2007
DO Hart, T Raha, ND Lawson and MR Green (2007) Initiation of zebrafish hematopoiesis by the TATA-box-binding protein-related factor Trf3. Nature 450: 1082-1085.
JA Villefranc, J Amigo and ND Lawson (2007) Gateway compatible vectors for analysis of gene function in the zebrafish. Dev. Dyn. 236: 3077-3087.
J Dostie, Y Zhan and J Dekker (2007) Chromosome Conformation Capture Carbon Copy Technology. In: Current Protocols in Molecular Biology, (F.M. Ausubel, et al., eds.) Chapter 21.14.1-21.14.13. John Wiley & Sons, Hoboken, N.J.
C Gazin, N Wajapeyee, S Gobeil, CM Virbasius and MR Green (2007) An elaborate pathway required for Ras-mediated epigenetic silencing. Nature 449: 1073-1077.
SG Fonseca, KL Lipson and F Urano (2007) Endoplasmic reticulum stress signaling in pancreatic beta-cells. Antioxid. Redox Signal., 9: 2335-2344.
S Paliwal, RC Kovi, B Nath, YW Chen, BC Lewis and SR Grossman (2007) The alternative reading frame tumor suppressor antagonizes hypoxia-induced cancer cell migration via interaction with the COOH-terminal binding protein corepressor. Cancer Res., 67: 9322-9329.
YC Du, BC Lewis, D Hanahan and HE Varmus (2007) Assessing tumor progression factors by somaic gene transfer into a mouse model: Bcl-xL promotes islet tumor cell invasion. PLoS Biol., 5: 2255-2269.
A Mukhopadhyay, X Pan, DG Lambright and HA Tissenbaum (2007) An endocytic pathway as a target of tubby for regulation of fat storage. EMBO Rep. 8: 974
C Lanzuolo, V Roure, J Dekker, F Bantignies and V Orlando (2007) Polycomb response elements mediate the formation of chromosome higher-order structures in the bithorax complex. Nat. Cell Biol. 9: 1167-1174.
X Meng, S Thibodeau-Beganny, T Jiang, JK Joung and SA Wolfe (2007) Profiling the DNA-binding specificities of engineered Cys2His2 zinc finger domains using a rapid cell-based method. Nucleic Acids Res. 35: e81
PD Sanxaridis, MA Cronin, SS Rawat, G Waro, U Acharya and S Tsunoda (2007) Light-induced recruitment of INAD-signaling complexes to detergent-resistant lipid rafts in Drosophila photoreceptors. Mol. Cell Neurosci. 36: 36-46.
O Garifulin, Z Qi, H Shen, S Patnala, MR Green and V Boyartchuk (2007) Irf3 polymorphism alters induction of interferon beta in response to Listeria monocytogenes infection. PLoS Genet. 3: e152.
C Güngör, N Taniguchi-Ishigaki, H Ma, A Drung, B Tursun, HP Ostendorff, M Bossenz, CG Becker, T Becker and I Bach (2007) Proteasomal selection of multiprotein complexes recruited by LIM homeodomain transcription factors. Proc. Natl. Acad. Sci. USA 104: 15000-15005.
Y-W Chen, DS Klimstra, ME Mongeau, JL Tatem, V Boyartchuk and BC Lewis (2007) Loss of p53 and Ink4a/Arf cooperate in a cell autonomous fashion to induce metastasis of hepatocellular carcinoma cells. Cancer Res. 67: 7589-7596.
V Vermeirssen, B Deplancke, MI Barrasa, JS Reece-Hoyes, HE Arda, CA Grove, NJ Martinez, R Sequerra, L Doucette-Stamm, MR Brent and AJ Walhout (2007) Matrix and Steiner-triple-system smart pooling assays for high-performance transcription regulatory network mapping. Nat. Methods 4: 659-664.
