The Program in Molecular Medicine at the University of Massachusetts Medical School was established in a new research building in 1989. Faculty include both clinical investigators and basic scientists, many of whom focus their research on human disease processes. The laboratory groups and core facilities that compose Molecular Medicine represent many disciplines in the bio-medical sciences: biochemistry and molecular biology, cell biology, medicine, immunology, molecular genetics and microbiology, pediatrics, pharmacology, physiology, genomics, bioinformatics and proteomics. This diverse scientific environment makes the Program an exceptional training ground for graduate students and postdoctoral fellows, who in turn contribute much to its vitality and excitement. This collection showcases publications and presentations written by faculty and researchers of the Program in Molecular Medicine.

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Publications from 2006

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Latent membrane protein 1 suppresses RASSF1A expression, disrupts microtubule structures and induces chromosomal aberrations in human epithelial cells, Cornelia Man, Jack Rosa, Leo T. O. Lee, Vien H. Y. Lee, Billy K. C. Chow, Kwok-Wai Lo, Stephen J. Doxsey, Z G Wu, Yok-Lam Kwong, Dong-Yan Jin, Annie Lai-Man Cheung, and Sai Wah Tsao

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Homologous recombination prevents methylation-induced toxicity in Escherichia coli, Anetta Nowosielska, Stephen A. Smith, Bevin P. Engelward, and Martin G. Marinus

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Autophagy is activated for cell survival after endoplasmic reticulum stress, Maiko Ogata, Shin-ichiro Hino, Atsushi Saito, Keisuke Morikawa, Shinichi Kondo, Soshi Kanemoto, Tomohiko Murakami, Manabu Taniguchi, Ichiro Tanii, Kazuya Yoshinaga, Sadao Shiosaka, James A. Hammarback, Fumihiko Urano, and Kazunori Imaizumi

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Identification of direct DAF-16 targets controlling longevity, metabolism and diapause by chromatin immunoprecipitation, Seung Wook Oh, Arnab Mukhopadhyay, Bharat L. Dixit, Tamal Raha, Michael R. Green, and Heidi A. Tissenbaum

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Epigenetic telomere protection by Drosophila DNA damage response pathways, Sarah R. Oikemus, Joana Queiroz-Machado, KuanJu Lai, Nadine Schultz, Claudio E. Sunkel, and Michael H. Brodsky

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Dynamic expression of LIM cofactors in the developing mouse neural tube, Heather P. Ostendorff, Baris Tursun, Kerstin Cornils, Anne Schluter, Alexander Drung, Cenap Gungor, and Ingolf Bach

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Regulated Pumilio-2 binding controls RINGO/Spy mRNA translation and CPEB activation, Kiran Padmanabhan and Joel D. Richter

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Interplay between Ino80 and Swr1 chromatin remodeling enzymes regulates cell cycle checkpoint adaptation in response to DNA damage, Manolis Papamichos-Chronakis, Jocelyn E. Krebs, and Craig L. Peterson

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The DNA helicase ChlR1 is required for sister chromatid cohesion in mammalian cells, Joanna L. Parish, Jack Rosa, Xiaoyu Wang, Jill M. Lahti, Stephen J. Doxsey, and Elliot J. Androphy

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Identification of predicted human outer dynein arm genes: candidates for primary ciliary dyskinesia genes, Gregory J. Pazour, Nathan S. Agrin, Bethany L. Walker, and George B. Witman (Journal of medical genetics)

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Non-macrophage-tropic human immunodeficiency virus type 1 R5 envelopes predominate in blood, lymph nodes, and semen: implications for transmission and pathogenesis, Paul J. Peters, W. Matthew Sullivan, Maria J. Duenas-Decamp, Jayanta Bhattacharya, Chiambah Ankghuambom, Richard J. P. Brown, Katherine Luzuriaga, Jeanne E. Bell, Peter Simmonds, K. Jonathan Ball, and Paul R. Clapham

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MicroRNA-206 colocalizes with ribosome-rich regions in both the nucleolus and cytoplasm of rat myogenic cells, Joan C. Ritland Politz, Fan Zhang, and Thoru Pederson

