DDB1
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Other Regions: 1 Available
| Locus | Species | Chromosomal Location | Mb | Number of genes |
|---|---|---|---|---|
| Iddm25 | Rat | chr1:193831373..230411453 | 36.58 | 585 |
(Human) GRCh37 - chr11:61066919..61110068 (43.15 kb) View in Genome Browser
(Mouse) NCBIM37 - chr19:10680058..10704312 (24.25 kb) View in Genome Browser
(Rat) RGSC3.4 - chr1:213095187..213120986 (25.80 kb) View in Genome Browser
HaemAtlas Expression Table for DDB1:
Expression Legend
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Cell Types Showing Expression: Available
Users should be aware that the scale represents a rank within an experiment rather than a normalized expression signal.
| Human | Mouse | Rat | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ductal cells | exocrine pancreas | pancreatic islets | primary beta cells | Pancreatic Islets MPSS | beta cell line | pancreatic islets | whole pancreas | alpha cell | beta cell line | pancreatic islets | primary beta cells | whole pancreas |
Expression Legend
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The Beta Cell Gene Atlas is a collection of almost all available public microarray data generated with pancreatic beta cells and related cell lines and types. The expression data comes from 131 array analyses derived from 28 experiments (open details in a new window). The basal (untreated cell) expression signal intensity values in each array were converted to ranks within the experiments; the highest value was used for genes represented by more than one probe. The rank values of genes in a given cell type were averaged with other calculated values from experiments performed with the same cell type. The rank transformation of the expression values enable comparison of gene expression across different organisms and tissues.
A red border around a cell indicates greater certainty in the data; specifically, the gene has >0.95 probability of being expressed in the tissue.
Tissues Showing Expression: Available
| Users should be aware that the scale represents a rank within an experiment rather than a normalized expression signal. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Expression Legend
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| Signal intensity values were converted to ranks within the experiments. For genes represented by more than one probeset, we averaged the intensity signals for each probeset across all tissues and chose the probeset with the highest average value. The rank transformation of the expression values enables comparison of gene expression across different organisms and tissues. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Interactions Table for DDB1:The DDB1 interactions are shown below. Each row lists the two interactors, the sources which document this as an interaction, a classification of the interaction as empirical or predicted, and Pubmed IDs (if any) for the interaction.
The table of interactions is downloadable as a text file. Please note that the text file will not include data from HPRD due to restrictions imposed by the HPRD funding sources.
| Interactor | Interactor | Sources | Classification | Pubmed IDs |
| DDB1 | HDAC5 | BioGRID | empirical | 21081666 |
| DDB1 | TRIM28 | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | DCAF7 | BioGRID | empirical | 16949367 |
| DDB1 | CDKN1A | BioGRID | empirical | 18794347 18703516 |
| DDB1 | CDKN1B | BioGRID | empirical | 21237244 |
| DDB1 | CENPA | BioGRID | empirical | 15009096 |
| DDB1 | NUDC | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | COPS8 | BioGRID | empirical | 16964240 |
| DDB1 | COPS6 | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | COPS5 | IntAct, BioGRID | empirical | 20360068 18850735 16964240 16949367 |
| DDB1 | WDR5 | IntAct | empirical | 17041588 |
| DDB1 | KATNA1 | BioGRID | empirical | 19287380 |
| DDB1 | CHEK1 | BioGRID | empirical | 19276361 |
| DDB1 | ZNF277 | BioGRID | empirical | 20211142 |
| DDB1 | RASSF1 | BioGRID | empirical | 21205828 |
| DDB1 | GPN1 | BioGRID | empirical | 17643375 |
| DDB1 | GABARAP | IntAct | empirical | 20562859 |
| DDB1 | ERCC8 | HPRD, IntAct, BioGRID | empirical | 12732143 17392787 20360068 16949367 |
| DDB1 | CTNNB1 | BioGRID | empirical | 19651607 |
| DDB1 | TOR1AIP2 | BioGRID | empirical | 16964240 |
| DDB1 | DDB1 | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | DDB2 | HPRD, IntAct, MIPS, BioGRID, Reactome | empirical | 12050362 17392787 16964240 17041588 9418871 19109893 20360068 11564863 18593899 16949367 16678110 16473935 20368362 22118460 10214908 10526214 11511374 |
| DDB1 | AHR | BioGRID | empirical | 19651607 |
| DDB1 | ERCC5 | Reactome | predicted | 10214908 10526214 11511374 |
| DDB1 | ERCC6 | BioGRID | empirical | 20541997 |
| DDB1 | ALB | IntAct | empirical | 15174051 |
| DDB1 | MED19 | IntAct | empirical | 15175163 |
| DDB1 | SNW1 | BioGRID | empirical | 12840015 |
| DDB1 | WDTC1 | HPRD, IntAct, BioGRID | empirical | 16964240 20360068 16949367 |
| DDB1 | FAF2 | IntAct, BioGRID | empirical | 18775313 |
| DDB1 | RPGRIP1L | IntAct | empirical | 21565611 |
| DDB1 | GABARAPL1 | IntAct | empirical | 20562859 |
| DDB1 | ABL1 | HPRD | empirical | 12107171 |
| DDB1 | DCAF12 | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | DCAF13 | BioGRID | empirical | 16949367 |
| DDB1 | UBXN7 | IntAct, BioGRID | empirical | 18775313 |
| DDB1 | DCAF4 | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | TRPC4AP | IntAct, BioGRID | empirical | 20360068 16964240 20551172 |
| DDB1 | PHGDH | IntAct | empirical | 20360068 |
| DDB1 | KAT2A | BioGRID | empirical | 11564863 21987584 |
| DDB1 | GPS1 | IntAct, BioGRID | empirical | 20360068 16949367 |
| DDB1 | HNRNPK | IntAct | empirical | 16518874 |
| DDB1 | HOXD3 | BioGRID | empirical | 20211142 |
| DDB1 | APC | IntAct | empirical | 16212417 |
| DDB1 | ILK | IntAct | empirical | 17353931 |
| DDB1 | GSTK1 | IntAct | empirical | 17353931 |
| DDB1 | SETD8 | BioGRID | empirical | 20932471 |
| DDB1 | MEF2A | IntAct | empirical | 21988832 |
| DDB1 | MAP3K1 | MINT, IntAct | empirical | 14743216 |
| DDB1 | MAP3K3 | MINT, IntAct | empirical | 14743216 |
| DDB1 | MYC | BioGRID | empirical | 20551172 |
| DDB1 | ATM | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | NEDD8 | BioGRID | empirical | 16964240 18274552 |
| DDB1 | NF2 | BioGRID | empirical | 18332868 |
| DDB1 | CNOT2 | BioGRID | empirical | 20211142 |
| DDB1 | DCAF8 | HPRD, IntAct, BioGRID | empirical | 16964240 20360068 16949367 |
| DDB1 | COPS7A | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | UBXN1 | IntAct, BioGRID | empirical | 18775313 |
| DDB1 | PCNA | BioGRID | empirical | 16964240 |
| DDB1 | COPS4 | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | CRBN | IntAct, BioGRID | empirical | 20360068 16964240 20223979 |
| DDB1 | UBR5 | BioGRID | empirical | 19287380 |
| DDB1 | DTL | HPRD, IntAct, BioGRID | empirical | 16964240 17041588 20360068 16949367 |
| DDB1 | BRWD1 | BioGRID | empirical | 16964240 |
| DDB1 | POLR2J | BioGRID | empirical | 17643375 |
| DDB1 | FBXW5 | BioGRID | empirical | 18381890 |
| DDB1 | DDIT4 | MINT | empirical | 19557001 |
| DDB1 | WDR5B | IntAct | empirical | 17041588 |
| DDB1 | POU5F1 | IntAct, BioGRID | empirical | 20362542 |
| DDB1 | INO80 | IntAct | empirical | 20855601 |
| DDB1 | DCAF16 | IntAct, BioGRID | empirical | 20360068 16949367 |
| DDB1 | DET1 | HPRD, BioGRID | empirical | 14739464 16964240 16949367 |
| DDB1 | USP40 | HPRD | empirical | 11673459 |
| DDB1 | PIDD | BioGRID | empirical | 21415862 |
| DDB1 | AMBRA1 | IntAct, BioGRID | empirical | 20360068 20562859 16949367 |