F Wang, PN Paradkar, AO Custodio, D McVey Ward, MD Fleming, D Campagna, KA Roberts, V Boyartchuk, WF Dietrich, J Kaplan, NC Andrews (2007) Genetic variation in Mon1a affects protein trafficking and modifies macrophage iron loading in mice. Nat. Genet. 39: 1025-1032.
H Shen and MR Green (2007) RS domain-splicing signal interactions in splicing of U12-type and U2-type introns. Nat. Struct. Mol. Biol. 14: 597-603.
V Vermeirssen, MI Barrasa, CA Hidalgo, JA Babon, R Sequerra, L Doucette-Stamm, AL Barabasi and AJ Walhout (2007) Transcription factor modularity in a gene-centered C. elegans core neuronal protein-DNA interaction network. Genome Res. 17: 1061-1071.
H Hagege, P Klous, C Braem, E Splinter, J Dekker, G Cathala, W de Laat and T Forne (2007) Quantitative analysis of Chromosome Conformation Capture assays (3C-qPCR). Nature Protocols 2: 1722-1733.
RP Rao, C Yuan, JC Allegood, SS Rawat, MB Edwards, X Wang, AH Merrill Jr, U Acharya, JK Acharya (2007) Ceramide transfer protein function is essential for normal oxidative stress response and lifespan. Proc. Natl. Acad. Sci. USA 104: 11364-11369.
JP Morton and BC Lewis (2007) Shh signaling and pancreatic cancer: implications for therapy? Cell Cycle 6: 1553-1557.
J Dekker (2007) GC- and AT-rich chromatin domains differ in conformation and histone modification status and are differentially modulated by Rpd3p. Genome Biol. 8: R116.
The ENCODE Project Consortium (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447: 799-816. [J Dekker is part of the ENCODE Project Consortium]
J Dostie and J Dekker (2007) Mapping networks of physical interactions between genomic elements using 5C technology. Nature Protocols 2: 988-1002.
L Zhao, JL Cannons, S Anderson, M Kirby, L Xu, LH Castilla, PL Schwartzberg, R Bosselut and PP Liu (2007) CFBF-MYH11 hinders early T cell development and induces massive cell death in the thymus. Blood 109: 3432-3440.
JP Morton, ME Mongeau, DS Klimstra, JP Morris, YC Lee, Y Kawaguchi, CV Wright, M Hebrok and BC Lewis (2007) Sonic hedgehog acts at multiple stages during pancreatic tumorigenesis. PNAS 104: 5103-5108.
T Tsubota, CE Berndsen, JA Erkmann, CL Smith, L Yang, MA Freitas, JM Denu and PD Kaufman (2007) Histone H3-K56 acetylation is catalyzed by histone chaperone-dependent complexes. Mol. Cell 25: 703-712.
AF Siekmann and ND Lawson (2007) Notch signalling limits angiogenic cell behaviour in developing zebrafish arteries. Nature 445: 781-784.
A Mukhopadhyay and HA Tissenbaum (2007) Reproduction and longevity: secrets revealed by C. elegans. Trends. Cell Biol. 17: 65-71.
S Ishigaki, J Niwa, S Yamada, M Takahashi, T Ito, J Sone, M Doyu, F Urano and G Sobue (2007) Dorfin-CHIP chimeric proteins potently ubiquitylate and degrade familial ALS-related mutant SOD1 proteins and reduce their cellular toxicity. Neurobiol. Dis. 25: 331-341.
JS Reece-Hoyes, J Shingles, D Dupuy, CA Grove, AJ Walhout, M Vidal and IA Hope (2007) Insight into transcription factor gene duplication from Caenorhabditis elegans Promoterome-driven expression patterns. BMC Genomics 8: 27.
IM Barrasa, P Vaglio, F Cavasino, L Jacotot and AJ Walhout (2007) EDGEdb: a transcription factor-DNA interaction database for the analysis of C. elegans differential gene expression. BMC Genomics 8: 21.