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RNAi-based gene silencing in primary mouse and human adipose tissues, Vishwajeet Puri, Abhijit Chakladar, Joseph V. Virbasius, Silvana Konda, Aimee M. Powelka, My T. Chouinard, G. Nana Hagan, Richard A. Perugini, and Michael P. Czech

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A compendium of Caenorhabditis elegans regulatory transcription factors: a resource for mapping transcription regulatory networks, John S. Reece-Hoyes, Bart Deplancke, Jane Shingles, Christian A. Grove, Ian A. Hope, and Albertha J. M. Walhout

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Therapy with a severe acute respiratory syndrome-associated coronavirus-neutralizing human monoclonal antibody reduces disease severity and viral burden in golden Syrian hamsters, Anjeanette Roberts, William D. Thomas, Jeannette Guarner, Elaine W. Lamirande, Gregory J. Babcock, Thomas C. Greenough, Leatrice Vogel, Norman Hayes, John L. Sullivan, Sherif Zaki, Kanta Subbarao, and Donna M. Ambrosino

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Perturbation and Modulation of Microtubule Cytoskeletal Elements in Response to the Potentially Oncogenic Molecules, Survivin and P53, and Cytokinesis: A Dissertation, Jack Rosa

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Survivin modulates microtubule dynamics and nucleation throughout the cell cycle, Jack Rosa, Pedro Canovas, Ashraful Islam, Dario C. Altieri, and Stephen J. Doxsey

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Histone H4-K16 acetylation controls chromatin structure and protein interactions, Michael Shogren-Knaak, Haruhiko Ishii, Jian-Min Sun, Michael J. Pazin, James R. Davie, and Craig L. Peterson

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Switching on chromatin: mechanistic role of histone H4-K16 acetylation, Michael Shogren-Knaak and Craig L. Peterson

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Probing SWI/SNF remodeling of the nucleosome by unzipping single DNA molecules, Alla Shundrovsky, Corey Lewis Smith, John T. Lis, Craig L. Peterson, and Michelle D. Wang

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Developments in basic science research, Mario Stevenson

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Quantitative Analysis of Hedgehog Gradient Formation Using an Inducible Expression System: a Dissertation, Vivian F. Su

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Supervillin modulation of focal adhesions involving TRIP6/ZRP-1, Norio Takizawa, Tara C. Smith, Thomas Nebl, Jessica Lynn Crowley, Stephen J. Palmieri, Lawrence M. Lifshitz, Anka G. Ehrhardt, Laura M. Hoffman, Mary C. Beckerle, and Elizabeth J. Luna

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An RNA interference-based screen identifies MAP4K4/NIK as a negative regulator of PPARgamma, adipogenesis, and insulin-responsive hexose transport, Xiaoqing Tang, Adilson L. Guilherme, Abhijit Chakladar, Aimee M. Powelka, Silvana Konda, Joseph V. Virbasius, Sarah M. Nicoloro, Juerg R. Straubhaar, and Michael P. Czech

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p53-mediated inhibition of angiogenesis through up-regulation of a collagen prolyl hydroxylase, Jose G. Teodoro, Albert E. Parker, Xiaochun Zhu, and Michael R. Green

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IFN-α/β Induction by dsRNA and Toll-Like Receptors Shortens Allograft Survival Induced by Costimulation Blockade: A Dissertation, Thomas B. Thornley

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Protein-tyrosine kinase and GTPase signals cooperate to phosphorylate and activate Wiskott-Aldrich syndrome protein (WASP)/neuronal WASP, Eduardo M. Torres and Michael K. Rosen

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Light Intermediate Chain 1: a Multifunctional Cargo Binder for Cytoplasmic Dynein 1: a Dissertation, Thomas Wadzinski

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CPEB controls oocyte growth and follicle development in the mouse, Racki J. Waldemar and Joel D. Richter

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Networking at the second Interactome Meeting, Albertha J. M. Walhout

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Biochemistry and Molecular Biology, Albertha J. M. Walhout and Simon J. Boulton

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C. elegans 14-3-3 proteins regulate life span and interact with SIR-2.1 and DAF-16/FOXO, Yamei Wang, Seung Wook Oh, Bart Deplancke, Jianyuan Luo, Albertha J. M. Walhout, and Heidi A. Tissenbaum

