This collection showcases the journal articles and other publications authored by faculty and researchers in the Department of Molecular Genetics and Microbiology prior to the department becoming part of the Department of Microbiology and Physiological Systems in 2010. For recent articles see the Microbiology and Physiological Systems Publications and Presentations collection.

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Publications from 2007

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Type 1 IFN mediates cross-talk between innate and adaptive immunity that abrogates transplantation tolerance, Thomas B. Thornley, Nancy E. Phillips, Britte C. Beaudette-Zlatanova, Thomas G. Markees, Kapil Bahl, Michael A. Brehm, Leonard D. Shultz, Evelyn A. Kurt-Jones, John P. Mordes, Raymond M. Welsh, Aldo A. Rossini, and Dale L. Greiner

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The ArcA regulon and oxidative stress resistance in Haemophilus influenzae, Sandy M. S. Wong, Kishore R. Alugupalli, Sanjay Ram, and Brian J. Akerley

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Multiple signaling pathways promote B lymphocyte stimulator dependent B-cell growth and survival, Robert T. Woodland, Casey J. Fox, Madelyn R. Schmidt, Peter S. Hammerman, Joseph T. Opferman, Stanley J. Korsmeyer, David M. Hilbert, and Craig B. Thompson

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DNA polymerase beta is able to repair breaks in switch regions and plays an inhibitory role during immunoglobulin class switch recombination, Xiaoming Wu and Janet Stavnezer

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NOD2 pathway activation by MDP or Mycobacterium tuberculosis infection involves the stable polyubiquitination of Rip2., Yibin Yang, Catherine C. Yin, Amit K. Pandey, Derek Abbott, Christopher M. Sassetti, and Michelle A. Kelliher

Publications from 2006

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IFN-induced attrition of CD8 T cells in the presence or absence of cognate antigen during the early stages of viral infections, Kapil Bahl, Sung-Kwon Kim, Claudia Calcagno, Dario Ghersi, Roberto Puzone, Franco Celada, Liisa K. Selin, and Raymond M. Welsh

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Phylogenetic analysis of fungal centromere H3 proteins, Richard E. Baker and Kelly Rogers

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H2AX chromatin structures and their response to DNA damage revealed by 4Pi microscopy, Jorg Bewersdorf, Brian Thomas Bennett, and Kendall L. Knight

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The histone methyltransferase Suv39h1 increases class switch recombination specifically to IgA, Sean P. Bradley, Denise A. Kaminski, Antoine H. F. M. Peters, Thomas Jenuwein, and Janet Stavnezer

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Enterohaemorrhagic Escherichia coli Tir requires a C-terminal 12-residue peptide to initiate EspF-mediated actin assembly and harbours N-terminal sequences that influence pedestal length, Kenneth Geno Campellone, Michael John Brady, Judith G. Alamares, Daniel C. Rowe, Brian M. Skehan, Donald J. Tipper, and John M. Leong

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S. pombe FEAR protein orthologs are not required for release of Clp1/Flp1 phosphatase from the nucleolus during mitosis, Chun-Ti Chen, Marie-Pierre Peli-Gulli, Viesturs Simanis, and Dannel McCollum

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E2F1 induces MRN foci formation and a cell cycle checkpoint response in human fibroblasts, Fiona M. Frame, Harry A. Rogoff, Mary Theresa Pickering, W. Douglas Cress, and Timothy F. Kowalik

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Activated checkpoint kinase 2 provides a survival signal for tumor cells, Jagadish C. Ghosh, Takehiko Dohi, Christopher M. Raskett, Timothy F. Kowalik, and Dario C. Altieri

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Exploiting pathogenic Escherichia coli to model transmembrane receptor signalling, Richard D. Hayward, John M. Leong, Vassilis Koronakis, and Kenneth Geno Campellone

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Thiol/disulfide exchange is required for membrane fusion directed by the Newcastle disease virus fusion protein, Surbhi Jain, Lori McGinnes, and Trudy G. Morrison

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Dynamics and magnitude of virus-induced polyclonal B cell activation mediated by BCR-independent presentation of viral antigen, Evan Robert Jellison, Heath M. Guay, Eva Szomolanyi-Tsuda, and Raymond M. Welsh

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A role for the septation initiation network in septum assembly revealed by genetic analysis of sid2-250 suppressors, Quan-Wen Jin, Mian Zhou, Andrea Bimbo, Mohan K. Balasubramanian, and Dannel McCollum