| DDB1 | PRKAB1 | IntAct | empirical | 17353931 |
| DDB1 | DCAF6 | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | CAND1 | BioGRID | empirical | 15448697 |
| DDB1 | MAPK3 | MINT | empirical | 19935650 |
| DDB1 | NSFL1C | IntAct | empirical | 18775313 |
| DDB1 | RAG1 | BioGRID | empirical | 22157821 |
| DDB1 | RAG2 | BioGRID | empirical | 22157821 |
| DDB1 | RBBP5 | IntAct, BioGRID | empirical | 17041588 |
| DDB1 | RCN1 | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | RPS9 | IntAct | empirical | 17461779 |
| DDB1 | SALL2 | BioGRID | empirical | 21228219 |
| DDB1 | RFWD2 | IntAct, BioGRID | empirical | 17041588 14739464 16949367 |
| DDB1 | COPS7B | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | SKP2 | HPRD, BioGRID | empirical | 16537899 |
| DDB1 | STAT1 | IntAct | empirical | 21988832 |
| DDB1 | TADA2A | BioGRID | empirical | 20508642 |
| DDB1 | TERF1 | BioGRID | empirical | 20811636 |
| DDB1 | TERF2 | BioGRID | empirical | 20811636 |
| DDB1 | TLE2 | IntAct | empirical | 17041588 |
| DDB1 | TNFRSF1B | MINT, IntAct | empirical | 14743216 |
| DDB1 | TP53 | BioGRID | empirical | 17967871 |
| DDB1 | TRAF6 | IntAct | empirical | 17353931 |
| DDB1 | UBC | BioGRID | empirical | 16964240 16196087 20639865 22118674 18781797 21987572 21963094 21139048 21890473 21906983 |
| DDB1 | UNG | BioGRID | empirical | 20870715 |
| DDB1 | XPA | Reactome | predicted | 10214908 10526214 11511374 |
| DDB1 | XPC | BioGRID | empirical | 15882621 |
| DDB1 | YWHAZ | MINT | empirical | 15161933 |
| DDB1 | DDA1 | IntAct, BioGRID | empirical | 20360068 20562859 16964240 16949367 |
| DDB1 | DCAF10 | IntAct, BioGRID | empirical | 20360068 16964240 16949367 |
| DDB1 | ACTR5 | IntAct | empirical | 20855601 |
| DDB1 | DCAF17 | BioGRID | empirical | 16949367 |
| DDB1 | WDR26 | IntAct | empirical | 17041588 |
| DDB1 | DCAF11 | HPRD, IntAct, BioGRID | empirical | 16964240 19109893 20360068 16949367 |
| DDB1 | CDT1 | BioGRID | empirical | 15448697 |
| DDB1 | BRAP | HPRD, IntAct | empirical | 10777491 |
| DDB1 | HIST1H3A | BioGRID | empirical | 17041588 |
| DDB1 | DYRK2 | BioGRID | empirical | 19287380 |
| DDB1 | CUL4B | HPRD, IntAct, BioGRID | empirical | 18593899 17041588 20360068 16964240 16949367 16678110 19651607 |
| DDB1 | CUL4A | HPRD, IntAct, BioGRID | empirical | 14739464 17041588 20360068 18593899 16964240 16949367 16678110 16473935 15811626 15448697 20870715 19287380 22118460 |
| DDB1 | SUPT3H | BioGRID | empirical | 11564863 |
| DDB1 | IKBKG | MINT, IntAct | empirical | 14743216 |
| DDB1 | COPS3 | IntAct | empirical | 20360068 10777491 |
| DDB1 | LMO4 | HPRD, MINT | empirical | 15231748 |
| DDB1 | PAGE1 | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | EED | IntAct, BioGRID | empirical | 17041588 |
| DDB1 | DCAF5 | Sanger Interaction Map | predicted | 15345047 |
| DDB1 | TSC22D1 | IntAct | empirical | 17353931 |
| DDB1 | DCAF15 | IntAct, BioGRID | empirical | 20360068 16949367 |
| DDB1 | NEK9 | IntAct, BioGRID | empirical | 20360068 |
| DDB1 | VAMP3 | HPRD, MINT, IntAct | empirical | 16169070 |
| DDB1 | SNRNP40 | IntAct | empirical | 17041588 |
| DDB1 | IQCB1 | IntAct | empirical | 21565611 |
| DDB1 | VPRBP | IntAct | empirical | 20360068 |
| DDB1 | KIAA0101 | BioGRID | empirical | 21628590 |
| DDB1 | MAFB | BioGRID | empirical | 20211142 |
| DDB1 | RBX1 | BioGRID | empirical | 16678110 16473935 15448697 20870715 22118460 |
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Publications: 153
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The stability of histone acetyltransferase general control non-derepressible (Gcn) 5 is regulated by Cullin4-RING E3 ubiquitin ligase.
Li Y, Jaramillo-Lambert A, Hao J, Yang Y, Zhu W
J Biol Chem. 2011
PubMed ID: 21987584
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Ubiquitin ligase substrate identification through quantitative proteomics at both the protein and peptide levels.
Lee KA, Hammerle LP, Andrews PS, Stokes MP, Mustelin T, Silva JC, Black RA, Doedens JR
J Biol Chem. 2011
PubMed ID: 21987572
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Activity-based chemical proteomics accelerates inhibitor development for deubiquitylating enzymes.
Altun M, Kramer HB, Willems LI, McDermott JL, Leach CA, Goldenberg SJ, Kumar KG, Konietzny R, Fischer R, Kogan E, Mackeen MM, McGouran J, Khoronenkova SV, Parsons JL, Dianov GL, Nicholson B, Kessler BM
Chem Biol. 2011
PubMed ID: 22118674
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The molecular basis of CRL4DDB2/CSA ubiquitin ligase architecture, targeting, and activation.
Fischer ES, Scrima A, Böhm K, Matsumoto S, Lingaraju GM, Faty M, Yasuda T, Cavadini S, Wakasugi M, Hanaoka F, Iwai S, Gut H, Sugasawa K, Thomä NH
Cell. 2011
PubMed ID: 22118460
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Detecting UV-lesions in the genome: The modular CRL4 ubiquitin ligase does it best!
Scrima A, Fischer ES, Lingaraju GM, Böhm K, Cavadini S, Thomä NH
FEBS Lett. 2011
PubMed ID: 21550341
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A conditional knockout resource for the genome-wide study of mouse gene function.
Skarnes WC, Rosen B, West AP, Koutsourakis M, Bushell W, Iyer V, Mujica AO, Thomas M, Harrow J, Cox T, Jackson D, Severin J, Biggs P, Fu J, Nefedov M, de Jong PJ, Stewart AF, Bradley A
Nature. 2011
PubMed ID: 21677750
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Identification of DNA-damage DNA-binding protein 1 as a conditional essential factor for cytomegalovirus replication in interferon-γ-stimulated cells.
Trilling M, Le VT, Fiedler M, Zimmermann A, Bleifuss E, Hengel H
PLoS Pathog. 2011
PubMed ID: 21698215
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PIDD orchestrates translesion DNA synthesis in response to UV irradiation.
Logette E, Schuepbach-Mallepell S, Eckert MJ, Leo XH, Jaccard B, Manzl C, Tardivel A, Villunger A, Quadroni M, Gaide O, Tschopp J
Cell Death Differ. 2011
PubMed ID: 21415862
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Damage-specific DNA binding protein 1 (DDB1) is involved in ubiquitin-mediated proteolysis of p27Kip1 in response to UV irradiation.
Iovine B, Iannella ML, Bevilacqua MA
Biochimie. 2011
PubMed ID: 21237244
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Transcriptional and post-translational regulation of the quiescence factor and putative tumor suppressor p150(Sal2).
Sung CK, Dahl J, Yim H, Rodig S, Benjamin TL
FASEB J. 2011
PubMed ID: 21228219
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Cullin-4A·DNA damage-binding protein 1 E3 ligase complex targets tumor suppressor RASSF1A for degradation during mitosis.
Jiang L, Rong R, Sheikh MS, Huang Y
J Biol Chem. 2011
PubMed ID: 21205828
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Nuclear import of histone deacetylase 5 by requisite nuclear localization signal phosphorylation.
Greco TM, Yu F, Guise AJ, Cristea IM
Mol Cell Proteomics. 2011
PubMed ID: 21081666
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VprBP binds full-length RAG1 and is required for B-cell development and V(D)J recombination fidelity.
Kassmeier MD, Mondal K, Palmer VL, Raval P, Kumar S, Perry GA, Anderson DK, Ciborowski P, Jackson S, Xiong Y, Swanson PC
EMBO J. 2011
PubMed ID: 22157821
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Initial characterization of the human central proteome.
Burkard TR, Planyavsky M, Kaupe I, Breitwieser FP, Bürckstümmer T, Bennett KL, Superti-Furga G, Colinge J
BMC Syst Biol. 2011
PubMed ID: 21269460
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A high-resolution anatomical atlas of the transcriptome in the mouse embryo.
