The Open Access Publications collection contains peer-reviewed articles authored by Washington University School of Medicine faculty that have been published in open access journals or authorized by the publishers for open access availability. Open access works are generally defined as being publicly available online and free of most licensing and copyright restrictions. The Bernard Becker Medical Library maintains this collection in support of Washington University’s commitment to the principles of open access publishing and making the scholarly work and research results of our faculty as widely and easily available as possible.

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Submissions from 2005

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Quantitative analysis of EGR proteins binding to DNA: Assessing additivity in both the binding site and the protein, Jiajian Liu and Gary D. Stormo

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A surface groove essential for viral Bcl-2 function during chronic infection in vivo, Joy Loh, Qiulong Huang, Andrew M. Petros, David Nettesheim, Linda F. van Dyk, Lucia Labrada, Samuel H. Speck, Beth Levine, Edward T. Olejniczak, and Herbert W. Virgin IV

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YB-1 is important for late-stage embryonic development, optimal cellular stress responses, and the prevention of premature senescence, Zhi Hong Lu, Jason T. Books, and Timothy J. Ley

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hnRNP K binds a core polypyrimidine element in the eukaryotic translation initiation factor 4E (eIF4E) promoter, and its regulation of eIF4E contributes to neoplastic transformation, Mary Lynch, Li Chen, Michael J. Ravitz, Sapna Mehtani, Kevin Korenblat, Michael J. Pazin, and Emmett V. Schmidt

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Limitations of DSM-IV operationalizations of alcohol abuse and dependence in a sample of Australian twins, Michael T. Lynskey, Elliot C. Nelson, Rosalind J. Neuman, Kathleen K. Bucholz, Pamela A.F. Madden, Valerie S. Knopik, Wendy Slutske, John B. Whitfield, Nicholas G. Martin, and Andrew C. Heath

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ACT-5 is an essential Caenorhabditis elegans actin required for intestinal microvilli formation, A. J. MacQueen, J. J. Baggett, N. Perumov, R. A. Bauer, T. Januszewski, L. Schriefer, and J. A. Waddle

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Complications of fluoroscopically guided extraforaminal cervical nerve blocks: An analysis of 1036 injections, Daniel J. Ma III, Louis A. Gilula, and K. Daniel Riew

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Clinical challenges and unmet needs in the management of complicated intra-abdominal infections, John E. Mazuski

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A novel endogenous inhibitor of the secreted streptococcal NAD-glycohydrolase, Michael A. Meehl, Jerome S. Pinkner, Patricia J. Anderson, Scott J. Hultgren, and Michael G. Caparon

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Phylogeography and population strucure of Aedes aegypti in Arizona, Samuel A. Merrill, Frank B. Ramberg, and Henry H. Hagedorn

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Pseudomonas aeruginosa bloodstream infection: Importance of appropriate initial antimicrobial treatment, Scott T. Micek, Ann E. Lloyd, David J. Ritchie, Richard M. Reichley, Victoria J. Fraser, and Marin H. Kollef

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Mutant kinesin-2 motor subunits increase chromosome loss, Mark S. Miller, Jessica M. Esparza, Andrew M. Lippa, Fordyce G. Lux III, Douglas G. Cole, and Susan K. Dutcher

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Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species, Pat Minx, Holly Cordum, Richard Wilson, and et al

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Investigating hookworm genomes by comparative analysis of two Ancylostoma species, Makedonka Mitreva, James P. McCarter, Prema Arasu, John Hawdon, John Martin, Mike Dante, Todd Wylie, Jian Xu, Jason E. Stajich, Wadim Kapulkin, Sandra W. Clifton, Robert H. Waterston, and Richard K. Wilson

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Delaying the empiric treatment of Candida bloodstream infection until positive blood culture results are obtained: A potential risk factor for hospital mortality, Matthew Morrell, Victoria J. Fraser, and Marin H. Kollef

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Evaluation of seaFAST, a rapid fluorescent in situ hybridization test, for detection of Helicobacter pylori and resistance to clarithromycin in paraffin-embedded biopsy sections, Julie M. Morris, Alisa L. Reasonover, Michael G. Bruce, Dana L. Bruden, Brian J. McMahon, Frank D. Sacco, Douglas E. Berg, and Alan J. Parkinson

