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HDGF (heparin binding growth factor)

Identity

Alias_nameshepatoma-derived growth factor (high-mobility group protein 1-like)
Alias_symbol (synonym)HMG1L2
Other alias
HGNC (Hugo) HDGF
LocusID (NCBI) 3068
Atlas_Id 40809
Location 1q23.1  [Link to chromosome band 1q23]
Location_base_pair Starts at 156742107 and ends at 156751751 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
FBXW2 (9q33.2) / HDGF (1q23.1)HDGF (1q23.1) / ANKRD40 (17q21.33)HDGF (1q23.1) / FOXRED1 (11q24.2)
HDGF (1q23.1) / HDGF (1q23.1)HDGF (1q23.1) / S100A10 (1q21.3)RPS13 (11p15.1) / HDGF (1q23.1)

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(1;1)(q21;q23) HDGF/S100A10


External links

Nomenclature
HGNC (Hugo)HDGF   4856
Cards
Entrez_Gene (NCBI)HDGF  3068  heparin binding growth factor
AliasesHMG1L2
GeneCards (Weizmann)HDGF
Ensembl hg19 (Hinxton)ENSG00000143321 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143321 [Gene_View]  ENSG00000143321 [Sequence]  chr1:156742107-156751751 [Contig_View]  HDGF [Vega]
ICGC DataPortalENSG00000143321
TCGA cBioPortalHDGF
AceView (NCBI)HDGF
Genatlas (Paris)HDGF
WikiGenes3068
SOURCE (Princeton)HDGF
Genetics Home Reference (NIH)HDGF
Genomic and cartography
GoldenPath hg38 (UCSC)HDGF  -     chr1:156742107-156751751 -  1q23.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HDGF  -     1q23.1   [Description]    (hg19-Feb_2009)
EnsemblHDGF - 1q23.1 [CytoView hg19]  HDGF - 1q23.1 [CytoView hg38]
Mapping of homologs : NCBIHDGF [Mapview hg19]  HDGF [Mapview hg38]
OMIM600339   
Gene and transcription
Genbank (Entrez)AK096411 AK292325 AK298342 AK304468 AK315514
RefSeq transcript (Entrez)NM_001126050 NM_001126051 NM_001319186 NM_001319187 NM_001319188 NM_004494
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HDGF
Cluster EST : UnigeneHs.743948 [ NCBI ]
CGAP (NCI)Hs.743948
Alternative Splicing GalleryENSG00000143321
Gene ExpressionHDGF [ NCBI-GEO ]   HDGF [ EBI - ARRAY_EXPRESS ]   HDGF [ SEEK ]   HDGF [ MEM ]
Gene Expression Viewer (FireBrowse)HDGF [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3068
GTEX Portal (Tissue expression)HDGF
Human Protein AtlasENSG00000143321-HDGF [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP51858   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP51858  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP51858
Splice isoforms : SwissVarP51858
PhosPhoSitePlusP51858
Domaine pattern : Prosite (Expaxy)PWWP (PS50812)   
Domains : Interpro (EBI)PWWP_dom   
Domain families : Pfam (Sanger)PWWP (PF00855)   
Domain families : Pfam (NCBI)pfam00855   
Domain families : Smart (EMBL)PWWP (SM00293)  
Conserved Domain (NCBI)HDGF
DMDM Disease mutations3068
Blocks (Seattle)HDGF
PDB (SRS)1RI0    2NLU   
PDB (PDBSum)1RI0    2NLU   
PDB (IMB)1RI0    2NLU   
PDB (RSDB)1RI0    2NLU   
Structural Biology KnowledgeBase1RI0    2NLU   
SCOP (Structural Classification of Proteins)1RI0    2NLU   
CATH (Classification of proteins structures)1RI0    2NLU   
SuperfamilyP51858
Human Protein Atlas [tissue]ENSG00000143321-HDGF [tissue]
Peptide AtlasP51858
HPRD02079
IPIIPI00020956   IPI00922032   IPI00643908   IPI00514330   IPI00514127   
Protein Interaction databases
DIP (DOE-UCLA)P51858
IntAct (EBI)P51858
FunCoupENSG00000143321
BioGRIDHDGF
STRING (EMBL)HDGF
ZODIACHDGF
Ontologies - Pathways
QuickGOP51858
Ontology : AmiGOnegative regulation of transcription by RNA polymerase II  nucleotide binding  RNA polymerase II transcription corepressor activity  transcription corepressor binding  DNA binding  RNA binding  extracellular region  extracellular space  nucleoplasm  nucleoplasm  cytoplasm  transcription, DNA-templated  signal transduction  growth factor activity  heparin binding  cell proliferation  regulation of receptor activity  transcriptional repressor complex  extracellular matrix  IRE1-mediated unfolded protein response  
Ontology : EGO-EBInegative regulation of transcription by RNA polymerase II  nucleotide binding  RNA polymerase II transcription corepressor activity  transcription corepressor binding  DNA binding  RNA binding  extracellular region  extracellular space  nucleoplasm  nucleoplasm  cytoplasm  transcription, DNA-templated  signal transduction  growth factor activity  heparin binding  cell proliferation  regulation of receptor activity  transcriptional repressor complex  extracellular matrix  IRE1-mediated unfolded protein response  
NDEx NetworkHDGF
Atlas of Cancer Signalling NetworkHDGF
Wikipedia pathwaysHDGF
Orthology - Evolution
OrthoDB3068
GeneTree (enSembl)ENSG00000143321
Phylogenetic Trees/Animal Genes : TreeFamHDGF
HOVERGENP51858
HOGENOMP51858
Homologs : HomoloGeneHDGF
Homology/Alignments : Family Browser (UCSC)HDGF
Gene fusions - Rearrangements
Fusion : MitelmanHDGF/S100A10 [1q23.1/1q21.3]  
Fusion : QuiverHDGF
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHDGF [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HDGF
dbVarHDGF
ClinVarHDGF
1000_GenomesHDGF 
Exome Variant ServerHDGF
ExAC (Exome Aggregation Consortium)ENSG00000143321
GNOMAD BrowserENSG00000143321
Genetic variants : HAPMAP3068
Genomic Variants (DGV)HDGF [DGVbeta]
DECIPHERHDGF [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHDGF 
Mutations
ICGC Data PortalHDGF 
TCGA Data PortalHDGF 
Broad Tumor PortalHDGF
OASIS PortalHDGF [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHDGF  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHDGF
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 HDGF
DgiDB (Drug Gene Interaction Database)HDGF
DoCM (Curated mutations)HDGF (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HDGF (select a term)
intoGenHDGF
Cancer3DHDGF(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600339   
Orphanet
DisGeNETHDGF
MedgenHDGF
Genetic Testing Registry HDGF
NextProtP51858 [Medical]
TSGene3068
GENETestsHDGF
Target ValidationHDGF
Huge Navigator HDGF [HugePedia]
snp3D : Map Gene to Disease3068
BioCentury BCIQHDGF
ClinGenHDGF
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3068
Chemical/Pharm GKB GenePA29234
Clinical trialHDGF
Miscellaneous
canSAR (ICR)HDGF (select the gene name)
Probes
Litterature
PubMed96 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHDGF
EVEXHDGF
GoPubMedHDGF
iHOPHDGF
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri Jun 22 16:28:43 CEST 2018

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