Diez-Roux G, Banfi S, Sultan M, Geffers L, Anand S, Rozado D, Magen A, Canidio E, Pagani M, Peluso I, Lin-Marq N, Koch M, Bilio M, Cantiello I, Verde R, De Masi C, Bianchi SA, Cicchini J, Perroud E, Mehmeti S, Dagand E, Schrinner S, Nürnberger A, Schmidt K, Metz K, Zwingmann C, Brieske N, Springer C, Hernandez AM, Herzog S, Grabbe F, Sieverding C, Fischer B, Schrader K, Brockmeyer M, Dettmer S, Helbig C, Alunni V, Battaini MA, Mura C, Henrichsen CN, Garcia-Lopez R, Echevarria D, Puelles E, Garcia-Calero E, Kruse S, Uhr M, Kauck C, Feng G, Milyaev N, Ong CK, Kumar L, Lam M, Semple CA, Gyenesei A, Mundlos S, Radelof U, Lehrach H, Sarmientos P, Reymond A, Davidson DR, Dollé P, Antonarakis SE, Yaspo ML, Martinez S, Baldock RA, Eichele G, Ballabio A
PLoS Biol. 2011
PubMed ID: 21267068
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Hepatocyte-specific deletion of DDB1 induces liver regeneration and tumorigenesis.
Yamaji S, Zhang M, Zhang J, Endo Y, Bibikova E, Goff SP, Cang Y
Proc Natl Acad Sci U S A. 2010
PubMed ID: 21135245
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HIV-1 Vpr loads uracil DNA glycosylase-2 onto DCAF1, a substrate recognition subunit of a cullin 4A-ring E3 ubiquitin ligase for proteasome-dependent degradation.
Ahn J, Vu T, Novince Z, Guerrero-Santoro J, Rapic-Otrin V, Gronenborn AM
J Biol Chem. 2010
PubMed ID: 20870715
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CRL4(Cdt2) regulates cell proliferation and histone gene expression by targeting PR-Set7/Set8 for degradation.
Abbas T, Shibata E, Park J, Jha S, Karnani N, Dutta A
Mol Cell. 2010
PubMed ID: 20932471
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Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling.
Xu G, Paige JS, Jaffrey SR
Nat Biotechnol. 2010
PubMed ID: 20639865
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Network organization of the human autophagy system.
Behrends C, Sowa ME, Gygi SP, Harper JW
Nature. 2010
PubMed ID: 20562859
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ATAC and Mediator coactivators form a stable complex and regulate a set of non-coding RNA genes.
Krebs AR, Demmers J, Karmodiya K, Chang NC, Chang AC, Tora L
EMBO Rep. 2010
PubMed ID: 20508642
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The functions of the HIV1 protein Vpr and its action through the DCAF1.DDB1.Cullin4 ubiquitin ligase.
Casey L, Wen X, de Noronha CM
Cytokine. 2010
PubMed ID: 20347598
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Myc protein is stabilized by suppression of a novel E3 ligase complex in cancer cells.
Choi SH, Wright JB, Gerber SA, Cole MD
Genes Dev. 2010
PubMed ID: 20551172
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A ubiquitin-binding domain in Cockayne syndrome B required for transcription-coupled nucleotide excision repair.
Anindya R, Mari PO, Kristensen U, Kool H, Giglia-Mari G, Mullenders LH, Fousteri M, Vermeulen W, Egly JM, Svejstrup JQ
Mol Cell. 2010
PubMed ID: 20541997
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Damaged DNA-binding protein 1 (DDB1) interacts with Cdh1 and modulates the function of APC/CCdh1.
Lv XB, Xie F, Hu K, Wu Y, Cao LL, Han X, Sang Y, Zeng YX, Kang T
J Biol Chem. 2010
PubMed ID: 20395298
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DDB2 complex-mediated ubiquitylation around DNA damage is oppositely regulated by XPC and Ku and contributes to the recruitment of XPA.
Takedachi A, Saijo M, Tanaka K
Mol Cell Biol. 2010
PubMed ID: 20368362
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Systematic analysis of human protein complexes identifies chromosome segregation proteins.
Hutchins JR, Toyoda Y, Hegemann B, Poser I, Hériché JK, Sykora MM, Augsburg M, Hudecz O, Buschhorn BA, Bulkescher J, Conrad C, Comartin D, Schleiffer A, Sarov M, Pozniakovsky A, Slabicki MM, Schloissnig S, Steinmacher I, Leuschner M, Ssykor A, Lawo S, Pelletier L, Stark H, Nasmyth K, Ellenberg J, Durbin R, Buchholz F, Mechtler K, Hyman AA, Peters JM
Science. 2010
PubMed ID: 20360068
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An expanded Oct4 interaction network: implications for stem cell biology, development, and disease.
Pardo M, Lang B, Yu L, Prosser H, Bradley A, Babu MM, Choudhary J
Cell Stem Cell. 2010
PubMed ID: 20362542
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HIV-1 Vpr induces the K48-linked polyubiquitination and proteasomal degradation of target cellular proteins to activate ATR and promote G2 arrest.
Belzile JP, Richard J, Rougeau N, Xiao Y, Cohen EA
J Virol. 2010
PubMed ID: 20089662
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Identification of a primary target of thalidomide teratogenicity.
Ito T, Ando H, Suzuki T, Ogura T, Hotta K, Imamura Y, Yamaguchi Y, Handa H
Science. 2010
PubMed ID: 20223979
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An atlas of combinatorial transcriptional regulation in mouse and man.
Ravasi T, Suzuki H, Cannistraci CV, Katayama S, Bajic VB, Tan K, Akalin A, Schmeier S, Kanamori-Katayama M, Bertin N, Carninci P, Daub CO, Forrest AR, Gough J, Grimmond S, Han JH, Hashimoto T, Hide W, Hofmann O, Kamburov A, Kaur M, Kawaji H, Kubosaki A, Lassmann T, van Nimwegen E, MacPherson CR, Ogawa C, Radovanovic A, Schwartz A, Teasdale RD, Tegnér J, Lenhard B, Teichmann SA, Arakawa T, Ninomiya N, Murakami K, Tagami M, Fukuda S, Imamura K, Kai C, Ishihara R, Kitazume Y, Kawai J, Hume DA, Ideker T, Hayashizaki Y
Cell. 2010
PubMed ID: 20211142
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The protein network surrounding the human telomere repeat binding factors TRF1, TRF2, and POT1.
Giannone RJ, McDonald HW, Hurst GB, Shen RF, Wang Y, Liu Y
PLoS One. 2010
PubMed ID: 20811636
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A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58.
Yokoyama S, Ito Y, Ueno-Kudoh H, Shimizu H, Uchibe K, Albini S, Mitsuoka K, Miyaki S, Kiso M, Nagai A, Hikata T, Osada T, Fukuda N, Yamashita S, Harada D, Mezzano V, Kasai M, Puri PL, Hayashizaki Y, Okado H, Hashimoto M, Asahara H
Dev Cell. 2009
PubMed ID: 20059953
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CRL4s: the CUL4-RING E3 ubiquitin ligases.
Jackson S, Xiong Y
Trends Biochem Sci. 2009
PubMed ID: 19818632
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Candidate biomarkers of response to an experimental cancer drug identified through a large-scale RNA interference genetic screen.
Mullenders J, von der Saal W, van Dongen MM, Reiff U, van Willigen R, Beijersbergen RL, Tiefenthaler G, Klein C, Bernards R
Clin Cancer Res. 2009
PubMed ID: 19723642
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Lysine acetylation targets protein complexes and co-regulates major cellular functions.
Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M
Science. 2009
PubMed ID: 19608861
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Aryl hydrocarbon receptor suppresses intestinal carcinogenesis in ApcMin/+ mice with natural ligands.
Kawajiri K, Kobayashi Y, Ohtake F, Ikuta T, Matsushima Y, Mimura J, Pettersson S, Pollenz RS, Sakaki T, Hirokawa T, Akiyama T, Kurosumi M, Poellinger L, Kato S, Fujii-Kuriyama Y
Proc Natl Acad Sci U S A. 2009
PubMed ID: 19651607
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REDD1, an inhibitor of mTOR signalling, is regulated by the CUL4A-DDB1 ubiquitin ligase.
Katiyar S, Liu E, Knutzen CA, Lang ES, Lombardo CR, Sankar S, Toth JI, Petroski MD, Ronai Z, Chiang GG
EMBO Rep. 2009
PubMed ID: 19557001
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Lineage-specific biology revealed by a finished genome assembly of the mouse.
Church DM, Goodstadt L, Hillier LW, Zody MC, Goldstein S, She X, Bult CJ, Agarwala R, Cherry JL, DiCuccio M, Hlavina W, Kapustin Y, Meric P, Maglott D, Birtle Z, Marques AC, Graves T, Zhou S, Teague B, Potamousis K, Churas C, Place M, Herschleb J, Runnheim R, Forrest D, Amos-Landgraf J, Schwartz DC, Cheng Z, Lindblad-Toh K, Eichler EE, Ponting CP, Mouse Genome Sequencing Consortium
PLoS Biol. 2009
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Protein kinase DYRK2 is a scaffold that facilitates assembly of an E3 ligase.
Maddika S, Chen J
Nat Cell Biol. 2009
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DDB1 targets Chk1 to the Cul4 E3 ligase complex in normal cycling cells and in cells experiencing replication stress.
