family Browser (UCSC)APOD
Gene fusions - Rearrangements
Fusion : MitelmanAPOD/CLDN7 [3q29/17p13.1]  
Fusion: TCGAACAP2 3q29 APOD 3q29 OV
Fusion: TCGAAPOD 3q29 CLDN7 17p13.1 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerAPOD [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)APOD
dbVarAPOD
ClinVarAPOD
1000_GenomesAPOD 
Exome Variant ServerAPOD
ExAC (Exome Aggregation Consortium)APOD (select the gene name)
Genetic variants : HAPMAP347
Genomic Variants (DGV)APOD [DGVbeta]
DECIPHERAPOD [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisAPOD 
Mutations
ICGC Data PortalAPOD 
TCGA Data PortalAPOD 
Broad Tumor PortalAPOD
OASIS PortalAPOD [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICAPOD  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDAPOD
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
BioMutasearch APOD
DgiDB (Drug Gene Interaction Database)APOD
DoCM (Curated mutations)APOD (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)APOD (select a term)
intoGenAPOD
Cancer3DAPOD(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM107740   
Orphanet
MedgenAPOD
Genetic Testing Registry APOD
NextProtP05090 [Medical]
TSGene347
GENETestsAPOD
Target ValidationAPOD
Huge Navigator APOD [HugePedia]
snp3D : Map Gene to Disease347
BioCentury BCIQAPOD
ClinGenAPOD
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD347
Chemical/Pharm GKB GenePA24900
Clinical trialAPOD
Miscellaneous
canSAR (ICR)APOD (select the gene name)
Probes
Litterature
PubMed92 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineAPOD
EVEXAPOD
GoPubMedAPOD
iHOPAPOD
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:24:04 CEST 2017

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