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 2008

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Chromatin Remodeling and Transcriptional Memory: A Dissertation, Sharmistha Kundu

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Mitotic Response to DNA Damage in Early Drosophila Embroyos: a Dissertation, Seongae Kwak

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Sorting of EGF and transferrin at the plasma membrane and by cargo-specific signaling to EEA1-enriched endosomes, Deborah Leonard, Akira Hayakawa, Deirdre C. Lawe, David G. Lambright, Karl D. Bellve, Clive Standley, Lawrence M. Lifshitz, Kevin E. Fogarty, and Silvia Corvera

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KIT and mastocytosis, Ken-Hong Lim, Animesh Dev Pardanani, and Ayalew Tefferi

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The Role of Endoplasmic Reticulum Stress Signaling in Pancreatic Beta Cells: a Dissertation, Kathryn L. Lipson

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The role of IRE1alpha in the degradation of insulin mRNA in pancreatic beta-cells, Kathryn L. Lipson, Rajarshi Ghosh, and Fumihiko Urano

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AIP1 is critical in transducing IRE1-mediated endoplasmic reticulum stress response, Dianhong Luo, Yun He, Haifeng Zhang, Luyang Yu, Hong Chen, Zhe Xu, Shibo Tang, Fumihiko Urano, and Wang Min

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Id1 overexpression induces tetraploidization and multiple abnormal mitotic phenotypes by modulating aurora A, Cornelia Man, Jack Rosa, Y. L. Yip, Annie Lai-Man Cheung, Yok-Lam Kwong, Stephen J. Doxsey, and Sai Wah Tsao

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A C. elegans genome-scale microRNA network contains composite feedback motifs with high flux capacity, Natalia Julia Martinez, Maria C. Ow, M. Inmaculada Barrasa, Molly Hammell, Reynaldo Sequerra, Lynn Doucette-Stamm, Frederick P. Roth, Victor R. Ambros, and Albertha J. M. Walhout

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Genome-scale spatiotemporal analysis of Caenorhabditis elegans microRNA promoter activity, Natalia Julia Martinez, Maria C. Ow, John S. Reece-Hoyes, M. Inmaculada Barrasa, Victor R. Ambros, and Albertha J. M. Walhout

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Roles for TAB1 in regulating the IL-1-dependent phosphorylation of the TAB3 regulatory subunit and activity of the TAK1 complex, Heidi Mendoza, David G. Campbell, Kerry Burness, James Hastie, Natalia Ronkina, Jae-Hyuck Shim, J. Simon C. Arthur, Roger J. Davis, Matthias Gaestel, Gary L. Johnson, Sankar Ghosh, and Philip Cohen

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TLR agonists abrogate co-stimulation blockade-induced mixed chimerism and transplantation tolerance., David M. Miller, Thomas B. Thornley, Todd Pearson, Masahiro Yamazaki, Michael A. Brehm, Aldo A. Rossini, and Dale L. Greiner

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Trp53 deletion stimulates the formation of metastatic pancreatic tumors, Jennifer P. Morton, David S. Klimstra, Michelle E. Mongeau, and Brian C. Lewis

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JAK2V617F mutation and spontaneous megakaryocytic or erythroid colony formation in patients with essential thrombocythaemia (ET) or polycythaemia vera (PV), Satu Mustjoki, Ioana Borze, Terra L. Lasho, Riitta Alitalo, Animesh Dev Pardanani, Sakari Knuutila, and Eeva Juvonen

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Small-molecule inhibition of HIV-1 Vif, Robin S. Nathans, Hong Cao, Natalia Sharova, Akbar Ali, Mark E. Sharkey, Ruzena Stranska, Mario Stevenson, and Tariq M. Rana

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A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system, Marcus Blaine Noyes, Xiangdong Meng, Atsuya Wakabayashi, Saurabh Sinha, Michael H. Brodsky, and Scot A. Wolfe

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Identification of ROCK1 as an upstream activator of the JIP-3 to JNK signaling axis in response to UVB damage, Pat P. Ongusaha, Hank H. Qi, Lakshmi Raj, Young-Bum Kim, Stuart A. Aaronson, Roger J. Davis, Yang Shi, James K. Liao, and Sam W. Lee