Leung-Pineda V, Huh J, Piwnica-Worms H
Cancer Res. 2009
PubMed ID: 19276361
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DDB1-CUL4 and MLL1 mediate oncogene-induced p16INK4a activation.
Kotake Y, Zeng Y, Xiong Y
Cancer Res. 2009
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Barrier-to-autointegration factor proteome reveals chromatin-regulatory partners.
Montes de Oca R, Shoemaker CJ, Gucek M, Cole RN, Wilson KL
PLoS One. 2009
PubMed ID: 19759913
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Structural basis of UV DNA-damage recognition by the DDB1-DDB2 complex.
Scrima A, Konícková R, Czyzewski BK, Kawasaki Y, Jeffrey PD, Groisman R, Nakatani Y, Iwai S, Pavletich NP, Thomä NH
Cell. 2008
PubMed ID: 19109893
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Cellular concentrations of DDB2 regulate dynamic binding of DDB1 at UV-induced DNA damage.
Alekseev S, Luijsterburg MS, Pines A, Geverts B, Mari PO, Giglia-Mari G, Lans H, Houtsmuller AB, Mullenders LH, Hoeijmakers JH, Vermeulen W
Mol Cell Biol. 2008
PubMed ID: 18936169
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A functional link between Wnt signaling and SKP2-independent p27 turnover in mammary tumors.
Miranda-Carboni GA, Krum SA, Yee K, Nava M, Deng QE, Pervin S, Collado-Hidalgo A, Galic Z, Zack JA, Nakayama K, Nakayama KI, Lane TF
Genes Dev. 2008
PubMed ID: 19056892
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CDK inhibitor p21 is degraded by a proliferating cell nuclear antigen-coupled Cul4-DDB1Cdt2 pathway during S phase and after UV irradiation.
Nishitani H, Shiomi Y, Iida H, Michishita M, Takami T, Tsurimoto T
J Biol Chem. 2008
PubMed ID: 18703516
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Large-scale gene trapping in C57BL/6N mouse embryonic stem cells.
Hansen GM, Markesich DC, Burnett MB, Zhu Q, Dionne KM, Richter LJ, Finnell RH, Sands AT, Zambrowicz BP, Abuin A
Genome Res. 2008
PubMed ID: 18799693
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Quantitative analysis of global ubiquitination in HeLa cells by mass spectrometry.
Meierhofer D, Wang X, Huang L, Kaiser P
J Proteome Res. 2008
PubMed ID: 18781797
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PCNA-dependent regulation of p21 ubiquitylation and degradation via the CRL4Cdt2 ubiquitin ligase complex.
Abbas T, Sivaprasad U, Terai K, Amador V, Pagano M, Dutta A
Genes Dev. 2008
PubMed ID: 18794347
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UBXD7 binds multiple ubiquitin ligases and implicates p97 in HIF1alpha turnover.
Alexandru G, Graumann J, Smith GT, Kolawa NJ, Fang R, Deshaies RJ
Cell. 2008
PubMed ID: 18775313
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Human immunodeficiency virus type 1 Vpr-binding protein VprBP, a WD40 protein associated with the DDB1-CUL4 E3 ubiquitin ligase, is essential for DNA replication and embryonic development.
McCall CM, Miliani de Marval PL, Chastain PD, Jackson SC, He YJ, Kotake Y, Cook JG, Xiong Y
Mol Cell Biol. 2008
PubMed ID: 18606781
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Epstein-Barr virus latent membrane protein 1 represses DNA repair through the PI3K/Akt/FOXO3a pathway in human epithelial cells.
Chen YR, Liu MT, Chang YT, Wu CC, Hu CY, Chen JY
J Virol. 2008
PubMed ID: 18524825
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Assembly with the Cul4A-DDB1DCAF1 ubiquitin ligase protects HIV-1 Vpr from proteasomal degradation.
Le Rouzic E, Morel M, Ayinde D, Belaïdouni N, Letienne J, Transy C, Margottin-Goguet F
J Biol Chem. 2008
PubMed ID: 18524771
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VprBP targets Merlin to the Roc1-Cul4A-DDB1 E3 ligase complex for degradation.
Huang J, Chen J
Oncogene. 2008
PubMed ID: 18332868
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The cullin 4B-based UV-damaged DNA-binding protein ligase binds to UV-damaged chromatin and ubiquitinates histone H2A.
Guerrero-Santoro J, Kapetanaki MG, Hsieh CL, Gorbachinsky I, Levine AS, Rapić-Otrin V
Cancer Res. 2008
PubMed ID: 18593899
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Knockdown of damage-specific DNA binding protein 1 (DDB1) enhances the HBx-siRNA-mediated inhibition of HBV replication.
Tang KF, Xie J, Chen M, Liu Q, Zhou XY, Zeng W, Huang AL, Zuo GQ, Wang Y, Xiang R, Ren H
Biologicals. 2008
PubMed ID: 18289873
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WD40 protein FBW5 promotes ubiquitination of tumor suppressor TSC2 by DDB1-CUL4-ROC1 ligase.
Hu J, Zacharek S, He YJ, Lee H, Shumway S, Duronio RJ, Xiong Y
Genes Dev. 2008
PubMed ID: 18381890
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Ribosomal proteins are targets for the NEDD8 pathway.
Xirodimas DP, Sundqvist A, Nakamura A, Shen L, Botting C, Hay RT
EMBO Rep. 2008
PubMed ID: 18274552
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mTORC1 signaling requires proteasomal function and the involvement of CUL4-DDB1 ubiquitin E3 ligase.
Ghosh P, Wu M, Zhang H, Sun H
Cell Cycle. 2008
PubMed ID: 18235224
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The xeroderma pigmentosum group E gene product DDB2 activates nucleotide excision repair by regulating the level of p21Waf1/Cip1.
Stoyanova T, Yoon T, Kopanja D, Mokyr MB, Raychaudhuri P
Mol Cell Biol. 2008
PubMed ID: 17967871
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Proteomic and functional analysis of Argonaute-containing mRNA-protein complexes in human cells.
Höck J, Weinmann L, Ender C, Rüdel S, Kremmer E, Raabe M, Urlaub H, Meister G
EMBO Rep. 2007
PubMed ID: 17932509
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DDB1 and Cul4A are required for human immunodeficiency virus type 1 Vpr-induced G2 arrest.
Tan L, Ehrlich E, Yu XF
J Virol. 2007
PubMed ID: 17626091
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The HIV1 protein Vpr acts to promote G2 cell cycle arrest by engaging a DDB1 and Cullin4A-containing ubiquitin ligase complex using VprBP/DCAF1 as an adaptor.
Wen X, Duus KM, Friedrich TD, de Noronha CM
J Biol Chem. 2007
PubMed ID: 17620334
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EUCOMM--the European conditional mouse mutagenesis program.
Friedel RH, Seisenberger C, Kaloff C, Wurst W
Brief Funct Genomic Proteomic. 2007
PubMed ID: 17967808
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Systematic analysis of the protein interaction network for the human transcription machinery reveals the identity of the 7SK capping enzyme.
Jeronimo C, Forget D, Bouchard A, Li Q, Chua G, Poitras C, Thérien C, Bergeron D, Bourassa S, Greenblatt J, Chabot B, Poirier GG, Hughes TR, Blanchette M, Price DH, Coulombe B
Mol Cell. 2007
PubMed ID: 17643375
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Lentiviral Vpr usurps Cul4-DDB1[VprBP] E3 ubiquitin ligase to modulate cell cycle.
Hrecka K, Gierszewska M, Srivastava S, Kozaczkiewicz L, Swanson SK, Florens L, Washburn MP, Skowronski J
Proc Natl Acad Sci U S A. 2007
PubMed ID: 17609381
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Dioxin receptor is a ligand-dependent E3 ubiquitin ligase.
Ohtake F, Baba A, Takada I, Okada M, Iwasaki K, Miki H, Takahashi S, Kouzmenko A, Nohara K, Chiba T, Fujii-Kuriyama Y, Kato S
Nature. 2007
PubMed ID: 17392787
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HIV-1 Vpr function is mediated by interaction with the damage-specific DNA-binding protein DDB1.
Schröfelbauer B, Hakata Y, Landau NR
Proc Natl Acad Sci U S A. 2007
PubMed ID: 17360488
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DDB1 is essential for genomic stability in developing epidermis.
Cang Y, Zhang J, Nicholas SA, Kim AL, Zhou P, Goff SP
Proc Natl Acad Sci U S A. 2007
PubMed ID: 17301228
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Characterization of the interactome of the human MutL homologues MLH1, PMS1, and PMS2.
Cannavo E, Gerrits B, Marra G, Schlapbach R, Jiricny J
J Biol Chem. 2007
PubMed ID: 17148452
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Large-scale phosphorylation analysis of mouse liver.