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Drosophila myosin VIIA is a high duty ratio motor with a unique kinetic mechanism, Shinya Watanabe, Reiko Ikebe, and Mitsuo Ikebe

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Regulation of Smad activities, Lan Xu

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Radial spoke proteins of Chlamydomonas flagella, Pinfen Yang, Dennis R. Diener, Chun Yang, Takahiro Kohno, Gregory J. Pazour, Jennifer M. Dienes, Nathan S. Agrin, Stephen M. King, Winfield S. Sale, Ritsu Kamiya, Joel L. Rosenbaum, and George B. Witman (Journal of cell science)

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Analysis of the C. elegans Argonaute family reveals that distinct Argonautes act sequentially during RNAi, Erbay Yigit, Pedro J. Batista, Yanxia Bei, Ka Ming Pang, Chun-Chieh G. Chen, Niraj H. Tolia, Leemor Joshua-Tor, Shohei Mitani, Martin J. Simard, and Craig C. Mello

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DNA translocation and loop formation mechanism of chromatin remodeling by SWI/SNF and RSC, Yongli Zhang, Corey Lewis Smith, Anjanabha Saha, Stephan W. Grill, Shirley Mihardja, Steven B. Smith, Bradley R. Cairns, Craig L. Peterson, and Carlos Bustamante

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Modest but reproducible inhibition of human immunodeficiency virus type 1 infection in macrophages following LEDGFp75 silencing, Steven P. Zielske and Mario Stevenson

Publications from 2005

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Differential phosphorylation controls Maskin association with eukaryotic translation initiation factor 4E and localization on the mitotic apparatus, Daron C. Barnard, Quiping Cao, and Joel D. Richter

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Egr-2 and PD-1 Are Required for Induction and Maintenance of T Cell Anergy: A Dissertation, Kenneth D. Bishop

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The v-SNARE Vti1a regulates insulin-stimulated glucose transport and Acrp30 secretion in 3T3-L1 adipocytes, Avirup Bose, Adilson L. Guilherme, Shaohui Huang, Andrea C. Hubbard, Charles R. Lane, Neil A. Soriano, and Michael P. Czech

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Regulation and Function of Stress-Activated Protein Kinase Signal Transduction Pathways: A Dissertation, Deborah Marie Brancho

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Role of MLK3 in the regulation of mitogen-activated protein kinase signaling cascades, Deborah Marie Brancho, Juan-Jose Ventura, Anja Jaeschke, Beth Doran, Richard A. Flavell, and Roger J. Davis

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Separation of mutation avoidance and antirecombination functions in an Escherichia coli mutS mutant, Melissa A. Calmann, Anetta Nowosielska, and Martin G. Marinus

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The MutS C terminus is essential for mismatch repair activity in vivo, Melissa A. Calmann, Anetta Nowosielska, and Martin G. Marinus

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Amyloid precursor proteins anchor CPEB to membranes and promote polyadenylation-induced translation, Quiping Cao, Yi-Shuian Huang, Ming-Chung Kan, and Joel D. Richter

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A member of the polymerase beta nucleotidyltransferase superfamily is required for RNA interference in C. elegans, Chun-Chieh G. Chen, Martin J. Simard, Hiroaki Tabara, Daniel R. Brownell, Jennifer A. McCollough, and Craig C. Mello

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Nuclear targeting of transforming growth factor-beta-activated Smad complexes, Hong B. Chen, Jonathan G. Rud, Kai Lin, and Lan Xu

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Phosphorylation of histone H4 serine 1 during DNA damage requires casein kinase II in S. cerevisiae, Wang L. Cheung, Fiona B. Turner, Thanuja Krishnamoorthy, Branden Wolner, Sung-Hee Ahn, Melissa Anne Foley, Jean A. Dorsey, Craig L. Peterson, Shelley L. Berger, and C. David Allis

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Cross-reactive influenza virus-specific CD8+ T cells contribute to lymphoproliferation in Epstein-Barr virus-associated infectious mononucleosis, Shalyn Catherine Clute, Levi B. Watkin, Markus Cornberg, Yuri N. Naumov, John L. Sullivan, Katherine Luzuriaga, Raymond M. Welsh, and Liisa K. Selin