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The FLYWCH transcription factors FLH-1, FLH-2, and FLH-3 repress embryonic expression of microRNA genes in C. elegans, Maria C. Ow, Natalia Julia Martinez, Philip H. Olsen, Howard S. Silverman, M. Inmaculada Barrasa, Barbara Conradt, Albertha J. M. Walhout, and Victor R. Ambros

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JAK2V617F mutation screening as part of the hypercoagulable work-up in the absence of splanchnic venous thrombosis or overt myeloproliferative neoplasm: assessment of value in a series of 664 consecutive patients, Animesh Dev Pardanani, Terra L. Lasho, Kebede Hussein, Susan M. Schwager, Christy M. Finke, Rajiv K. Pruthi, and Ayalew Tefferi

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The Hsk1(Cdc7) replication kinase regulates origin efficiency, Prasanta K. Patel, Naveen Kommajosyula, Adam Rosebrock, Aaron Bensimon, Janet K. Leatherwood, John Bechhoefer, and Nicholas R. Rhind

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c-Jun NH2-terminal kinase 2 inhibits gamma interferon production during Anaplasma phagocytophilum infection, Joao H.F. Pedra, Jochen Mattner, Jian Tao, Steven M. Kerfoot, Roger J. Davis, Richard A. Flavell, Philip W. Askenase, Zhinan Yin, and Erol Fikrig

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Variation in HIV-1 R5 macrophage-tropism correlates with sensitivity to reagents that block envelope: CD4 interactions but not with sensitivity to other entry inhibitors, Paul J. Peters, Maria J. Duenas-Decamp, W. Matthew Sullivan, Richard J. P. Brown, Chiambah Ankghuambom, Katherine Luzuriaga, James E. Robinson, Dennis R. Burton, Jeanne E. Bell, Peter Simmonds, K. Jonathan Ball, and Paul R. Clapham

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Protein kinase C signaling during T cell activation induces the endoplasmic reticulum stress response, Steven C. Pino, Bryan O'Sullivan-Murphy, Erich A. Lidstone, Thomas B. Thornley, Agata Jurczyk, Fumihiko Urano, Dale L. Greiner, John P. Mordes, Aldo A. Rossini, and Rita Bortell

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Lipid droplets: FSP27 knockout enhances their sizzle, Vishwajeet Puri and Michael P. Czech

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Cidea is associated with lipid droplets and insulin sensitivity in humans, Vishwajeet Puri, Srijana Ranjit, Silvana Konda, Sarah M. Nicoloro, Juerg R. Straubhaar, Anil Chawla, My T. Chouinard, Chenyi Lin, Alison Burkart, Silvia Corvera, Richard A. Perugini, and Michael P. Czech

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Mutations in the vpu and env Genes of HIV-1 Can Adversely Impact Infectivity: A Dissertation, Kathryn H. Richards

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A stress signaling pathway in adipose tissue regulates hepatic insulin resistance, Guadalupe Sabio, Madhumita Das, Alfonso Mora, Zhiyou Zhang, John Y. Jun, Hwi Jin Ko, Tamera Barrett, Jason K. Kim, and Roger J. Davis

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Identification and characterization of HIV-1 CD8+ T cell escape variants with impaired fitness, Victor Sanchez-Merino, Melissa Ann Farrow, Frank E. Brewster, Mohan Somasundaran, and Katherine Luzuriaga

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Primate lentiviral Vpx commandeers DDB1 to counteract a macrophage restriction, Natalia Sharova, Yuanfei Wu, Xiaochun Zhu, Ruzena Stranska, Rachna Kaushik, Mark E. Sharkey, and Mario Stevenson

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Distinct activities of the DExD/H-box splicing factor hUAP56 facilitate stepwise assembly of the spliceosome, Haihong Shen, Xuexiu Zheng, Jingping Shen, Lingdi Zhang, Rui Zhao, and Michael R. Green

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Paradoxical effect of mitochondrial respiratory chain impairment on insulin signaling and glucose transport in adipose cells, Xiarong Shi, Alison Burkart, Sarah M. Nicoloro, Michael P. Czech, Juerg R. Straubhaar, and Silvia Corvera