Villén J, Beausoleil SA, Gerber SA, Gygi SP
Proc Natl Acad Sci U S A. 2007
PubMed ID: 17242355
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HIV-1 Vpr activates the G2 checkpoint through manipulation of the ubiquitin proteasome system.
DeHart JL, Zimmerman ES, Ardon O, Monteiro-Filho CM, Argañaraz ER, Planelles V
Virol J. 2007
PubMed ID: 17559673
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Protein phosphorylation and expression profiling by Yin-yang multidimensional liquid chromatography (Yin-yang MDLC) mass spectrometry.
Dai J, Jin WH, Sheng QH, Shieh CH, Wu JR, Zeng R
J Proteome Res. 2007
PubMed ID: 17203969
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Deletion of DDB1 in mouse brain and lens leads to p53-dependent elimination of proliferating cells.
Cang Y, Zhang J, Nicholas SA, Bastien J, Li B, Zhou P, Goff SP
Cell. 2006
PubMed ID: 17129780
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DNA nucleotide excision repair-dependent signaling to checkpoint activation.
Marini F, Nardo T, Giannattasio M, Minuzzo M, Stefanini M, Plevani P, Muzi Falconi M
Proc Natl Acad Sci U S A. 2006
PubMed ID: 17088560
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DDB1 functions as a linker to recruit receptor WD40 proteins to CUL4-ROC1 ubiquitin ligases.
He YJ, McCall CM, Hu J, Zeng Y, Xiong Y
Genes Dev. 2006
PubMed ID: 17079684
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CUL4-DDB1 ubiquitin ligase interacts with multiple WD40-repeat proteins and regulates histone methylation.
Higa LA, Wu M, Ye T, Kobayashi R, Sun H, Zhang H
Nat Cell Biol. 2006
PubMed ID: 17041588
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DDB1 maintains genome integrity through regulation of Cdt1.
Lovejoy CA, Lock K, Yenamandra A, Cortez D
Mol Cell Biol. 2006
PubMed ID: 16940174
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Molecular architecture and assembly of the DDB1-CUL4A ubiquitin ligase machinery.
Angers S, Li T, Yi X, MacCoss MJ, Moon RT, Zheng N
Nature. 2006
PubMed ID: 16964240
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DNA damage binding protein component DDB1 participates in nucleotide excision repair through DDB2 DNA-binding and cullin 4A ubiquitin ligase activity.
Li J, Wang QE, Zhu Q, El-Mahdy MA, Wani G, Praetorius-Ibba M, Wani AA
Cancer Res. 2006
PubMed ID: 16951172
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A family of diverse Cul4-Ddb1-interacting proteins includes Cdt2, which is required for S phase destruction of the replication factor Cdt1.
Jin J, Arias EE, Chen J, Harper JW, Walter JC
Mol Cell. 2006
PubMed ID: 16949367
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L2DTL/CDT2 interacts with the CUL4/DDB1 complex and PCNA and regulates CDT1 proteolysis in response to DNA damage.
Higa LA, Banks D, Wu M, Kobayashi R, Sun H, Zhang H
Cell Cycle. 2006
PubMed ID: 16861906
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L2DTL/CDT2 and PCNA interact with p53 and regulate p53 polyubiquitination and protein stability through MDM2 and CUL4A/DDB1 complexes.
Banks D, Wu M, Higa LA, Gavrilova N, Quan J, Ye T, Kobayashi R, Sun H, Zhang H
Cell Cycle. 2006
PubMed ID: 16861890
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Cullin 4A-mediated proteolysis of DDB2 protein at DNA damage sites regulates in vivo lesion recognition by XPC.
El-Mahdy MA, Zhu Q, Wang QE, Wani G, Praetorius-Ibba M, Wani AA
J Biol Chem. 2006
PubMed ID: 16527807
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Histone H3 and H4 ubiquitylation by the CUL4-DDB-ROC1 ubiquitin ligase facilitates cellular response to DNA damage.
Wang H, Zhai L, Xu J, Joo HY, Jackson S, Erdjument-Bromage H, Tempst P, Xiong Y, Zhang Y
Mol Cell. 2006
PubMed ID: 16678110
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Cul4A and DDB1 associate with Skp2 to target p27Kip1 for proteolysis involving the COP9 signalosome.
Bondar T, Kalinina A, Khair L, Kopanja D, Nag A, Bagchi S, Raychaudhuri P
Mol Cell Biol. 2006
PubMed ID: 16537899
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Human chromosome 11 DNA sequence and analysis including novel gene identification.
Taylor TD, Noguchi H, Totoki Y, Toyoda A, Kuroki Y, Dewar K, Lloyd C, Itoh T, Takeda T, Kim DW, She X, Barlow KF, Bloom T, Bruford E, Chang JL, Cuomo CA, Eichler E, FitzGerald MG, Jaffe DB, LaButti K, Nicol R, Park HS, Seaman C, Sougnez C, Yang X, Zimmer AR, Zody MC, Birren BW, Nusbaum C, Fujiyama A, Hattori M, Rogers J, Lander ES, Sakaki Y
Nature. 2006
PubMed ID: 16554811
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PCNA is a cofactor for Cdt1 degradation by CUL4/DDB1-mediated N-terminal ubiquitination.
Senga T, Sivaprasad U, Zhu W, Park JH, Arias EE, Walter JC, Dutta A
J Biol Chem. 2006
PubMed ID: 16407252
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Two E3 ubiquitin ligases, SCF-Skp2 and DDB1-Cul4, target human Cdt1 for proteolysis.
Nishitani H, Sugimoto N, Roukos V, Nakanishi Y, Saijo M, Obuse C, Tsurimoto T, Nakayama KI, Nakayama K, Fujita M, Lygerou Z, Nishimoto T
EMBO J. 2006
PubMed ID: 16482215
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The DDB1-CUL4ADDB2 ubiquitin ligase is deficient in xeroderma pigmentosum group E and targets histone H2A at UV-damaged DNA sites.
Kapetanaki MG, Guerrero-Santoro J, Bisi DC, Hsieh CL, Rapić-Otrin V, Levine AS
Proc Natl Acad Sci U S A. 2006
PubMed ID: 16473935
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An evolutionarily conserved function of proliferating cell nuclear antigen for Cdt1 degradation by the Cul4-Ddb1 ubiquitin ligase in response to DNA damage.
Hu J, Xiong Y
J Biol Chem. 2006
PubMed ID: 16407242
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Structure of DDB1 in complex with a paramyxovirus V protein: viral hijack of a propeller cluster in ubiquitin ligase.
Li T, Chen X, Garbutt KC, Zhou P, Zheng N
Cell. 2006
PubMed ID: 16413485
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DDB1-DDB2 (xeroderma pigmentosum group E) protein complex recognizes a cyclobutane pyrimidine dimer, mismatches, apurinic/apyrimidinic sites, and compound lesions in DNA.
Wittschieben BØ, Iwai S, Wood RD
J Biol Chem. 2005
PubMed ID: 16223728
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Xeroderma pigmentosum complementation group E protein (XPE/DDB2): purification of various complexes of XPE and analyses of their damaged DNA binding and putative DNA repair properties.
Kulaksiz G, Reardon JT, Sancar A
Mol Cell Biol. 2005
PubMed ID: 16260596
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Simian virus 5 V protein acts as an adaptor, linking DDB1 to STAT2, to facilitate the ubiquitination of STAT1.
Precious B, Childs K, Fitzpatrick-Swallow V, Goodbourn S, Randall RE
J Virol. 2005
PubMed ID: 16227264
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Large-scale analysis of the human ubiquitin-related proteome.
Matsumoto M, Hatakeyama S, Oyamada K, Oda Y, Nishimura T, Nakayama KI
Proteomics. 2005
PubMed ID: 16196087
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A human protein-protein interaction network: a resource for annotating the proteome.
Stelzl U, Worm U, Lalowski M, Haenig C, Brembeck FH, Goehler H, Stroedicke M, Zenkner M, Schoenherr A, Koeppen S, Timm J, Mintzlaff S, Abraham C, Bock N, Kietzmann S, Goedde A, Toksöz E, Droege A, Krobitsch S, Korn B, Birchmeier W, Lehrach H, Wanker EE
Cell. 2005
PubMed ID: 16169070
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Antisense transcription in the mammalian transcriptome.
Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, Nakamura M, Nishida H, Yap CC, Suzuki M, Kawai J, Suzuki H, Carninci P, Hayashizaki Y, Wells C, Frith M, Ravasi T, Pang KC, Hallinan J, Mattick J, Hume DA, Lipovich L, Batalov S, Engström PG, Mizuno Y, Faghihi MA, Sandelin A, Chalk AM, Mottagui-Tabar S, Liang Z, Lenhard B, Wahlestedt C, RIKEN Genome Exploration Research Group, Genome Science Group (Genome Network Project Core Group), FANTOM Consortium
Science. 2005
PubMed ID: 16141073
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The transcriptional landscape of the mammalian genome.
Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, Maeda N, Oyama R, Ravasi T, Lenhard B, Wells C, Kodzius R, Shimokawa K, Bajic VB, Brenner SE, Batalov S, Forrest AR, Zavolan M, Davis MJ, Wilming LG, Aidinis V, Allen JE, Ambesi-Impiombato A, Apweiler R, Aturaliya RN, Bailey TL, Bansal M, Baxter L, Beisel KW, Bersano T, Bono H, Chalk AM, Chiu KP, Choudhary V, Christoffels A, Clutterbuck DR, Crowe ML, Dalla E, Dalrymple BP, de Bono B, Della Gatta G, di Bernardo D, Down T, Engstrom P, Fagiolini M, Faulkner G, Fletcher CF, Fukushima T, Furuno M, Futaki S, Gariboldi M, Georgii-Hemming P, Gingeras TR, Gojobori T, Green RE, Gustincich S, Harbers M, Hayashi Y, Hensch TK, Hirokawa N, Hill D, Huminiecki L, Iacono M, Ikeo K, Iwama A, Ishikawa T, Jakt M, Kanapin A, Katoh M, Kawasawa Y, Kelso J, Kitamura H, Kitano H, Kollias G, Krishnan SP, Kruger A, Kummerfeld SK, Kurochkin IV, Lareau LF, Lazarevic D, Lipovich L, Liu J, Liuni S, McWilliam S, Madan Babu M, Madera M, Marchionni L, Matsuda H, Matsuzawa S, Miki H, Mignone F, Miyake S, Morris K, Mottagui-Tabar S, Mulder N, Nakano N, Nakauchi H, Ng P, Nilsson R, Nishiguchi S, Nishikawa S, Nori F, Ohara O, Okazaki Y, Orlando V, Pang KC, Pavan WJ, Pavesi G, Pesole G, Petrovsky N, Piazza S, Reed J, Reid JF, Ring BZ, Ringwald M, Rost B, Ruan Y, Salzberg SL, Sandelin A, Schneider C, Schönbach C, Sekiguchi K, Semple CA, Seno S, Sessa L, Sheng Y, Shibata Y, Shimada H, Shimada K, Silva D, Sinclair B, Sperling S, Stupka E, Sugiura K, Sultana R, Takenaka Y, Taki K, Tammoja K, Tan SL, Tang S, Taylor MS, Tegner J, Teichmann SA, Ueda HR, van Nimwegen E, Verardo R, Wei CL, Yagi K, Yamanishi H, Zabarovsky E, Zhu S, Zimmer A, Hide W, Bult C, Grimmond SM, Teasdale RD, Liu ET, Brusic V, Quackenbush J, Wahlestedt C, Mattick JS, Hume DA, Kai C, Sasaki D, Tomaru Y, Fukuda S, Kanamori-Katayama M, Suzuki M, Aoki J, Arakawa T, Iida J, Imamura K, Itoh M, Kato T, Kawaji H, Kawagashira N, Kawashima T, Kojima M, Kondo S, Konno H, Nakano K, Ninomiya N, Nishio T, Okada M, Plessy C, Shibata K, Shiraki T, Suzuki S, Tagami M, Waki K, Watahiki A, Okamura-Oho Y, Suzuki H, Kawai J, Hayashizaki Y, FANTOM Consortium, RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group)
Science. 2005
PubMed ID: 16141072
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CAND1 enhances deneddylation of CUL1 by COP9 signalosome.
Min KW, Kwon MJ, Park HS, Park Y, Yoon SK, Yoon JB
Biochem Biophys Res Commun. 2005
PubMed ID: 16036220
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WW domains provide a platform for the assembly of multiprotein networks.
Ingham RJ, Colwill K, Howard C, Dettwiler S, Lim CS, Yu J, Hersi K, Raaijmakers J, Gish G, Mbamalu G, Taylor L, Yeung B, Vassilovski G, Amin M, Chen F, Matskova L, Winberg G, Ernberg I, Linding R, O'donnell P, Starostine A, Keller W, Metalnikov P, Stark C, Pawson T
Mol Cell Biol. 2005
PubMed ID: 16055720
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UV-induced ubiquitylation of XPC protein mediated by UV-DDB-ubiquitin ligase complex.
Sugasawa K, Okuda Y, Saijo M, Nishi R, Matsuda N, Chu G, Mori T, Iwai S, Tanaka K, Tanaka K, Hanaoka F
Cell. 2005
PubMed ID: 15882621
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DDB2, the xeroderma pigmentosum group E gene product, is directly ubiquitylated by Cullin 4A-based ubiquitin ligase complex.
Matsuda N, Azuma K, Saijo M, Iemura S, Hioki Y, Natsume T, Chiba T, Tanaka K, Tanaka K
DNA Repair (Amst). 2005
PubMed ID: 15811626
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Hepatitis B virus X protein stimulates viral genome replication via a DDB1-dependent pathway distinct from that leading to cell death.
Leupin O, Bontron S, Schaeffer C, Strubin M
J Virol. 2005
PubMed ID: 15767425
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Gene and alternative splicing annotation with AIR.
Florea L, Di Francesco V, Miller J, Turner R, Yao A, Harris M, Walenz B, Mobarry C, Merkulov GV, Charlab R, Dew I, Deng Z, Istrail S, Li P, Sutton G
Genome Res. 2005
PubMed ID: 15632090
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Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas.
Watahiki A, Waki K, Hayatsu N, Shiraki T, Kondo S, Nakamura M, Sasaki D, Arakawa T, Kawai J, Harbers M, Hayashizaki Y, Carninci P
Nat Methods. 2004
PubMed ID: 15782199
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The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).
Gerhard DS, Wagner L, Feingold EA, Shenmen CM, Grouse LH, Schuler G, Klein SL, Old S, Rasooly R, Good P, Guyer M, Peck AM, Derge JG, Lipman D, Collins FS, Jang W, Sherry S, Feolo M, Misquitta L, Lee E, Rotmistrovsky K, Greenhut SF, Schaefer CF, Buetow K, Bonner TI, Haussler D, Kent J, Kiekhaus M, Furey T, Brent M, Prange C, Schreiber K, Shapiro N, Bhat NK, Hopkins RF, Hsie F, Driscoll T, Soares MB, Casavant TL, Scheetz TE, Brown-stein MJ, Usdin TB, Toshiyuki S, Carninci P, Piao Y, Dudekula DB, Ko MS, Kawakami K, Suzuki Y, Sugano S, Gruber CE, Smith MR, Simmons B, Moore T, Waterman R, Johnson SL, Ruan Y, Wei CL, Mathavan S, Gunaratne PH, Wu J, Garcia AM, Hulyk SW, Fuh E, Yuan Y, Sneed A, Kowis C, Hodgson A, Muzny DM, McPherson J, Gibbs RA, Fahey J, Helton E, Ketteman M, Madan A, Rodrigues S, Sanchez A, Whiting M, Madari A, Young AC, Wetherby KD, Granite SJ, Kwong PN, Brinkley CP, Pearson RL, Bouffard GG, Blakesly RW, Green ED, Dickson MC, Rodriguez AC, Grimwood J, Schmutz J, Myers RM, Butterfield YS, Griffith M, Griffith OL, Krzywinski MI, Liao N, Morin R, Morrin R, Palmquist D, Petrescu AS, Skalska U, Smailus DE, Stott JM, Schnerch A, Schein JE, Jones SJ, Holt RA, Baross A, Marra MA, Clifton S, Makowski KA, Bosak S, Malek J, MGC Project Team
Genome Res. 2004
PubMed ID: 15489334
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Targeted ubiquitination of CDT1 by the DDB1-CUL4A-ROC1 ligase in response to DNA damage.
Hu J, McCall CM, Ohta T, Xiong Y
Nat Cell Biol. 2004
PubMed ID: 15448697
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Functional proteomics mapping of a human signaling pathway.
Colland F, Jacq X, Trouplin V, Mougin C, Groizeleau C, Hamburger A, Meil A, Wojcik J, Legrain P, Gauthier JM
Genome Res. 2004
PubMed ID: 15231748
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Genome sequence of the Brown Norway rat yields insights into mammalian evolution.
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Nature. 2004
PubMed ID: 15057822
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Identification and analysis of genes from the mouse otic vesicle and their association with developmental subprocesses through in situ hybridization.
Powles N, Babbs C, Ficker M, Schimmang T, Maconochie M
Dev Biol. 2004
PubMed ID: 15031102
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Human De-etiolated-1 regulates c-Jun by assembling a CUL4A ubiquitin ligase.
Wertz IE, O'Rourke KM, Zhang Z, Dornan D, Arnott D, Deshaies RJ, Dixit VM
Science. 2004
PubMed ID: 14739464
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Proteomics analysis of the centromere complex from HeLa interphase cells: UV-damaged DNA binding protein 1 (DDB-1) is a component of the CEN-complex, while BMI-1 is transiently co-localized with the centromeric region in interphase.