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lin-8, which antagonizes Caenorhabditis elegans Ras-mediated vulval induction, encodes a novel nuclear protein that interacts with the LIN-35 Rb protein, Ewa M. Davison, Melissa M. Harrison, Albertha J. M. Walhout, Marc Vidal, and H. Robert Horvitz

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A cell-surface receptor for lipocalin 24p3 selectively mediates apoptosis and iron uptake, Laxminarayana R. Devireddy, Claude Gazin, Xiaochun Zhu, and Michael R. Green

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Differential light chain assembly influences outer arm dynein motor function, Linda M. DiBella, Oksana Gorbatyuk, Miho Sakato, Ken-ichi Wakabayashi, Ramila S. Patel-King, Gregory J. Pazour, George B. Witman, and Stephen M. King (Molecular biology of the cell)

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Centrosome control of the cell cycle, Stephen J. Doxsey, Wendy Cherie Zimmerman, and Keith Mikule

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Activity-dependent polyadenylation in neurons, Ling Du and Joel D. Richter

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Nuclear localization of HIV type 1 Vif isolated from a long-term asymptomatic individual and potential role in virus attenuation, Melissa Ann Farrow, Mohan Somasundaran, Chengsheng Zhang, Dana Gabuzda, John L. Sullivan, and Thomas C. Greenough

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WFS1 is a novel component of the unfolded protein response and maintains homeostasis of the endoplasmic reticulum in pancreatic beta-cells, Sonya G. Fonseca, Mariko Fukuma, Kathryn L. Lipson, Linh X. Nguyen, Jenny R. Allen, Yoshitomo Oka, and Fumihiko Urano

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Normal microRNA maturation and germ-line stem cell maintenance requires Loquacious, a double-stranded RNA-binding domain protein, Klaus Forstemann, Yukihide Tomari, Tingting Du, Vasily V. Vagin, Ahmet M. Denli, Diana P. Bratu, Carla Andrea Klattenhoff, William E. Theurkauf, and Phillip D. Zamore

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Drosophila WntD is a target and an inhibitor of the Dorsal/Twist/Snail network in the gastrulating embryo, Atish Ganguly, Jin Jiang, and Y. Tony Ip

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ZPR1 is essential for survival and is required for localization of the survival motor neurons (SMN) protein to Cajal bodies, Laxman Gangwani, Richard A. Flavell, and Roger J. Davis

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Development and characterization of a severe acute respiratory syndrome-associated coronavirus-neutralizing human monoclonal antibody that provides effective immunoprophylaxis in mice, Thomas C. Greenough, Gregory J. Babcock, Anjeanette Roberts, Hector J. Hernandez, William D. Thomas, Jennifer A. Coccia, Robert F. Graziano, Mohan Srinivasan, Israel Lowy, Robert W. Finberg, Kanta Subbarao, Leatrice Vogel, Mohan Somasundaran, Katherine Luzuriaga, John L. Sullivan, and Donna M. Ambrosino

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Centriolin anchoring of exocyst and SNARE complexes at the midbody is required for secretory-vesicle-mediated abscission, Adam Scott Gromley, Charles Yeaman, Jack Rosa, Sambra D. Redick, Chun-Ting Chen, Stephanie Mirabelle, Minakshi Guha, James Sillibourne, and Stephen J. Doxsey

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The anaphase promoting complex: a critical target for viral proteins and anti-cancer drugs, Destin W. Heilman, Michael R. Green, and Jose G. Teodoro

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Effects of HMGN1 on chromatin structure and SWI/SNF-mediated chromatin remodeling, David A. Hill, Craig L. Peterson, and Anthony N. Imbalzano

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A Rik1-associated, cullin-dependent E3 ubiquitin ligase is essential for heterochromatin formation, Peter J. Horn, Jean-Noel M. Bastie, and Craig L. Peterson