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A Rad51 presynaptic filament is sufficient to capture nucleosomal homology during recombinational repair of a DNA double-strand break, Manisha Sinha and Craig L. Peterson

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The presence of JAK2V617F in primary myelofibrosis or its allele burden in polycythemia vera predicts chemosensitivity to hydroxyurea, Shireen Sirhan, Terra L. Lasho, Curtis A. Hanson, Ruben A. Mesa, Animesh Dev Pardanani, and Ayalew Tefferi

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Drosophila let-7 microRNA is required for remodeling of the neuromusculature during metamorphosis, Nicholas S. Sokol, Peizhang Xu, Yuh-Nung Jan, and Victor R. Ambros

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Basic science summary, Mario Stevenson

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Lack of alternative coreceptor use by pediatric HIV-1 R5 isolates for infection of primary cord or adult peripheral blood mononuclear cells, W. Matthew Sullivan, P. Dorr, M. Perros, Richard W. Hudson Jr., Jean H. Leif, Katherine Luzuriaga, and Paul R. Clapham

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Runx2 regulates G protein-coupled signaling pathways to control growth of osteoblast progenitors, Nadiya M. Teplyuk, Mario Galindo, Viktor Teplyuk, Jitesh Pratap, Daniel W. Young, David S. Lapointe, Amjad Javed, Janet L. Stein, Jane B. Lian, Gary S. Stein, and Andre J. Van Wijnen

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Role of MAP4K4 Signaling in Adipocyte and Macrophage Derived Inflammation: A Dissertation, Gregory J. Tesz

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Phosphorylation by p38 MAPK as an alternative pathway for GSK3beta inactivation, Tina Thornton, Gustavo Pedraza-Alva, Bin Deng, C. David Wood, Alexander Aronshtam, James L. Clements, Guadalupe Sabio, Roger J. Davis, Dwight E. Matthews, Bradley Doble, and Mercedes Rincon

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Aneuploidy: cells losing their balance, Eduardo M. Torres, Bret R. Williams, and Angelika Amon

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Mutation Detection Using ENDO1: Application to Disease Diagnostics in Humans and TILLING and Eco-TILLING in Plants, Karine Triques, Elodie Piednoir, Marion Dalmais, Julien Schmidt, Christine Le Signor, Mark E. Sharkey, Michel Caboche, Benedicte Sturbois, and Abdelhafid Bendahmane

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Phase II study of dasatinib in Philadelphia chromosome-negative acute and chronic myeloid diseases, including systemic mastocytosis, Srdan Verstovsek, Ayalew Tefferi, Jorge E. Cortes, Susan O'Brien, Guillermo Garcia-Manero, Animesh Dev Pardanani, Cem Akin, Stefan Faderl, Taghi Manshouri, Deborah A. Thomas, and Hagop M. Kantarjian

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Oncogenic BRAF induces senescence and apoptosis through pathways mediated by the secreted protein IGFBP7, Narendra Wajapeyee, Ryan W. Serra, Xiaochun Zhu, Meera Mahalingam, and Michael R. Green

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Preferential utilization of Imp7/8 in nuclear import of Smads, Xiaohao Yao, Xiaochu Chen, Charisa L. Cottonham, and Lan Xu

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Innate Immunity in Type 2 Diabetes Pathogenesis: Role of the Lipopolysaccharide Signaling Cascade: A Dissertation, James L. Young

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A molecular circuit composed of CPEB-1 and c-Jun controls growth hormone-mediated synaptic plasticity in the mouse hippocampus, Nancy R. Zearfoss, Juan Marcos Alarcon, Pierre Trifilieff, Eric Kandel, and Joel D. Richter

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Akt substrate TBC1D1 regulates GLUT1 expression through the mTOR pathway in 3T3-L1 adipocytes, Qiong L. Zhou, Zhen Y. Jiang, John Holik, Anil Chawla, G. Nana Hagan, John D. Leszyk, and Michael P. Czech