Obuse C, Yang H, Nozaki N, Goto S, Okazaki T, Yoda K
Genes Cells. 2004
PubMed ID: 15009096
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Complete sequencing and characterization of 21,243 full-length human cDNAs.
Ota T, Suzuki Y, Nishikawa T, Otsuki T, Sugiyama T, Irie R, Wakamatsu A, Hayashi K, Sato H, Nagai K, Kimura K, Makita H, Sekine M, Obayashi M, Nishi T, Shibahara T, Tanaka T, Ishii S, Yamamoto J, Saito K, Kawai Y, Isono Y, Nakamura Y, Nagahari K, Murakami K, Yasuda T, Iwayanagi T, Wagatsuma M, Shiratori A, Sudo H, Hosoiri T, Kaku Y, Kodaira H, Kondo H, Sugawara M, Takahashi M, Kanda K, Yokoi T, Furuya T, Kikkawa E, Omura Y, Abe K, Kamihara K, Katsuta N, Sato K, Tanikawa M, Yamazaki M, Ninomiya K, Ishibashi T, Yamashita H, Murakawa K, Fujimori K, Tanai H, Kimata M, Watanabe M, Hiraoka S, Chiba Y, Ishida S, Ono Y, Takiguchi S, Watanabe S, Yosida M, Hotuta T, Kusano J, Kanehori K, Takahashi-Fujii A, Hara H, Tanase TO, Nomura Y, Togiya S, Komai F, Hara R, Takeuchi K, Arita M, Imose N, Musashino K, Yuuki H, Oshima A, Sasaki N, Aotsuka S, Yoshikawa Y, Matsunawa H, Ichihara T, Shiohata N, Sano S, Moriya S, Momiyama H, Satoh N, Takami S, Terashima Y, Suzuki O, Nakagawa S, Senoh A, Mizoguchi H, Goto Y, Shimizu F, Wakebe H, Hishigaki H, Watanabe T, Sugiyama A, Takemoto M, Kawakami B, Yamazaki M, Watanabe K, Kumagai A, Itakura S, Fukuzumi Y, Fujimori Y, Komiyama M, Tashiro H, Tanigami A, Fujiwara T, Ono T, Yamada K, Fujii Y, Ozaki K, Hirao M, Ohmori Y, Kawabata A, Hikiji T, Kobatake N, Inagaki H, Ikema Y, Okamoto S, Okitani R, Kawakami T, Noguchi S, Itoh T, Shigeta K, Senba T, Matsumura K, Nakajima Y, Mizuno T, Morinaga M, Sasaki M, Togashi T, Oyama M, Hata H, Watanabe M, Komatsu T, Mizushima-Sugano J, Satoh T, Shirai Y, Takahashi Y, Nakagawa K, Okumura K, Nagase T, Nomura N, Kikuchi H, Masuho Y, Yamashita R, Nakai K, Yada T, Nakamura Y, Ohara O, Isogai T, Sugano S
Nat Genet. 2004
PubMed ID: 14702039
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Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention.
Zambrowicz BP, Abuin A, Ramirez-Solis R, Richter LJ, Piggott J, BeltrandelRio H, Buxton EC, Edwards J, Finch RA, Friddle CJ, Gupta A, Hansen G, Hu Y, Huang W, Jaing C, Key BW, Kipp P, Kohlhauff B, Ma ZQ, Markesich D, Payne R, Potter DG, Qian N, Shaw J, Schrick J, Shi ZZ, Sparks MJ, Van Sligtenhorst I, Vogel P, Walke W, Xu N, Zhu Q, Person C, Sands AT
Proc Natl Acad Sci U S A. 2003
PubMed ID: 14610273
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Nuclear coactivator-62 kDa/Ski-interacting protein is a nuclear matrix-associated coactivator that may couple vitamin D receptor-mediated transcription and RNA splicing.
Zhang C, Dowd DR, Staal A, Gu C, Lian JB, van Wijnen AJ, Stein GS, MacDonald PN
J Biol Chem. 2003
PubMed ID: 12840015
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A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome.
Hansen J, Floss T, Van Sloun P, Füchtbauer EM, Vauti F, Arnold HH, Schnütgen F, Wurst W, von Melchner H, Ruiz P
Proc Natl Acad Sci U S A. 2003
PubMed ID: 12904583
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Hepatitis B virus X protein and simian virus 5 V protein exhibit similar UV-DDB1 binding properties to mediate distinct activities.
Leupin O, Bontron S, Strubin M
J Virol. 2003
PubMed ID: 12743284
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The ubiquitin ligase activity in the DDB2 and CSA complexes is differentially regulated by the COP9 signalosome in response to DNA damage.
Groisman R, Polanowska J, Kuraoka I, Sawada J, Saijo M, Drapkin R, Kisselev AF, Tanaka K, Nakatani Y
Cell. 2003
PubMed ID: 12732143
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BayGenomics: a resource of insertional mutations in mouse embryonic stem cells.
Stryke D, Kawamoto M, Huang CC, Johns SJ, King LA, Harper CA, Meng EC, Lee RE, Yee A, L'Italien L, Chuang PT, Young SG, Skarnes WC, Babbitt PC, Ferrin TE
Nucleic Acids Res. 2003
PubMed ID: 12520002
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Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.
Strausberg RL, Feingold EA, Grouse LH, Derge JG, Klausner RD, Collins FS, Wagner L, Shenmen CM, Schuler GD, Altschul SF, Zeeberg B, Buetow KH, Schaefer CF, Bhat NK, Hopkins RF, Jordan H, Moore T, Max SI, Wang J, Hsieh F, Diatchenko L, Marusina K, Farmer AA, Rubin GM, Hong L, Stapleton M, Soares MB, Bonaldo MF, Casavant TL, Scheetz TE, Brownstein MJ, Usdin TB, Toshiyuki S, Carninci P, Prange C, Raha SS, Loquellano NA, Peters GJ, Abramson RD, Mullahy SJ, Bosak SA, McEwan PJ, McKernan KJ, Malek JA, Gunaratne PH, Richards S, Worley KC, Hale S, Garcia AM, Gay LJ, Hulyk SW, Villalon DK, Muzny DM, Sodergren EJ, Lu X, Gibbs RA, Fahey J, Helton E, Ketteman M, Madan A, Rodrigues S, Sanchez A, Whiting M, Madan A, Young AC, Shevchenko Y, Bouffard GG, Blakesley RW, Touchman JW, Green ED, Dickson MC, Rodriguez AC, Grimwood J, Schmutz J, Myers RM, Butterfield YS, Krzywinski MI, Skalska U, Smailus DE, Schnerch A, Schein JE, Jones SJ, Marra MA, Mammalian Gene Collection Program Team
Proc Natl Acad Sci U S A. 2002
PubMed ID: 12477932
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Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs.
Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, Kondo S, Nikaido I, Osato N, Saito R, Suzuki H, Yamanaka I, Kiyosawa H, Yagi K, Tomaru Y, Hasegawa Y, Nogami A, Schönbach C, Gojobori T, Baldarelli R, Hill DP, Bult C, Hume DA, Quackenbush J, Schriml LM, Kanapin A, Matsuda H, Batalov S, Beisel KW, Blake JA, Bradt D, Brusic V, Chothia C, Corbani LE, Cousins S, Dalla E, Dragani TA, Fletcher CF, Forrest A, Frazer KS, Gaasterland T, Gariboldi M, Gissi C, Godzik A, Gough J, Grimmond S, Gustincich S, Hirokawa N, Jackson IJ, Jarvis ED, Kanai A, Kawaji H, Kawasawa Y, Kedzierski RM, King BL, Konagaya A, Kurochkin IV, Lee Y, Lenhard B, Lyons PA, Maglott DR, Maltais L, Marchionni L, McKenzie L, Miki H, Nagashima T, Numata K, Okido T, Pavan WJ, Pertea G, Pesole G, Petrovsky N, Pillai R, Pontius JU, Qi D, Ramachandran S, Ravasi T, Reed JC, Reed DJ, Reid J, Ring BZ, Ringwald M, Sandelin A, Schneider C, Semple CA, Setou M, Shimada K, Sultana R, Takenaka Y, Taylor MS, Teasdale RD, Tomita M, Verardo R, Wagner L, Wahlestedt C, Wang Y, Watanabe Y, Wells C, Wilming LG, Wynshaw-Boris A, Yanagisawa M, Yang I, Yang L, Yuan Z, Zavolan M, Zhu Y, Zimmer A, Carninci P, Hayatsu N, Hirozane-Kishikawa T, Konno H, Nakamura M, Sakazume N, Sato K, Shiraki T, Waki K, Kawai J, Aizawa K, Arakawa T, Fukuda S, Hara A, Hashizume W, Imotani K, Ishii Y, Itoh M, Kagawa I, Miyazaki A, Sakai K, Sasaki D, Shibata K, Shinagawa A, Yasunishi A, Yoshino M, Waterston R, Lander ES, Rogers J, Birney E, Hayashizaki Y, FANTOM Consortium, RIKEN Genome Exploration Research Group Phase I & II Team
Nature. 2002
PubMed ID: 12466851
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The p127 subunit (DDB1) of the UV-DNA damage repair binding protein is essential for the targeted degradation of STAT1 by the V protein of the paramyxovirus simian virus 5.
