TDG (thymine-DNA glycosylase)

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economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas).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

TDG (thymine-DNA glycosylase)

Identity

Other names	hTDG
HGNC (Hugo)	TDG
LocusID (NCBI)	6996
Location	12q23.3
Location_base_pair	Starts at 104359593 and ends at 104382656 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)	TDG 11700
	Cards
Entrez_Gene (NCBI)	TDG 6996 thymine-DNA glycosylase
GeneCards (Weizmann)	TDG
Ensembl hg19 (Hinxton)	ENSG00000139372 [Gene_View] chr12:104359593-104382656 [Contig_View] TDG [Vega]
Ensembl hg38 (Hinxton)	ENSG00000139372 [Gene_View] chr12:104359593-104382656 [Contig_View] TDG [Vega]
ICGC DataPortal	ENSG00000139372
cBioPortal	TDG
AceView (NCBI)	TDG
Genatlas (Paris)	TDG
WikiGenes	6996
SOURCE (Princeton)	TDG
	Genomic and cartography
GoldenPath hg19 (UCSC)	TDG - chr12:104359593-104382656 + 12q23.3 [Description] (hg19-Feb_2009)
GoldenPath hg38 (UCSC)	TDG - 12q23.3 [Description] (hg38-Dec_2013)
Ensembl	TDG - 12q23.3 [CytoView hg19] TDG - 12q23.3 [CytoView hg38]
Mapping of homologs : NCBI	TDG [Mapview hg19] TDG [Mapview hg38]
OMIM	601423
	Gene and transcription
Genbank (Entrez)	AI004247 AI452763 AK295387 AK299832 AK303631
RefSeq transcript (Entrez)	NM_001008411 NM_003211
RefSeq genomic (Entrez)	AC_000144 NC_000012 NC_018923 NT_029419 NW_001838061 NW_004929384
Consensus coding sequences : CCDS (NCBI)	TDG
Cluster EST : Unigene	Hs.584809 [ NCBI ]
CGAP (NCI)	Hs.584809
Alternative Splicing : Fast-db (Paris)	GSHG0006951
Alternative Splicing Gallery	ENSG00000139372
Gene Expression	TDG [ NCBI-GEO ] TDG [ SEEK ] TDG [ MEM ]
SOURCE (Princeton)	Expression in : [Normal Tissue Atlas] [carcinoma Classsification] [NCI60]
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	Q13569 (Uniprot)
NextProt	Q13569 [Medical]
With graphics : InterPro	Q13569
Splice isoforms : SwissVar	Q13569 (Swissvar)
Catalytic activity : Enzyme	3.2.2.29 [ Enzyme-Expasy ] 3.2.2.29 3.2.2.29 [ IntEnz-EBI ] 3.2.2.29 [ BRENDA ] 3.2.2.29 [ KEGG ]
Domains : Interpro (EBI)	DNA_glycosylase_G/T-mismatch Thymine-DNA_glycosylase Uracil-DNA_glycosylase-like
Related proteins : CluSTr	Q13569
Domain families : Pfam (Sanger)	UDG (PF03167)
Domain families : Pfam (NCBI)	pfam03167
Domain families : Smart (EMBL)	UDG (SM00986)
DMDM Disease mutations	6996
Blocks (Seattle)	Q13569
PDB (SRS)	1WYW 2D07 2RBA 3UFJ 3UO7 3UOB 4FNC 4JGC
PDB (PDBSum)	1WYW 2D07 2RBA 3UFJ 3UO7 3UOB 4FNC 4JGC
PDB (IMB)	1WYW 2D07 2RBA 3UFJ 3UO7 3UOB 4FNC 4JGC
PDB (RSDB)	1WYW 2D07 2RBA 3UFJ 3UO7 3UOB 4FNC 4JGC
Human Protein Atlas	ENSG00000139372
Peptide Atlas	Q13569
HPRD	03251
IPI	IPI00333201 IPI00909580 IPI00909826 IPI00976977 IPI01011249 IPI01009111 IPI01011228 IPI01015010 IPI01014539
	Protein Interaction databases
DIP (DOE-UCLA)	Q13569
IntAct (EBI)	Q13569
FunCoup	ENSG00000139372
BioGRID	TDG
IntegromeDB	TDG
STRING (EMBL)	TDG
	Ontologies - Pathways
QuickGO	Q13569
