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 2003

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JunD mediates survival signaling by the JNK signal transduction pathway, Jennifer A. Lamb, Juan-Jose Ventura, Patricia M. Hess, Richard A. Flavell, and Roger J. Davis

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Essential role of Ca2+/calmodulin in Early Endosome Antigen-1 localization, Deirdre C. Lawe, Nachida Sitouah, Susan Hayes, Anil Chawla, Joseph V. Virbasius, Richard A. Tuft, Kevin E. Fogarty, Lawrence M. Lifshitz, David G. Lambright, and Silvia Corvera

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The death domain kinase RIP1 is essential for tumor necrosis factor alpha signaling to p38 mitogen-activated protein kinase, Thomas H. Lee, Qiaojia Huang, Sarah R. Oikemus, Jennifer Shank, Juan-Jose Ventura, Nicole Cusson, Richard R. Vaillancourt, Bing Su, Roger J. Davis, and Michelle Kelliher

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JNK phosphorylation of Bim-related members of the Bcl2 family induces Bax-dependent apoptosis, Kui Lei and Roger J. Davis

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Angiotensin-converting enzyme 2 is a functional receptor for the SARS coronavirus, Wenhui Li, Michael J. Moore, Natalya Vasilieva, Jianhua Sui, Swee Kee Wong, Michael A. Berne, Mohan Somasundaran, John L. Sullivan, Katherine Luzuriaga, Thomas C. Greenough, Hyeryun Choe, and Michael Farzan

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Predose infant nevirapine concentration with the two-dose intrapartum neonatal nevirapine regimen: association with timing of maternal intrapartum nevirapine dose, Mark Mirochnick, Alejandro Dorenbaum, Suzette Blanchard, Coleen K. Cunningham, Richard D. Gelber, Lynne M. Mofenson, Mary Culnane, and John L. Sullivan

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A conserved amphipathic helix in WASP/Scar proteins is essential for activation of Arp2/3 complex, Sanjay C. Panchal, Donald A. Kaiser, Eduardo M. Torres, Thomas D. Pollard, and Michael K. Rosen

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Ian4 is required for mitochondrial integrity and T cell survival, Malini Pandarpurkar, Leanne Wilson-Fritch, Silvia Corvera, Helle Markholst, Lars Hornum, Dale L. Greiner, John P. Mordes, Aldo A. Rossini, and Rita Bortell

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The vertebrate primary cilium is a sensory organelle, Gregory J. Pazour and George B. Witman (Current opinion in cell biology)

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The Genetic Basis of Resistance to Transplantation Tolerance Induced by Costimulation Blockade in NOD Mice: a Dissertation, Todd Pearson

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Genetic disassociation of autoimmunity and resistance to costimulation blockade-induced transplantation tolerance in nonobese diabetic mice, Todd Pearson, Thomas G. Markees, David V. Serreze, Melissa A. Pierce, Michele P. Marron, Linda S. Wicker, Laurence B. Peterson, Leonard D. Shultz, John P. Mordes, Aldo A. Rossini, and Dale L. Greiner

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TRF3, a TATA-box-binding protein-related factor, is vertebrate-specific and widely expressed, Stephan P. Persengiev, Xiaochun Zhu, Bharat L. Dixit, Glenn A. Maston, Ellen L. W. Kittler, and Michael R. Green

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Nonspecific, concentration-dependent stimulation and repression of mammalian gene expression by small interfering RNAs (siRNAs), Stephan P. Persengiev, Xiaochun Zhu, and Michael R. Green

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Centrosome abnormalities and chromosome instability occur together in pre-invasive carcinomas, German A. Pihan, Jan Wallace, Yening Zhou, and Stephen J. Doxsey

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T Cell Immunity and HIV-1 Replication in Vertically-Infected Infants and Children: A Dissertation, Zachary Aaron Scott

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HIV-1 replication increases HIV-specific CD4+ T cell frequencies but limits proliferative capacity in chronically infected children, Zachary Aaron Scott, Coreen Michele Beaumier, Mark E. Sharkey, Mario Stevenson, and Katherine Luzuriaga

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Conventional kinesin KIF5B mediates insulin-stimulated GLUT4 movements on microtubules, Sabina Semiz, Jin Gyoon Park, Sarah M. Nicoloro, Paul S. Furcinitti, Chuanyou Zhang, Anil Chawla, John D. Leszyk, and Michael P. Czech

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CD40-CD154 Blockade Facilitates Induction of Allogeneic Hematopoietic Chimerism and Transplantation Tolerance: A Dissertation, Edward Seung