Publications from 2007

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EDGEdb: a transcription factor-DNA interaction database for the analysis of C. elegans differential gene expression, M. Inmaculada Barrasa, Philippe Vaglio, Fabien Cavasino, Laurent Jacotot, and Albertha J. M. Walhout

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Polyamine analogues: potent inducers of nucleosomal array oligomerization and inhibitors of yeast cell growth, Lenny M. Carruthers, Laurence J. Marton, and Craig L. Peterson

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Loss of p53 and Ink4a/Arf cooperate in a cell autonomous fashion to induce metastasis of hepatocellular carcinoma cells, Ya-Wen Chen, David S. Klimstra, Michelle E. Mongeau, Jessica L. Tatem, Victor L. Boyartchuk, and Brian C. Lewis

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Stearoyl-CoA desaturase 2 is required for peroxisome proliferator-activated receptor gamma expression and adipogenesis in cultured 3T3-L1 cells, Jennifer L. Christianson, Sarah M. Nicoloro, Juerg R. Straubhaar, and Michael P. Czech

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Suppression of p53-dependent senescence by the JNK signal transduction pathway, Madhumita Das, Feng Jiang, Hayla Karen Sluss, Chao Zhang, Kevan M. Shokat, Richard A. Flavell, and Roger J. Davis

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Structural basis for Rab GTPase activation by VPS9 domain exchange factors, Anna M. Delprato and David G. Lambright

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Structural basis and mechanism of autoregulation in 3-phosphoinositide-dependent Grp1 family Arf GTPase exchange factors, Jonathan P. DiNitto, Anna M. Delprato, Meng-Tse Gabe Lee, Thomas Charles Cronin, Shaohui Huang, Adilson L. Guilherme, Michael P. Czech, and David G. Lambright

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A virtual look at Epstein-Barr virus infection: biological interpretations, Karen A. Duca, Michael Shapiro, Edgar Delgado-Eckert, Vey hadinoto, Abdul S. Jarrah, Reinhard Laubenbacher, Kichol Lee, Katherine Luzuriaga, Nicholas F. Polys, and David A. Thorley-Lawson

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Assessing tumor progression factors by somatic gene transfer into a mouse model: Bcl-xL promotes islet tumor cell invasion, Yi-Chieh Nancy Du, Brian C. Lewis, Douglas Hanahan, and Harold E. Varmus

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Endoplasmic reticulum stress signaling in pancreatic beta-cells, Sonya G. Fonseca, Kathryn L. Lipson, and Fumihiko Urano

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Cytogenetic studies at diagnosis in polycythemia vera: clinical and JAK2V617F allele burden correlates, Naseema Gangat, Jacob J. Strand, Terra L. Lasho, Christy M. Finke, Ryan A. Knudson, Animesh Dev Pardanani, Chin-Yang Li, Rhett P. Ketterling, and Ayalew Tefferi

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Irf3 polymorphism alters induction of interferon beta in response to Listeria monocytogenes infection, Oleg Garifulin, Zanmei Qi, Haihong Shen, Sujatha Patnala, Michael R. Green, and Victor L. Boyartchuk

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An elaborate pathway required for Ras-mediated epigenetic silencing, Claude Gazin, Narendra Wajapeyee, Stephane Gobeil, Ching-man A. Virbasius, and Michael R. Green

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Cytomegalovirus (CMV) IE1- and pp65-specific CD8+ T cell responses broaden over time after primary CMV infection in infants, Laura L. Gibson, Sheryl Dooley, Sonia Trzmielina, Mohan Somasundaran, Donna Fisher, Maria Grazia Revello, and Katherine Luzuriaga

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Proteasomal selection of multiprotein complexes recruited by LIM homeodomain transcription factors, Cenap Gungor, Naoko Taniguchi-Ishigaki, Hong Ma, Alexander Drung, Baris Tursun, Heather P. Ostendorff, Michael Bossenz, Catherina G. Becker, Thomas Becker, and Ingolf Bach

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Initiation of zebrafish haematopoiesis by the TATA-box-binding protein-related factor Trf3, Daniel O. Hart, Tamal Raha, Nathan D. Lawson, and Michael R. Green