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Characterization of mycobacterial virulence genes through genetic interaction mapping, Swati M Joshi, Amit K. Pandey, Nicole Capite, Sarah M. Fortune, Eric J. Rubin, and Christopher M. Sassetti

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Enhanced IgA class switching in marginal zone and B1 B cells relative to follicular/B2 B cells, Denise A. Kaminski and Janet Stavnezer

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Integrity of membrane lipid rafts is necessary for the ordered assembly and release of infectious Newcastle disease virus particles, Jason P. Laliberte, Lori McGinnes, Mark E. Peeples, and Trudy G. Morrison

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Dual role for membrane localization in yeast MAP kinase cascade activation and its contribution to signaling fidelity, Rachel E. Lamson, Satoe Takahashi, Matthew J. Winters, and Peter M. Pryciak

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Inhibition of receptor binding stabilizes Newcastle disease virus HN and F protein-containing complexes, Lori McGinnes and Trudy G. Morrison

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Virulence factors of Yersinia pestis are overcome by a strong lipopolysaccharide response, Sara W. Montminy, Naseema N. Khan, Sara C. McGrath, Mitchell J. Walkowicz, Fiona Sharp, Joseph E. Conlon, Koichi Fukase, Shoichi Kusumoto, Charles R. Sweet, Kensuke Miyake, Shizuo Akira, Robert J. Cotter, Jon D. Goguen, and Egil Lien

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Requirements for the assembly and release of Newcastle disease virus-like particles, Homer Dadios Pantua, Lori McGinnes, Mark E. Peeples, and Trudy G. Morrison

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Mismatch repair converts AID-instigated nicks to double-strand breaks for antibody class-switch recombination, Janet Stavnezer and Carol E. Schrader

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BLyS and B cell homeostasis, Robert T. Woodland, Madelyn R. Schmidt, and Craig B. Thompson

Publications from 2005

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Monoclonal antibody routinely used to identify avirulent strains of Newcastle disease virus binds to an epitope at the carboxy terminus of the hemagglutinin-neuraminidase protein and recognizes individual mesogenic and velogenic strains, Judith G. Alamares, Jianrong Li, and Ronald M. Iorio

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Aberrant termination triggers nonsense-mediated mRNA decay, Nadia Amrani, Shuyun Dong, Feng He, Robin Ganesan, Shubhendu Ghosh, Stephanie Kervestin, Chunfang Li, David A. Mangus, Phyllis Spatrick, and Allan Jacobson

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Genetic and genomic analysis of the AT-rich centromere DNA element II of Saccharomyces cerevisiae, Richard E. Baker and Kelly Rogers

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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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Nck-independent actin assembly is mediated by two phosphorylated tyrosines within enteropathogenic Escherichia coli Tir, Kenneth Geno Campellone and John M. Leong

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Human cytomegalovirus IE1-72 activates ataxia telangiectasia mutated kinase and a p53/p21-mediated growth arrest response, Jonathan Patrick Castillo, Fiona M. Frame, Harry A. Rogoff, Mary T. Pickering, Andrew D. Yurochko, and Timothy F. Kowalik

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Solving a sticky problem: new genetic approaches to host cell adhesion by the Lyme disease spirochete, Jenifer Coburn, Joshua R. Fischer, and John M. Leong

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Fibronectin binding protein BBK32 of the Lyme disease spirochete promotes bacterial attachment to glycosaminoglycans, Joshua Richard Fischer, Kimberly T. LeBlanc, and John M. Leong

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Peptidoglycan recognition by the Drosophila Imd pathway, Takashi Kaneko, Douglas T. Golenbock, and Neal S. Silverman

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Bone marrow microenvironmental changes in aged mice compromise V(D)J recombinase activity and B cell generation, Joseph E. Labrie, Lisa A. Borghesi, and Rachel M. Gerstein

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Addition of N-glycans in the stalk of the Newcastle disease virus HN protein blocks its interaction with the F protein and prevents fusion, Vanessa Rose Melanson and Ronald M. Iorio

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Shifts in targeting of class switch recombination sites in mice that lack mu switch region tandem repeats or Msh2, Irene M. Min, Lisa R. Rothlein, Carol E. Schrader, Janet Stavnezer, and Erik Selsing

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Activating Notch1 mutations in mouse models of T-ALL, Jennifer Elinor O'Neil, Jennifer Ann Calvo, Keith McKenna, Veena Krishnamoorthy, Jon C. Aster, Craig H. Bassing, Frederick W. Alt, Michelle Kelliher, and A. Thomas Look