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Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly, Wu-Cheng Shen, Sukesh R. Bhaumik, Helen C. Causton, Itamar Simon, Xiaochun Zhu, Ezra G. Jennings, Tseng-Hsing Wang, Richard A. Young, and Michael R. Green

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A native peptide ligation strategy for deciphering nucleosomal histone modifications, Michael Shogren-Knaak, Christopher J. Fry, and Craig L. Peterson

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Structural analysis of the yeast SWI/SNF chromatin remodeling complex, Corey Lewis Smith, Rachel A. Horowitz-Scherer, Joan Frances Flanagan, Christopher L. Woodcock, and Craig L. Peterson

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Coupling tandem affinity purification and quantitative tyrosine iodination to determine subunit stoichiometry of protein complexes, Corey Lewis Smith and Craig L. Peterson

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Developments in basic science research, Mario Stevenson

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Prevention of mother-to-child transmission of HIV--what next, John L. Sullivan

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Peptidyltransfer Reaction Catalyzed by the Ribosome and the Ribozyme: a Dissertation, Lele Sun

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Regulated CPEB phosphorylation during meiotic progression suggests a mechanism for temporal control of maternal mRNA translation, Joyce Tay, Rebecca Hodgman, Madathia Sarkissian, and Joel D. Richter

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Contingent phosphorylation/dephosphorylation provides a mechanism of molecular memory in WASP, Eduardo M. Torres and Michael K. Rosen

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MEP-1 and a homolog of the NURD complex component Mi-2 act together to maintain germline-soma distinctions in C. elegans, Yingdee Unhavaithaya, Tae Ho Shin, Nicholas B. Miliaras, Jungsoon Lee, Tomoko Oyama, and Craig C. Mello

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c-Jun NH(2)-terminal kinase is essential for the regulation of AP-1 by tumor necrosis factor, Juan-Jose Ventura, Norman J. Kennedy, Jennifer A. Lamb, Richard A. Flavell, and Roger J. Davis

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JNK initiates a cytokine cascade that causes Pax2 expression and closure of the optic fissure, Claire R. Weston, Anthony Wong, J. Perry Hall, Mary E. P. Goad, Richard A. Flavell, and Roger J. Davis

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Identification of a subset of human immunodeficiency virus type 1 (HIV-1), HIV-2, and simian immunodeficiency virus strains able to exploit an alternative coreceptor on untransformed human brain and lymphoid cells, Samantha J. Willey, Jacqueline D. Reeves, Richard Hudson, Koichi Miyake, Nathalie Dejucq, Dominique Schols, Erik De Clercq, Jeanne E. Bell, Aine McKnight, and Paul R. Clapham

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Mitochondrial biogenesis and remodeling during adipogenesis and in response to the insulin sensitizer rosiglitazone, Leanne Wilson-Fritch, Alison Burkart, Gregory Bell, Karen Mendelson, John D. Leszyk, Sarah M. Nicoloro, Michael P. Czech, and Silvia Corvera

Publications from 2002

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SRC-1 and Wnt signaling act together to specify endoderm and to control cleavage orientation in early C. elegans embryos, Yanxia Bei, Jennifer Hogan, Laura A. Berkowitz, Martha C. Soto, Christian Ernest Rocheleau, Ka Ming Pang, John J. Collins, and Craig C. Mello

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Differential requirement of SAGA components for recruitment of TATA-box-binding protein to promoters in vivo, Sukesh R. Bhaumik and Michael R. Green

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Essential role for the SANT domain in the functioning of multiple chromatin remodeling enzymes, Laurie A. Boyer, Michael R. Langer, Kimberly A. Crowley, Song Tan, John M. Denu, and Craig L. Peterson

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Mechanical disruption of individual nucleosomes reveals a reversible multistage release of DNA, Brent D. Brower-Toland, Corey Lewis Smith, Richard C. Yeh, John T. Lis, Craig L. Peterson, and Michelle D. Wang

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Dissolution of the maskin-eIF4E complex by cytoplasmic polyadenylation and poly(A)-binding protein controls cyclin B1 mRNA translation and oocyte maturation, Quiping Cao and Joel D. Richter

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Phenotypic and functional heterogeneity of EBV epitope-specific CD8+ T cells, Michelle D. Catalina, John L. Sullivan, Robin M. Brody, and Katherine Luzuriaga

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Cell surface receptors, virus entry and tropism of primate lentiviruses, Paul R. Clapham and Aine McKnight

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Integrated version of reverse two-hybrid system for the postproteomic era, Hideki Endoh, Sylvie Vincent, Yves Jacob, Eleonore Real, Albertha J. M. Walhout, and Marc Vidal