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Evolutionarily conserved structural and functional roles of the FYVE domain, Akira Hayakawa, Susan J. Hayes, Deborah Marie Leonard, David G. Lambright, and Silvia Corvera

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Functional analysis of an individual IFT protein: IFT46 is required for transport of outer dynein arms into flagella, Yuqing Hou, Hongmin Qin, John A. Follit, Gregory J. Pazour, Joel L. Rosenbaum, and George B. Witman

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Function and dynamics of PKD2 in Chlamydomonas reinhardtii flagella, Kaiyao Huang, Dennis R. Diener, Aaron Mitchell, Gregory J. Pazour, George B. Witman, and Joel L. Rosenbaum (The Journal of cell biology)

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Insulin stimulates membrane fusion and GLUT4 accumulation in clathrin coats on adipocyte plasma membranes, Shaohui Huang, Lawrence M. Lifshitz, Christine Jones, Karl D. Bellve, Clive Standley, Sonya G. Fonseca, Silvia Corvera, Kevin E. Fogarty, and Michael P. Czech

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Dorfin-CHIP chimeric proteins potently ubiquitylate and degrade familial ALS-related mutant SOD1 proteins and reduce their cellular toxicity, Shinsuke Ishigaki, Jun-ichi Niwa, Shin-ichi Yamada, Miho Takahashi, Takashi Ito, Jun Sone, Manabu Doyu, Fumihiko Urano, and Gen Sobue

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c-Jun N-terminal kinase 1 is required for Toll-like receptor 1 gene expression in macrophages, Hooman Izadi, Amirreza T. Motameni, Tonya C. Bates, Elias R. Olivera, Vega Villar-Suarez, Ila Joshi, Renu Garg, Barbara A. Osborne, Roger J. Davis, Mercedes Rincon, and Juan Anguita

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Metabolic stress signaling mediated by mixed-lineage kinases, Anja Jaeschke and Roger J. Davis

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A radical role for p38 MAPK in tumor initiation, Norman J. Kennedy, Cristina Arrigo Cellurale, and Roger J. Davis

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Requirement of JIP scaffold proteins for NMDA-mediated signal transduction, Norman J. Kennedy, Gilles Martin, Anka G. Ehrhardt, Julie Cavanagh-Kyros, Chia-Yi Kuan, Pasko Rakic, Richard A. Flavell, Steven N. Treistman, and Roger J. Davis

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Drosophila rasiRNA pathway mutations disrupt embryonic axis specification through activation of an ATR/Chk2 DNA damage response, Carla Andrea Klattenhoff, Diana P. Bratu, Nadine Schultz, Birgit S. Koppetsch, Heather A. Cook, and William E. Theurkauf

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Biogenesis and germline functions of piRNAs, Carla Andrea Klattenhoff and William E. Theurkauf

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SWI/SNF is required for transcriptional memory at the yeast GAL gene cluster, Sharmistha Kundu, Peter J. Horn, and Craig L. Peterson

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Autoimmune Diabetes and Transplantation Tolerance Induced by Costimulation Blockade in NOD Mice: a Dissertation, Julie Lambert

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Tumor suppressor CYLD regulates acute lung injury in lethal Streptococcus pneumoniae infections, Jae Hyang Lim, Roger J. Davis, and Jian-Dong Li

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Identification and Characterization of Agv1, a Pre-Metazoan Arf GAP: A Dissertation, Kimberly Renee Long

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MKK3-p38 signaling promotes apoptosis and the early inflammatory response in the obstructed mouse kidney, Frank Y. Ma, Greg H. Tesch, Richard A. Flavell, Roger J. Davis, and David J. Nikolic-Paterson

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The Chlamydomonas genome reveals the evolution of key animal and plant functions, Sabeeha S. Merchant, Simon E. Prochnik, George B. Witman, Gregory J. Pazour, Daniel S. Rokhsar, and Arthur R. Grossman (Science (New York, N.Y.))