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Characterization of an alternate form of Newcastle disease virus fusion protein, Homer Dadios Pantua, Lori McGinnes, John D. Leszyk, and Trudy G. Morrison

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Analysis of transforming growth factor-beta1-induced Ig germ-line gamma2b transcription and its implication for IgA isotype switching, Seok-Rae Park, Goo-Young Seo, Ae-Jin Choi, Janet Stavnezer, and Pyeung-Hyeun Kim

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Rb inactivation leads to E2F1-mediated DNA double-strand break accumulation, Mary T. Pickering and Timothy F. Kowalik

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Inducible DNA breaks in Ig S regions are dependent on AID and UNG, Carol E. Schrader, Erin K. Linehan, Sofia N. Mochegova, Robert T. Woodland, and Janet Stavnezer

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Aberrantly increased hydrophobicity shared by mutants of Cu,Zn-superoxide dismutase in familial amyotrophic lateral sclerosis, Ashutosh Tiwari, Zuoshang Xu, and Lawrence J. Hayward

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Inhibition of chaperone activity is a shared property of several Cu,Zn-superoxide dismutase mutants that cause amyotrophic lateral sclerosis, Hemachand Tummala, Chelowha Jung, Ashutosh Tiwari, Cynthia M. J. Higgins, Lawrence J. Hayward, and Zuoshang Xu

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Interaction with the SH3 domain protein Bem1 regulates signaling by the Saccharomyces cerevisiae p21-activated kinase Ste20, Matthew J. Winters and Peter M. Pryciak

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Environmental and genetic regulation of the phosphorylcholine epitope of Haemophilus influenzae lipooligosaccharide, Sandy M. S. Wong and Brian J. Akerley

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Homeostatic proliferation of B cells, Robert T. Woodland and Madelyn R. Schmidt

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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

Publications from 2004

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A faux 3'-UTR promotes aberrant termination and triggers nonsense-mediated mRNA decay, Nadia Amrani, Robin Ganesan, Stephanie Kervestin, David A. Mangus, Shubhendu Ghosh, and Allan Jacobson

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Human immunodeficiency virus type 1 envelope glycoproteins that lack cytoplasmic domain cysteines: impact on association with membrane lipid rafts and incorporation onto budding virus particles, Jayanta Bhattacharya, Paul J. Peters, and Paul R. Clapham

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Developmental separation of V(D)J recombinase expression and initiation of IgH recombination in B lineage progenitors in vivo, Lisa A. Borghesi and Rachel M. Gerstein

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B lineage-specific regulation of V(D)J recombinase activity is established in common lymphoid progenitors, Lisa A. Borghesi, Lih-Yun Hsu, Juli P. Miller, Michael Anderson, Leonard A. Herzenberg, Leonore A. Herzenberg, Mark S. Schlissel, David M. Allman, and Rachel M. Gerstein

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Clustering of Nck by a 12-residue Tir phosphopeptide is sufficient to trigger localized actin assembly, Kenneth Geno Campellone, Susannah Rankin, Tony Pawson, Marc W. Kirschner, Donald J. Tipper, and John M. Leong

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EspFU is a translocated EHEC effector that interacts with Tir and N-WASP and promotes Nck-independent actin assembly, Kenneth Geno Campellone, Douglas Robbins, and John M. Leong

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HCMV infection: modulating the cell cycle and cell death, Jonathan Patrick Castillo and Timothy F. Kowalik

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Hepatitis C core and nonstructural 3 proteins trigger toll-like receptor 2-mediated pathways and inflammatory activation, Angela Dolganiuc, Shilpa Oak, Karen Kodys, Douglas T. Golenbock, Robert W. Finberg, Evelyn A. Kurt-Jones, and Gyongyi Szabo

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Stress induction and mitochondrial localization of Oxr1 proteins in yeast and humans, Nathan Andrew Elliott and Michael R. Volkert

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Initiation of cytokinesis is controlled through multiple modes of regulation of the Sid2p-Mob1p kinase complex, Ming-Chin Hou, David A. Guertin, and Dannel McCollum

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Antibody class switching: uncoupling S region accessibility from transcription, Denise A. Kaminski and Janet Stavnezer

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Monomeric and polymeric gram-negative peptidoglycan but not purified LPS stimulate the Drosophila IMD pathway, Takashi Kaneko, William E. Goldman, Peter Mellroth, Hakan Steiner, Koichi Fukase, Shoichi Kusumoto, William Harley, Alvin Fox, Douglas T. Golenbock, and Neal S. Silverman

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Translational regulation of gene expression, Stephanie Kervestin and Nadia Amrani