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Amprenavir and efavirenz pharmacokinetics before and after the addition of nelfinavir, indinavir, ritonavir, or saquinavir in seronegative individuals, Gene D. Morse, Susan Rosenkranz, Michael F. Para, Yoninah Segal, Robin DiFrancesco, Elizabeth Adams, Barbara Brizz, Kevin E. Yarasheski, Richard C. Reichman, and ACTG 5043 Protocol Team

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Estimation of prevalence of DSM-IV and latent class-defined ADHD subtypes in a population-based sample of child and adolescent twins, Rosalind J. Neuman, Nantawat Sitdhiraksa, Wendy Reich, Ted H.-C. Ji, Cynthia A. Joyner, Ling-Wei Sun, and Richard D. Todd

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Results of preoperative pulmonary function testing of adolescents with idiopathic scoliosis: A study of six hundred and thirty-one patients, Peter O. Newton, Frances D. Faro, Sohrab Gollogly, Randal R. Betz, Lawrence G. Lenke, and Thomas G. Lowe

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Definition of target antigens for naturally occurring CD4+ CD25+ regulatory T cells, Hiroyoshi Nishikawa, Takuma Kato, Isao Tawara, Kanako Saito, Hiroaki Ikeda, Kagemasa Kuribayashi, Paul M. Allen, Robert D. Schreiber, Shimon Sakaguchi, Lloyd J. Old, and Hiroshi Shiku

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Impact of two rounds of mass drug administration using diethylcarbamazine combined with albendazole on the prevalence of Brugia timori and of intestinal helminths on Alor Island, Indonesia, Tim Oqueka, Taniawati Supali, Is Suhariah Ismid, Purnomo, Paul Rückert, Mark Bradley, and Peter Fischer

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Antimalarial activity of human immunodeficiency virus type 1 protease inhibitors, Sunil Parikh, Jiri Gut, Eva Istvan, Daniel E. Goldberg, Diane V. Havlir, and Philip J. Rosenthal

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Development of adjacent-level ossification in patients with an anterior cervical plate, Jong-Beom Park, Yong-Sun Cho, and K. Daniel Riew

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Hypertrophy of ligamentum flavum in lumbar spinal stenosis associated with increased proteinase inhibitor concentration, Jong-Beom Park, Jin-Kyung Lee, Sung-Jin Park, and K. Daniel Riew

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Time-dependent whole-body fluorescence tomography of probe bio-distributions in mice, Sachin V. Patwardhan, Sharon R. Bloch, Samuel Achilefu, and Joseph P. Culver

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Rab3D regulates a novel vesicular trafficking pathway that is required for osteoclastic bone resorption, Nathan J. Pavlos, Jiake Xu, Dietmar Riedel, Joyce S. G. Yeoh, Steven L. Teitelbaum, John M. Papadimitriou, Reinhard Jahn, F. Patrick Ross, and Ming H. Zheng

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Genetic epidemiology of diabetes, M. Alan Permutt, Jonathon Wasson, and Nancy Cox

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Murine acute promyelocytic leukemia cells can be recognized and cleared in vivo by adaptive immune mechanisms, Jessica L. Pollock, Andrew A. Lane, Kelly Schrimpf, and Timothy J. Ley

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Comparison of a novel endoscope holder and traditional camera assistant for laparoscopic simple nephrectomy in a porcine model, Sejal S. Quayle, W. Collyer, R. Vanlangedonck, and Jaime Landman

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Comorbidity between ADHD and symptoms of bipolar disorder in a community sample of children and adolescents, Wendy Reich, Rosalind J. Neuman, Heather E. Volk, Cynthia A. Joyner, and Richard D. Todd

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Epigenetic inactivation and aberrant transcription of CSMD1 in squamous cell carcinoma cell lines, Toni M. Richter, Benton D. Tong, and Steven B. Scholnick

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Targeted and restricted complement activation on acrosome-reacted spermatozoa, Rebecca C. Riley-Vargas, Susan Lanzendorf, and John P. Atkinson