Ontology : AmiGO	negative regulation of transcription from RNA polymerase II promoter RNA polymerase II transcription cofactor activity damaged DNA binding double-stranded DNA binding protein kinase C binding protein binding nucleus nucleoplasm nucleolus plasma membrane DNA repair base-excision repair base-excision repair base-excision repair, AP site formation mismatch repair transcription from RNA polymerase II promoter pyrimidine-specific mismatch base pair DNA N-glycosylase activity embryo development chromatin modification PML body DNA N-glycosylase activity mismatched DNA binding negative regulation of protein binding SUMO binding negative regulation of chromatin binding regulation of gene expression, epigenetic protein homodimerization activity structure-specific DNA binding depyrimidination DNA demethylation
Ontology : EGO-EBI	negative regulation of transcription from RNA polymerase II promoter RNA polymerase II transcription cofactor activity damaged DNA binding double-stranded DNA binding protein kinase C binding protein binding nucleus nucleoplasm nucleolus plasma membrane DNA repair base-excision repair base-excision repair base-excision repair, AP site formation mismatch repair transcription from RNA polymerase II promoter pyrimidine-specific mismatch base pair DNA N-glycosylase activity embryo development chromatin modification PML body DNA N-glycosylase activity mismatched DNA binding negative regulation of protein binding SUMO binding negative regulation of chromatin binding regulation of gene expression, epigenetic protein homodimerization activity structure-specific DNA binding depyrimidination DNA demethylation
Pathways : KEGG	Base excision repair
Protein Interaction Database	TDG
DoCM (Curated mutations)	TDG
Wikipedia pathways	TDG
	Gene fusion - rearrangements
	Polymorphisms : SNP, variants
NCBI Variation Viewer	TDG [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	TDG
dbVar	TDG
ClinVar	TDG
1000_Genomes	TDG
Exome Variant Server	TDG
SNP (GeneSNP Utah)	TDG
SNP : HGBase	TDG
Genetic variants : HAPMAP	TDG
Genomic Variants (DGV)	TDG [DGVbeta]
	Mutations
ICGC Data Portal	ENSG00000139372
Somatic Mutations in Cancer : COSMIC	TDG
CONAN: Copy Number Analysis	TDG
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)	12:104359593-104382656
Mutations and Diseases : HGMD	TDG
OMIM	601423
Medgen	TDG
NextProt	Q13569 [Medical]
GENETests	TDG
Disease Genetic Association	TDG
Huge Navigator	TDG [HugePedia] TDG [HugeCancerGEM]
snp3D : Map Gene to Disease	6996
DGIdb (Drug Gene Interaction db)	TDG
	General knowledge
Homologs : HomoloGene	TDG
Homology/Alignments : Family Browser (UCSC)	TDG
Phylogenetic Trees/Animal Genes : TreeFam	TDG
Chemical/Protein Interactions : CTD	6996
Chemical/Pharm GKB Gene	PA36419
Clinical trial	TDG
Cancer Resource (Charite)	ENSG00000139372
	Other databases
	Probes
	Litterature
PubMed	80 Pubmed reference(s) in Entrez
CoreMine	TDG
GoPubMed	TDG
iHOP	TDG

Genes in title	automatic search in PubMed
REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

Contributor(s)

Written	09-2002	Dessen P, Le Minor S

Updated	12-2014	Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology

indexed on : Sat Feb 14 18:58:53 CET 2015

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