Andrejeva J, Poole E, Young DF, Goodbourn S, Randall RE
J Virol. 2002
PubMed ID: 12388698
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Hepatitis B virus X protein associated with UV-DDB1 induces cell death in the nucleus and is functionally antagonized by UV-DDB2.
Bontron S, Lin-Marq N, Strubin M
J Biol Chem. 2002
PubMed ID: 12151405
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Interaction between UV-damaged DNA binding activity proteins and the c-Abl tyrosine kinase.
Cong F, Tang J, Hwang BJ, Vuong BQ, Chu G, Goff SP
J Biol Chem. 2002
PubMed ID: 12107171
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Identification of rat DDB1, a putative DNA repair protein, and functional correlation with its damaged-DNA recognition activity.
Sun NK, Lu HP, Chao CC
J Biomed Sci. 2002
PubMed ID: 12145536
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Turnover of hepatitis B virus X protein is regulated by damaged DNA-binding complex.
Bergametti F, Sitterlin D, Transy C
J Virol. 2002
PubMed ID: 12050362
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Sequential binding of UV DNA damage binding factor and degradation of the p48 subunit as early events after UV irradiation.
Rapić-Otrin V, McLenigan MP, Bisi DC, Gonzalez M, Levine AS
Nucleic Acids Res. 2002
PubMed ID: 12034848
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UV-damaged DNA-binding proteins are targets of CUL-4A-mediated ubiquitination and degradation.
Chen X, Zhang Y, Douglas L, Zhou P
J Biol Chem. 2001
PubMed ID: 11673459
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Human STAGA complex is a chromatin-acetylating transcription coactivator that interacts with pre-mRNA splicing and DNA damage-binding factors in vivo.
Martinez E, Palhan VB, Tjernberg A, Lymar ES, Gamper AM, Kundu TK, Chait BT, Roeder RG
Mol Cell Biol. 2001
PubMed ID: 11564863
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Hepatitis B virus X protein interferes with cell viability through interaction with the p127-kDa UV-damaged DNA-binding protein.
Lin-Marq N, Bontron S, Leupin O, Strubin M
Virology. 2001
PubMed ID: 11531405
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The effects of aging on gene expression in the hypothalamus and cortex of mice.
Jiang CH, Tsien JZ, Schultz PG, Hu Y
Proc Natl Acad Sci U S A. 2001
PubMed ID: 11172053
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Functional annotation of a full-length mouse cDNA collection.
Kawai J, Shinagawa A, Shibata K, Yoshino M, Itoh M, Ishii Y, Arakawa T, Hara A, Fukunishi Y, Konno H, Adachi J, Fukuda S, Aizawa K, Izawa M, Nishi K, Kiyosawa H, Kondo S, Yamanaka I, Saito T, Okazaki Y, Gojobori T, Bono H, Kasukawa T, Saito R, Kadota K, Matsuda H, Ashburner M, Batalov S, Casavant T, Fleischmann W, Gaasterland T, Gissi C, King B, Kochiwa H, Kuehl P, Lewis S, Matsuo Y, Nikaido I, Pesole G, Quackenbush J, Schriml LM, Staubli F, Suzuki R, Tomita M, Wagner L, Washio T, Sakai K, Okido T, Furuno M, Aono H, Baldarelli R, Barsh G, Blake J, Boffelli D, Bojunga N, Carninci P, de Bonaldo MF, Brownstein MJ, Bult C, Fletcher C, Fujita M, Gariboldi M, Gustincich S, Hill D, Hofmann M, Hume DA, Kamiya M, Lee NH, Lyons P, Marchionni L, Mashima J, Mazzarelli J, Mombaerts P, Nordone P, Ring B, Ringwald M, Rodriguez I, Sakamoto N, Sasaki H, Sato K, Schönbach C, Seya T, Shibata Y, Storch KF, Suzuki H, Toyo-oka K, Wang KH, Weitz C, Whittaker C, Wilming L, Wynshaw-Boris A, Yoshida K, Hasegawa Y, Kawaji H, Kohtsuki S, Hayashizaki Y, RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium
Nature. 2001
PubMed ID: 11217851
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RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer.
Shibata K, Itoh M, Aizawa K, Nagaoka S, Sasaki N, Carninci P, Konno H, Akiyama J, Nishi K, Kitsunai T, Tashiro H, Itoh M, Sumi N, Ishii Y, Nakamura S, Hazama M, Nishine T, Harada A, Yamamoto R, Matsumoto H, Sakaguchi S, Ikegami T, Kashiwagi K, Fujiwake S, Inoue K, Togawa Y
Genome Res. 2000
PubMed ID: 11076861
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Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes.
Carninci P, Shibata Y, Hayatsu N, Sugahara Y, Shibata K, Itoh M, Konno H, Okazaki Y, Muramatsu M, Hayashizaki Y
Genome Res. 2000
PubMed ID: 11042159
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Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray.
Tanaka TS, Jaradat SA, Lim MK, Kargul GJ, Wang X, Grahovac MJ, Pantano S, Sano Y, Piao Y, Nagaraja R, Doi H, Wood WH, Becker KG, Ko MS
Proc Natl Acad Sci U S A. 2000
PubMed ID: 10922068
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Nuclear transport of human DDB protein induced by ultraviolet light.
Liu W, Nichols AF, Graham JA, Dualan R, Abbas A, Linn S
J Biol Chem. 2000
PubMed ID: 10777491
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Studies of the murine DDB1 and DDB2 genes.
Zolezzi F, Linn S
Gene. 2000
PubMed ID: 10713455
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Quality control by DNA repair.
Lindahl T, Wood RD
Science. 1999
PubMed ID: 10583946
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cDNA cloning, tissue expression, and chromosomal assignment of a mouse gene, encoding a 127 kDa UV-damaged DNA binding protein which is defective in XPE cells.
Seki N, Hayashi A, Hattori A, Kozuma S, Sasaki M, Suzuki Y, Sugano S, Muramatsu M, Saito T
DNA Res. 1999
PubMed ID: 10574459
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High-efficiency full-length cDNA cloning.
Carninci P, Hayashizaki Y
Methods Enzymol. 1999
PubMed ID: 10349636
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DNA damage recognition during nucleotide excision repair in mammalian cells.
Wood RD
Biochimie. 1999
PubMed ID: 10214908
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p48 Activates a UV-damaged-DNA binding factor and is defective in xeroderma pigmentosum group E cells that lack binding activity.
Hwang BJ, Toering S, Francke U, Chu G
Mol Cell Biol. 1998
PubMed ID: 9632823
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The mouse homologs of human GIF, DDB1, and CFL1 genes are located on chromosome 19.
Fernandes M, Poirier C, Lespinasse F, Carle GF
Mamm Genome. 1998
PubMed ID: 9530637
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DDB, a putative DNA repair protein, can function as a transcriptional partner of E2F1.
Hayes S, Shiyanov P, Chen X, Raychaudhuri P
Mol Cell Biol. 1998
PubMed ID: 9418871
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Mutations specific to the xeroderma pigmentosum group E Ddb- phenotype.
Nichols AF, Ong P, Linn S
J Biol Chem. 1996
PubMed ID: 8798680
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Isolation of a cDNA encoding a UV-damaged DNA binding factor defective in xeroderma pigmentosum group E cells.
Hwang BJ, Liao JC, Chu G
Mutat Res. 1996
PubMed ID: 8538642
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Chromosomal localization and cDNA cloning of the genes (DDB1 and DDB2) for the p127 and p48 subunits of a human damage-specific DNA binding protein.
Dualan R, Brody T, Keeney S, Nichols AF, Admon A, Linn S
Genomics. 1995
PubMed ID: 8530102
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Hepatitis B virus X protein interacts with a probable cellular DNA repair protein.
Lee TH, Elledge SJ, Butel JS
J Virol. 1995
PubMed ID: 7815490
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Correction of the DNA repair defect in xeroderma pigmentosum group E by injection of a DNA damage-binding protein.
Keeney S, Eker AP, Brody T, Vermeulen W, Bootsma D, Hoeijmakers JH, Linn S
Proc Natl Acad Sci U S A. 1994
PubMed ID: 8171034
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Characterization of a human DNA damage binding protein implicated in xeroderma pigmentosum E.
Keeney S, Chang GJ, Linn S
J Biol Chem. 1993
PubMed ID: 8407967
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Xeroderma pigmentosum group E cells lack a nuclear factor that binds to damaged DNA.
Chu G, Chang E
Science. 1988
PubMed ID: 3175673
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