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Autoantibodies to Centrosomes are Diagnostic for Human Scleroderma and Can Be Induced by Experimental Mycoplasma Infection in Mice: A Dissertation, Irina Catrinel Gavanescu

Altering the Tropism of Retroviral Vectors For In Vivo Gene Therapy: Pseudotyped Virus Targeting by Ligand-Receptor Interactions: A Dissertation, Timothy J. Gollan

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Redirecting retroviral tropism by insertion of short, nondisruptive peptide ligands into envelope, Timothy J. Gollan and Michael R. Green

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Selective targeting and inducible destruction of human cancer cells by retroviruses with envelope proteins bearing short peptide ligands, Timothy J. Gollan and Michael R. Green

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RNAi (Nematodes: Caenorhabditis elegans), Alla Grishok and Craig C. Mello

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Translational control of the embryonic cell cycle, Irina Groisman, Mi-Young Jung, Madathia Sarkissian, Quiping Cao, and Joel D. Richter

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Enhanced culture method for detection of replication-competent virus in peripheral blood mononuclear cells of HIV type 1-infected individuals, John P. Haran, Thomas C. Greenough, Katherine Luzuriaga, John L. Sullivan, Timothy Flanigan, and Mohan Somasundaran

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TGF beta receptor internalization into EEA1-enriched early endosomes: role in signaling to Smad2, Susan J. Hayes, Anil Chawla, and Silvia Corvera

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MEX-3 interacting proteins link cell polarity to asymmetric gene expression in Caenorhabditis elegans, Nancy N. Huang, Darcy E. Mootz, Albertha J. M. Walhout, Marc Vidal, and Craig P. Hunter

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N-methyl-D-aspartate receptor signaling results in Aurora kinase-catalyzed CPEB phosphorylation and alpha CaMKII mRNA polyadenylation at synapses, Yi-Shuian Huang, Mi-Young Jung, Madathia Sarkissian, and Joel D. Richter

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The Bax subfamily of Bcl2-related proteins is essential for apoptotic signal transduction by c-Jun NH(2)-terminal kinase, Kui Lei, Anjaruwee S. Nimnual, Wei-Xing Zong, Norman J. Kennedy, Richard A. Flavell, Craig B. Thompson, Dafna Bar-Sagi, and Roger J. Davis

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Pediatric HIV-1 infection: advances and remaining challenges, Katherine Luzuriaga and John L. Sullivan

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Differential mRNA translation and meiotic progression require Cdc2-mediated CPEB destruction, Raul Mendez, Daron C. Barnard, and Joel D. Richter

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Calculating the potential of C2 domains for membrane binding, Eric Lee Merithew and David G. Lambright

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Determinants of Rab5 interaction with the N terminus of early endosome antigen 1, Eric Lee Merithew, Craig Stone, Eathiraj Sudharshan, and David G. Lambright

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The intraflagellar transport protein, IFT88, is essential for vertebrate photoreceptor assembly and maintenance, Gregory J. Pazour, Sheila A. Baker, James A. Deane, Douglas G. Cole, Bethany L. Dickert, Joel L. Rosenbaum, George B. Witman, and Joseph C. Besharse

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Polycystin-2 localizes to kidney cilia and the ciliary level is elevated in orpk mice with polycystic kidney disease, Gregory J. Pazour, Jovenal T. San Agustin, John A. Follit, Joel L. Rosenbaum, and George B. Witman (Current biology : CB)

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Inhibition of apoptosis by ATFx: a novel role for a member of the ATF/CREB family of mammalian bZIP transcription factors, Stephan P. Persengiev, Laxminarayana R. Devireddy, and Michael R. Green

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Chromatin remodeling enzymes: taming the machines. Third in review series on chromatin dynamics, Craig L. Peterson

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Evidence for a cytopathogenicity determinant in HIV-1 Vpr, Mohan Somasundaran, Mark E. Sharkey, Beda Brichacek, Katherine Luzuriaga, Michael Emerman, John L. Sullivan, and Mario Stevenson

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The GEX-2 and GEX-3 proteins are required for tissue morphogenesis and cell migrations in C. elegans, Martha C. Soto, Hiroshi Qadota, Katsuhisa Kasuya, Makiko Inoue, Daisuke Tsuboi, Craig C. Mello, and Kozo Kaibuchi

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Arp2/3-dependent pseudocleavage [correction of psuedocleavage] furrow assembly in syncytial Drosophila embryos, Victoria A. Stevenson, Andrew M. Hudson, Lynn Cooley, and William E. Theurkauf