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Loss of centrosome integrity induces p38-p53-p21-dependent G1-S arrest, Keith Mikule, Benedicte Delaval, Philipp Kaldis, Agata Jurczyk, Polla J. Hergert, and Stephen J. Doxsey

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Structural insights into the interaction of the evolutionarily conserved ZPR1 domain tandem with eukaryotic EF1A, receptors, and SMN complexes, Ashwini K. Mishra, Laxman Gangwani, Roger J. Davis, and David G. Lambright

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Shh signaling and pancreatic cancer: implications for therapy, Jennifer P. Morton and Brian C. Lewis

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Sonic hedgehog acts at multiple stages during pancreatic tumorigenesis, Jennifer P. Morton, Michelle E. Mongeau, David S. Klimstra, John P. Morris, Yie Chia Lee, Yoshiya Kawaguchi, Christopher V. E. Wright, Matthias Hebrok, and Brian C. Lewis

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An endocytic pathway as a target of tubby for regulation of fat storage, Arnab Mukhopadhyay, Xiaojing Pan, David G. Lambright, and Heidi A. Tissenbaum

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Reproduction and longevity: secrets revealed by C. elegans, Arnab Mukhopadhyay and Heidi A. Tissenbaum

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Characteristics and management of HIV-1-infected pregnant women enrolled in a randomised trial: differences between Europe and the USA, Marie-Louise Newell, Sharon Huang, Simona Fiore, Claire Thorne, Laurent Mandelbrot, John L. Sullivan, Robert Maupin, Isaac Delke, D. Heather Watts, Richard D. Gelber, and Coleen K. Cunningham

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Bacterial DNA repair genes and their eukaryotic homologues: 5. The role of recombination in DNA repair and genome stability, Anetta Nowosielska

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DNA mismatch repair-induced double-strand breaks, Anetta Nowosielska and Martin G. Marinus

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The alternative reading frame tumor suppressor antagonizes hypoxia-induced cancer cell migration via interaction with the COOH-terminal binding protein corepressor, Seema Paliwal, Ramesh C. Kovi, Bharath D. Nath, Ya-Wen Chen, Brian C. Lewis, and Steven R. Grossman

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Virologic response to potent antiretroviral therapy and modeling of HIV dynamics in early pediatric infection, Paul Palumbo, Hulin Wu, Ellen Gould Chadwick, Ping Ruan, Katherine Luzuriaga, John Rodman, and Ram Yogev

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Human immunodeficiency virus type 1 Gag engages the Bro1 domain of ALIX/AIP1 through the nucleocapsid, Sergei Popov, Elena Popova, Michio Inoue, and Heinrich G. Gottlinger

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Fat-specific protein 27, a novel lipid droplet protein that enhances triglyceride storage, Vishwajeet Puri, Silvana Konda, Srijana Ranjit, Myriam Aouadi, Anil Chawla, My T. Chouinard, Abhijit Chakladar, and Michael P. Czech

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Ceramide transfer protein function is essential for normal oxidative stress response and lifespan, Raghavendra Pralhada Rao, Changqing Yuan, Jeremy C. Allegood, Satinder S. Rawat, Michael Beth Edwards, Xin Wang, Alfred H. Merrill Jr., Usha Acharya, and Jairaj K. Acharya

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Insight into transcription factor gene duplication from Caenorhabditis elegans Promoterome-driven expression patterns, John S. Reece-Hoyes, Jane Shingles, Denis Dupuy, Christian A. Grove, Albertha J. M. Walhout, Marc Vidal, and Ian A. Hope

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Effects of vpu start-codon mutations on human immunodeficiency virus type 1 replication in macrophages, Kathryn H. Richards and Paul R. Clapham

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Light-induced recruitment of INAD-signaling complexes to detergent-resistant lipid rafts in Drosophila photoreceptors, Parthena D. Sanxaridis, Michelle A. Cronin, Satinder S. Rawat, Girma Waro, Usha Acharya, and Susan Tsunoda

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RS domain-splicing signal interactions in splicing of U12-type and U2-type introns, Haihong Shen and Michael R. Green

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Notch signalling limits angiogenic cell behaviour in developing zebrafish arteries, Arndt F. Siekmann and Nathan D. Lawson

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Chromatin remodeling proteins interact with pericentrin to regulate centrosome integrity, James Sillibourne, Benedicte Delaval, Sambra D. Redick, Manisha Sinha, and Stephen J. Doxsey