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Disruption of the Jnk2 (Mapk9) gene reduces destructive insulitis and diabetes in a mouse model of type I diabetes, Anja Jaeschke, Mercedes Rincon, Beth Doran, Judith Reilly, Donna S. Neuberg, Dale L. Greiner, Leonard D. Shultz, Aldo A. Rossini, Richard A. Flavell, and Roger J. Davis

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Identification of WNK1 as a substrate of Akt/protein kinase B and a negative regulator of insulin-stimulated mitogenesis in 3T3-L1 cells, Zhen Y. Jiang, Qiong L. Zhou, John Holik, Shraddha Patel, John D. Leszyk, Kerri Coleman, My T. Chouinard, and Michael P. Czech

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XBP1 activates the transcription of its target genes via an ACGT core sequence under ER stress, Soshi Kanemoto, Shinichi Kondo, Maiko Ogata, Tomohiko Murakami, Fumihiko Urano, and Kazunori Imaizumi

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Role of the JIP4 scaffold protein in the regulation of mitogen-activated protein kinase signaling pathways, Nyaya Kelkar, Claire L. Standen, and Roger J. Davis

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Fluoride induces endoplasmic reticulum stress in ameloblasts responsible for dental enamel formation, Kaori Kubota, Daniel H. Lee, Masahiro Tsuchiya, Conan S. Young, Eric T. Everett, Esperanza A. Martinez-Mier, Malcolm Snead, Linh X. Nguyen, Fumihiko Urano, and John D. Bartlett

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Characterization of the protein dimerization domain responsible for assembly of functional selenodeiodinases, Jack L. Leonard, Gregory I. C. Simpson, and Deborah Marie Leonard

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The absence of p53 promotes metastasis in a novel somatic mouse model for hepatocellular carcinoma, Brian C. Lewis, David S. Klimstra, Nicholas D. Socci, Su Xu, Jason A. Koutcher, and Harold E. Varmus

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BACH1 is critical for homologous recombination and appears to be the Fanconi anemia gene product FANCJ, Rachel Litman, Min Peng, Zhe Jin, Fan Zhang, Junran Zhang, Simon N. Powell, Paul R. Andreassen, and Sharon B. Cantor

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C. elegans tubby regulates life span and fat storage by two independent mechanisms, Arnab Mukhopadhyay, Bart Deplancke, Albertha J. M. Walhout, and Heidi A. Tissenbaum

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Wnt signaling drives WRM-1/beta-catenin asymmetries in early C. elegans embryos, Tatsuya Nakamura, Soyoung Kim, Takao Ishidate, Yanxia Bei, Ka Ming Pang, Masaki Shirayama, Chris Trzepacz, Daniel R. Brownell, and Craig C. Mello

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JNK regulates lifespan in Caenorhabditis elegans by modulating nuclear translocation of forkhead transcription factor/DAF-16, Seung Wook Oh, Arnab Mukhopadhyay, Nenad Svrzikapa, Feng Jiang, Roger J. Davis, and Heidi A. Tissenbaum

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DNA replication origins fire stochastically in fission yeast, Prasanta K. Patel, Benoit Arcangioli, Stephen P. Baker, Aaron Bensimon, and Nicholas R. Rhind

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Proteomic analysis of a eukaryotic cilium, Gregory J. Pazour, Nathan S. Agrin, John D. Leszyk, and George B. Witman

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Microtubule-dependent nuclear-cytoplasmic shuttling of Runx2, Shirwin M. Pockwinse, Arun Rajgopal, Daniel W. Young, Khwaja A. Mujeeb, Jeffrey A. Nickerson, Amjad Javed, Sambra D. Redick, Jane B. Lian, Andre J. Van Wijnen, Janet L. Stein, Gary S. Stein, and Stephen J. Doxsey

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Suppression of oxidative metabolism and mitochondrial biogenesis by the transcriptional corepressor RIP140 in mouse adipocytes, Aimee M. Powelka, Asha Seth, Joseph V. Virbasius, Evangelos Kiskinis, Sarah M. Nicoloro, Adilson L. Guilherme, Xiaoqing Tang, Juerg R. Straubhaar, Andrew D. Cherniack, Malcolm G. Parker, and Michael P. Czech

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HIV-1 Tat stimulates transcription complex assembly through recruitment of TBP in the absence of TAFs, Tamal Raha, S. W. Grace Cheng, and Michael R. Green