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A selected ribozyme catalyzing diverse dipeptide synthesis, Lele Sun, Zhiyong Cui, Robert L. Gottlieb, and Biliang Zhang

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Differential involvement of p38 mitogen-activated protein kinase kinases MKK3 and MKK6 in T-cell apoptosis, Nobuyuki Tanaka, Masahito Kamanaka, Herve Enslen, Chen Dong, Mark Allen Wysk, Roger J. Davis, and Richard A. Flavell

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Integrating interactome, phenome, and transcriptome mapping data for the C. elegans germline, Albertha J. M. Walhout, Jerome Reboul, Olena Shtanko, Nicolas Bertin, Philippe Vaglio, Hui Ge, Hongmei Lee, Lynn Doucette-Stamm, Kristin C. Gunsalus, Aaron J. Schetter, Diane G. Morton, Kenneth J. Kemphues, Valerie Reinke, Stuart K. Kim, Fabio Piano, and Marc Vidal

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Crystal structure of human protein-tyrosine phosphatase SHP-1, Jian Yang, Lijun Liu, Dandan He, Xi Song, Xiaoshan Liang, Zhizhuang Joe Zhao, and G. Wayne Zhou

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Synthesis of pCpCpA-3'-NH-phenylalanine as a ribosomal substrate, Biliang Zhang, Lei Zhang, Lele Sun, and Zhiyong Cui

Publications from 2001

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Snail Protein Family in Drosophila Neurogenesis: a Dissertation, Shovon I. Ashraf

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The Snail protein family regulates neuroblast expression of inscuteable and string, genes involved in asymmetry and cell division in Drosophila, Shovon Imtiaz Ashraf and Y. Tony Ip

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SAGA is an essential in vivo target of the yeast acidic activator Gal4p, Sukesh R. Bhaumik and Michael R. Green

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G(alpha)11 signaling through ARF6 regulates F-actin mobilization and GLUT4 glucose transporter translocation to the plasma membrane, Avirup Bose, Andrew D. Cherniack, Stephen E. Langille, Sarah M. Nicoloro, Joanne M. Buxton, Jin Gyoon Park, Anil Chawla, and Michael P. Czech

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Modulation of different human immunodeficiency virus type 1 Nef functions during progression to AIDS, Silke Carl, Thomas C. Greenough, Mandy Krumbiegel, Michael Greenberg, Jack Skowronski, John L. Sullivan, and Frank Kirchhoff

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Differential evolution and stability of epitope-specific CD8(+) T cell responses in EBV infection, Michelle D. Catalina, John L. Sullivan, Katherine R. Bak, and Katherine Luzuriaga

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A protein-protein interaction map of the Caenorhabditis elegans 26S proteasome, Anne Davy, Paul Bello, Nicolas Thierry-Mieg, Philippe Vaglio, Joseph Hitti, Lynn Doucette-Stamm, Danielle Thierry-Mieg, Jerome Reboul, Simon J. Boulton, Albertha J. M. Walhout, Olivier Coux, and Marc Vidal

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Induction of apoptosis by a secreted lipocalin that is transcriptionally regulated by IL-3 deprivation, Laxminarayana R. Devireddy, Jose G. Teodoro, Fabien A. Richard, and Michael R. Green

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Stress Activated Protein Kinase Regulation of Gene Expression in Apoptotic Neurons: A Dissertation, Gerard S. De Zutter

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Pro-apoptotic gene expression mediated by the p38 mitogen-activated protein kinase signal transduction pathway, Gerard S. De Zutter and Roger J. Davis

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Multivalent endosome targeting by homodimeric EEA1, John J. Dumas, Eric Lee Merithew, Eathiraj Sudharshan, Deepa Rajamani, Susan J. Hayes, Deirdre C. Lawe, Silvia Corvera, and David G. Lambright

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A role for kinesin in insulin-stimulated GLUT4 glucose transporter translocation in 3T3-L1 adipocytes, Masahiro Emoto, Stephen E. Langille, and Michael P. Czech

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The Yeast SWI/SNF Complex Structure and Function: A Dissertation, Joan Frances Flanagan

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Molecular basis of T-cell differentiation, Richard A. Flavell, B. Li, Chen Dong, Hong-Tao Lu, Derek D. Yang, Herve Enslen, Cathy Tournier, Alan J. Whitmarsh, Mark Allen Wysk, D. Conze, Mercedes Rincon, and Roger J. Davis

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CD4 down-modulation by human immunodeficiency virus type 1 Nef correlates with the efficiency of viral replication and with CD4(+) T-cell depletion in human lymphoid tissue ex vivo, Svetlana Glushakova, Jan Munch, Silke Carl, Thomas C. Greenough, John L. Sullivan, Leonid Margolis, and Frank Kirchhoff