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Bone marrow microenvironmental changes underlie reduced RAG-mediated recombination and B cell generation in aged mice, Joseph E. Labrie, Alex P. Sah, David M. Allman, Michael P. Cancro, and Rachel M. Gerstein

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Decreased dependence on receptor recognition for the fusion promotion activity of L289A-mutated newcastle disease virus fusion protein correlates with a monoclonal antibody-detected conformational change, Jianrong Li, Vanessa Rose Melanson, Anne M. Mirza, and Ronald M. Iorio

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Mutated form of the Newcastle disease virus hemagglutinin-neuraminidase interacts with the homologous fusion protein despite deficiencies in both receptor recognition and fusion promotion, Jianrong Li, Edward J. Quinlan, Anne M. Mirza, and Ronald M. Iorio

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Positive and negative regulation of poly(A) nuclease, David A. Mangus, Matthew C. Evans, Nathan S. Agrin, Mandy M. Smith, Preetam Gongidi, and Allan Jacobson

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Identification of factors regulating poly(A) tail synthesis and maturation, David A. Mangus, Mandy M. Smith, Jennifer M. McSweeney, and Allan Jacobson

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Amino acid substitutions in the F-specific domain in the stalk of the newcastle disease virus HN protein modulate fusion and interfere with its interaction with the F protein, Vanessa Rose Melanson and Ronald M. Iorio

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A novel phosphatidylinositol(3,4,5)P3 pathway in fission yeast, Prasenjit Mitra, Yingjie Zhang, Lucia E. Rameh, Mariya P. Ivshina, Dannel McCollum, John J. Nunnari, Gregory M. Hendricks, Monica L. Kerr, Seth J. Field, Lewis C. Cantley, and Alonzo H. Ross

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The histone fold domain of Cse4 is sufficient for CEN targeting and propagation of active centromeres in budding yeast, Lisa Morey, Kelly Barnes, Yinhuai Chen, Molly Fitzgerald-Hayes, and Richard E. Baker

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TAL1/SCL induces leukemia by inhibiting the transcriptional activity of E47/HEB, Jennifer Elinor O'Neil, Jennifer Shank, Nicole Cusson, Cornelis Murre, and Michelle Kelliher

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Biological analysis of human immunodeficiency virus type 1 R5 envelopes amplified from brain and lymph node tissues of AIDS patients with neuropathology reveals two distinct tropism phenotypes and identifies envelopes in the brain that confer an enhanced tropism and fusigenicity for macrophages, Paul J. Peters, Jayanta Bhattacharya, Samantha Hibbitts, Matthias T. Dittmar, Graham Simmons, Jeanne E. Bell, Peter Simmonds, and Paul R. Clapham

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Modulation of DNA repair and recombination by the bacteriophage lambda Orf function in Escherichia coli K-12, Anthony R. Poteete

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Chromosomal duplications and cointegrates generated by the bacteriophage lamdba Red system in Escherichia coli K-12, Anthony R. Poteete, Anita C. Fenton, and Ashwini Nadkarni

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In Silico Metabolic Model and Protein Expression of Haemophilus influenzae Strain Rd KW20 in Rich Medium, Anu Raghunathan, Nathan D. Price, Michael Y. Galperin, Kira S. Makarova, Samuel Purvine, Alex F. Picone, Tim Cherny, Tao Xie, Thomas J. Reilly, Robert S. Munson, Ryan E. Tyler, Brian J. Akerley, Arnold L. Smith, Bernhard O. Palsson, and Eugene Kolker

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Life, death and E2F: linking proliferation control and DNA damage signaling via E2F1, Harry A. Rogoff and Timothy F. Kowalik

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Apoptosis associated with deregulated E2F activity is dependent on E2F1 and Atm/Nbs1/Chk2, Harry A. Rogoff, Mary T. Pickering, Fiona M. Frame, Michelle E. Debatis, Yolanda Sanchez, Stephen N. Jones, and Timothy F. Kowalik

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Deletion of the nucleotide excision repair gene Ercc1 reduces immunoglobulin class switching and alters mutations near switch recombination junctions, Carol E. Schrader, Joycelyn Vardo, Erin K. Linehan, Michael Z. Twarog, Laura J. Niedernhofer, Jan H. J. Hoeijmakers, and Janet Stavnezer

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Evolution of isotype switching, Janet Stavnezer and Chris T. Amemiya

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Judging a virus by its cover, Eva Szomolanyi-Tsuda and Raymond M. Welsh