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A transgenic mouse model for studying the clearance of blood-borne pathogens via human complement receptor 1 (CR1), Alexander Repik, Steve E. Pincus, Ionita Ghiran, Anne Nicholson-Weller, Damon R. Asher, Anna M. Cerny, Leslie S. Casey, S. M. Jones, Stephen N. Jones, Nehal Mohamed, Lloyd B. Klickstein, George L. Spitalny, and Robert W. Finberg

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Characterization of JNK Binding Proteins: A Dissertation, Jeffrey Scott Rogers

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HIV-1-specific CD8+ T cell responses and viral evolution in women and infants, Victor Sanchez-Merino, Siwei Nie, and Katherine Luzuriaga

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In vivo evidence for instability of episomal human immunodeficiency virus type 1 cDNA, Mark E. Sharkey, Karine Triques, Daniel R. Kuritzkes, and Mario Stevenson

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Macrophages archive HIV-1 virions for dissemination in trans, Natalia Sharova, Catherine Swingler, Mark Sharkey, and Mario Stevenson

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The Conserved Kinases CDK-1, GSK-3, KIN-19, and MBK-2 Promote OMA-1 Destruction to Regulate the Oocyte-to-Embryo Transition in C. elegans, Masaki Shirayama, Martha C. Soto, Takao Ishidate, Soyoung Kim, Kuniaki Nakamura, Yanxia Bei, Sander van den Heuvel, and Craig C. Mello

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A conserved Swi2/Snf2 ATPase motif couples ATP hydrolysis to chromatin remodeling, Corey Lewis Smith and Craig L. Peterson

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ATP-dependent chromatin remodeling, Corey Lewis Smith and Craig L. Peterson

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Peripheral B cells latently infected with Epstein-Barr virus display molecular hallmarks of classical antigen-selected memory B cells, Tatyana A. Souza, B. David Stollar, John L. Sullivan, Katherine Luzuriaga, and David A. Thorley-Lawson

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Developments in basic science research, Mario Stevenson

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Structural basis of family-wide Rab GTPase recognition by rabenosyn-5, Eathiraj Sudharshan, Xiaojing Pan, Christopher Ritacco, and David G. Lambright

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PTEN, but not SHIP2, suppresses insulin signaling through the phosphatidylinositol 3-kinase/Akt pathway in 3T3-L1 adipocytes, Xiaoqing Tang, Aimee M. Powelka, Neil A. Soriano, Michael P. Czech, and Adilson L. Guilherme

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The ubiquitin ligase Rnf6 regulates local LIM kinase 1 levels in axonal growth cones, Baris Tursun, Anne Schluter, Marvin A. Peters, Birte Viehweger, Heather P. Ostendorff, Juliana Soosairajah, Alexander Drung, Michael Bossenz, Steven A. Johnsen, Michaela Schweizer, Ora Bernard, and Ingolf Bach

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ATP-dependent and ATP-independent roles for the Rad54 chromatin remodeling enzyme during recombinational repair of a DNA double strand break, Branden Wolner and Craig L. Peterson

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Helicase89B is a Mot1p/BTAF1 homologue that mediates an antimicrobial response in Drosophila, Yoshimasa Yagi and Y. Tony Ip

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The cellular HIV-1 Rev cofactor hRIP is required for viral replication, Zhong Yu, Nuria Sanchez-Velar, Irina E. Catrina, Ellen L. W. Kittler, Enyeneama B. Udofia, and Maria L. Zapp

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Importin 7 may be dispensable for human immunodeficiency virus type 1 and simian immunodeficiency virus infection of primary macrophages, Steven P. Zielske and Mario Stevenson

Publications from 2004

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High ER stress in beta-cells stimulates intracellular degradation of misfolded insulin, Jenny R. Allen, Linh X. Nguyen, Karen E.G. Sargent, Kathryn L. Lipson, Anthony Hackett, and Fumihiko Urano

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Worniu, a Snail family zinc-finger protein, is required for brain development in Drosophila, Shovon Imtiaz Ashraf, Atish Ganguly, John Roote, and Y. Tony Ip