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Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing, Alla Grishok, Amy E. Pasquinelli, Darryl Conte Jr., Na Li, Susan Parrish, Ilho Ha, David L. Baillie, Andrew Z. Fire, Gary Ruvkun, and Craig C. Mello

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CPEB phosphorylation and cytoplasmic polyadenylation are catalyzed by the kinase IAK1/Eg2 in maturing mouse oocytes, Rebecca Hodgman, Joyce Tay, Raul Mendez, and Joel D. Richter

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A phosphatidylinositol 3-kinase-independent insulin signaling pathway to N-WASP/Arp2/3/F-actin required for GLUT4 glucose transporter recycling, Zhen Y. Jiang, Anil Chawla, Avirup Bose, Michael Way, and Michael P. Czech

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Signaling complexes of the FERM domain-containing protein GRSP1 bound to ARF exchange factor GRP1, Jes K. Klarlund, John Holik, Anil Chawla, Jin Gyoon Park, Joanne M. Buxton, and Michael P. Czech

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Sequential roles for phosphatidylinositol 3-phosphate and Rab5 in tethering and fusion of early endosomes via their interaction with EEA1, Deirdre C. Lawe, Anil Chawla, Eric Lee Merithew, John J. Dumas, Walter A. Carrington, Kevin E. Fogarty, Lawrence M. Lifshitz, Richard A. Tuft, David G. Lambright, and Silvia Corvera

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Structural plasticity of an invariant hydrophobic triad in the switch regions of Rab GTPases is a determinant of effector recognition, Eric Lee Merithew, Scott Hatherly, John J. Dumas, Deirdre C. Lawe, Robin A. Heller-Harrison, and David G. Lambright

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Nevirapine pharmacokinetics in pregnant women and in their infants after in utero exposure, Mark Mirochnick, Sue Siminski, Terry Fenton, Miladi Lugo, and John L. Sullivan

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Abnormal T cell receptor signal transduction of CD4 Th cells in X-linked lymphoproliferative syndrome, Hiroyuki Nakamura, Jodi Zarycki, John L. Sullivan, and Jae U. Jung

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The Drosophila Toll-9 activates a constitutive antimicrobial defense, James Y. Ooi, Yoshimasa Yagi, Xiaodi Hu, and Y. Tony Ip

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PYK2 as a mediator of endothelin-1/G alpha 11 signaling to GLUT4 glucose transporters, Jin Gyoon Park, Avirup Bose, John D. Leszyk, and Michael P. Czech

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Insulin action on GLUT4 traffic visualized in single 3T3-l1 adipocytes by using ultra-fast microscopy, Varsha Patki, Joanne M. Buxton, Anil Chawla, Lawrence M. Lifshitz, Kevin E. Fogarty, Walter A. Carrington, Richard A. Tuft, and Silvia Corvera

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Forward and reverse genetic analysis of microtubule motors in Chlamydomonas, Gregory J. Pazour and George B. Witman (Methods (San Diego, Calif.))

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Centrosome defects can account for cellular and genetic changes that characterize prostate cancer progression, German A. Pihan, Aruna Purohit, Jan Wallace, Raji Malhotra, Lance A. Liotta, and Stephen J. Doxsey

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Sequence-specific interaction between HIV-1 matrix protein and viral genomic RNA revealed by in vitro genetic selection, Aruna Purohit, Stefan A. Dupont, Mario Stevenson, and Michael R. Green

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Differential expression of the C(s) and Calpha1 isoforms of the catalytic subunit of cyclic 3',5'-adenosine monophosphate-dependent protein kinase testicular cells, Jovenal T. San Agustin and George B. Witman

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Infrequent detection of HIV-1-specific, but not cytomegalovirus-specific, CD8(+) T cell responses in young HIV-1-infected infants, Zachary Aaron Scott, Ellen G. Chadwick, Laura L. Gibson, Michelle D. Catalina, Margaret M. McManus, Ram Yogev, Paul Palumbo, John L. Sullivan, Paula Britto, Hannah Gay, and Katherine Luzuriaga

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Real-time visualization of processive myosin 5a-mediated vesicle movement in living astrocytes, Stanley J. Stachelek, Richard A. Tuft, Lawrence M. Lifschitz, Deborah Leonard, Alan P. Farwell, and Jack L. Leonard

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Centrosomes and the Scrambled protein coordinate microtubule-independent actin reorganization, Victoria A. Stevenson, Joseph Kramer, Jesse Kuhn, and William E. Theurkauf