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The single-strand DNA binding activity of human PC4 prevents mutagenesis and killing by oxidative DNA damage, Jen-Yeu Wang, Altaf Hossain Sarker, Priscilla K. Cooper, and Michael R. Volkert

Publications from 2003

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The resolution of relapsing fever borreliosis requires IgM and is concurrent with expansion of B1b lymphocytes, Kishore R. Alugupalli, Rachel M. Gerstein, Jianzhu Chen, Eva Szomolanyi-Tsuda, Robert T. Woodland, and John M. Leong

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Spirochete-platelet attachment and thrombocytopenia in murine relapsing fever borreliosis, Kishore R. Alugupalli, Alan D. Michelson, Isabelle Joris, Tom G. Schwan, Kairbaan Hodivala-Dilke, Richard O. Hynes, and John M. Leong

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Position-based scanning for comparative genomics and identification of genetic islands in Haemophilus influenzae type b, Nicholas H. Bergman and Brian J. Akerley

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Tails of two Tirs: actin pedestal formation by enteropathogenic E. coli and enterohemorrhagic E. coli O157:H7, Kenneth Geno Campellone and John M. Leong

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Fusion deficiency induced by mutations at the dimer interface in the Newcastle disease virus hemagglutinin-neuraminidase is due to a temperature-dependent defect in receptor binding, Elizabeth Ann Corey, Anne M. Mirza, Elizabeth Levandowsky, and Ronald M. Iorio

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Role of the cytoplasmic domain of the Newcastle disease virus fusion protein in association with lipid rafts, V. Dolganiuc, Lori McGinnes, Elizabeth J. Luna, and Trudy G. Morrison

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Decorin-binding proteins A and B confer distinct mammalian cell type-specific attachment by Borrelia burgdorferi, the Lyme disease spirochete, Joshua Richard Fischer, Nikhat Parveen, Loranne Magoun, and John M. Leong

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The Drosophila kinesin-like protein KLP67A is essential for mitotic and male meiotic spindle assembly, Rita Gandhi, Silvia Bonaccorsi, Diana Wentworth, Stephen J. Doxsey, Maurizio Gatti, and Andrea J. Pereira

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Interacting domains of the HN and F proteins of newcastle disease virus, Kathryn A. Gravel and Trudy G. Morrison

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Genome-wide analysis of mRNAs regulated by the nonsense-mediated and 5' to 3' mRNA decay pathways in yeast, Feng He, Xiangrui Li, Phyllis Spatrick, Ryan Casillo, Shuyun Dong, and Allan Jacobson

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ALS-associated mutant SOD1G93A causes mitochondrial vacuolation by expansion of the intermembrane space and by involvement of SOD1 aggregation and peroxisomes, Cynthia M. J. Higgins, Chelowha Jung, and Zuoshang Xu

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Scw1p antagonizes the septation initiation network to regulate septum formation and cell separation in the fission yeast Schizosaccharomyces pombe, Quan-Wen Jin and Dannel McCollum

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H. influenzae Consortium: integrative study of H. influenzae-human interactions, Eugene Kolker, Samuel Purvine, Alex F. Picone, Tim Cherny, Brian J. Akerley, Robert S. Munson, Bernhard O. Palsson, Dayle A. Daines, and Arnold L. Smith

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The LPS receptor generates inflammatory signals from the cell surface, Eicke Latz, Alberto Visintin, Egil Lien, Katherine A. Fitzgerald, Terje Espevik, and Douglas T. Golenbock

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Wnt5a inhibits B cell proliferation and functions as a tumor suppressor in hematopoietic tissue, Huiling Liang, Qin Chen, Andrew H. Coles, Stephen J. Anderson, German A. Pihan, Allan Bradley, Rachel M. Gerstein, Roland Jurecic, and Stephen N. Jones

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The role of human alkyladenine glycosylase in cellular resistance to the chloroethylnitrosoureas, Qiong Li, Steven E. Wright, Zdenka Matijasevic, Wincha Chong, David B. Ludlum, and Michael R. Volkert

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Nonsense-containing mRNAs that accumulate in the absence of a functional nonsense-mediated mRNA decay pathway are destabilized rapidly upon its restitution, Alan Baer Maderazo, Jonathan Philip Belk, Feng He, and Allan Jacobson

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Poly(A)-binding proteins: multifunctional scaffolds for the post-transcriptional control of gene expression, David A. Mangus, Matthew C. Evans, and Allan Jacobson

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Making and breaking the message, David A. Mangus and Ambro van Hoof