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Evolutionary models for insertions and deletions in a probabilistic modeling framework, Elena Rivas

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Recruitment of Gr-1+ monocytes is essential for control of acute toxoplasmosis, Paul M. Robben, Marie LaRegina, William A. Kuziel, and L. David Sibley

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Incubation of metanephroi with vitamin D3 increases numbers of glomeruli, Sharon A. Rogers, David Droege, Adriana Dusso, and Marc R. Hammerman

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Complex transcriptional control links NikABCDE-Dependent nickel transport with hydrogenase expression in Escherichia coli, Jessica L. Rowe, G. Lucas Starnes, and Peter T. Chivers

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CAGER: Classification analysis of gene expression regulation using multiple information sources, Jianhua Ruan and Weixiong Zhang

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Genetic analysis of the maximum drinks phenotype, Scott F. Saccone, Nancy L. Saccone, Rosalind J. Neuman, and John P. Rice

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Omega-3 fatty acids decreased irritability of patients with bipolar disorder in an add-on, open label study, Kemal Sagduyu, Mehmet E. Dokucu, Bruce A. Eddy, Gerald Craigen, Claudia F. Baldassano, and Aysegül Yıldız

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Potassium channels in C. elegans, Lawrence B. Salkoff, Aguan Wei, Beravan Baban, Alice Butler, Gloria L. Fawcett, Gonzalo Ferreira, and Celia M. Santi

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Akt-dependent cell size regulation by the adhesion molecule on glia occurs independently of phosphatidylinositol 3-kinase and Rheb signaling, Danielle K. Scheidenhelm, Jennifer Cresswell, Carrie A. Haipek, Timothy P. Fleming, Robert W. Mercer, and David H. Gutmann

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Msx2 promotes cardiovascular calcification by activating paracrine Wnt signals, Jian-Su Shao, Su-Li Cheng, Joyce M. Pingsterhaus, Nichole Charlton-Kachigian, Arleen P. Loewy, and Dwight A. Towler

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Varying rates of Clostridium difficile-associated diarrhea at prevention epicenter hospitals, SeJean Sohn, Michael Climo, Daniel Diekema, Victoria Fraser, Loreen Herwaldt, Susan Marino, Gary Noskin, Trish Perl, Xiaoyan Song, Jerome Tokars, David Warren, Edward Wong, Deborah S. Yokoe, Theresa Zembower, and Kent A. Sepkowitz

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Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes, John Spieth, LaDeana W. Hillier, Richard K. Wilson, and et al

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Overview of gene structure, John Spieth and Daniel Lawson

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Clinical outcome at a minimum of five years after reconstruction of the anterior cruciate ligament, Kurt P. Spindler, Todd A. Warren, J. Claiborne Callison Jr., Michelle Secic, Sheryl B. Fleisch, and Rick W. Wright

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Gap junctions regulate extracellular signal-regulated kinase signaling to affect gene transcription, Joseph P. Stains and Roberto Civitelli

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Non-linear heart rate variability and risk stratification in cardiovascular disease, Phyllis K. Stein and Anand Reddy

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Toward an understanding of risk factors for binge-eating disorder in black and white women: A community-based case-control study, Ruth H. Striegel-Moore, Christopher G. Fairburn, Denise E. Wilfley, Kathleen M. Pike, Faith-Anne Dohm, and Helena C. Kraemer

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Natural peptides selected by diabetogenic DQ8 and murine I-Ag7 molecules show common sequence specificity, Anish Suri, James J. Walters, Michael L. Gross, and Emil R. Unanue

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Age-dependent changes in susceptibility of suckling mice to individual strains of Helicobacter pylori, Hiroyuki Suto, Maojun Zhang, and Douglas E. Berg

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Making connections between novel transcription factors and their DNA motifs, Kai Tan, Lee Ann McCue, and Gary D. Stormo

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Diverse phenotypes resulting from polyphosphate kinase gene (ppk1) inactivation in different strains of Helicobacter pylori, Shumin Tan, Cresson D. Fraley, Maojun Zhang, Daiva Dailidiene, Arthur Kornberg, and Douglas E. Berg

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Quality determination and the repair of poor quality spots in array experiments, Brian DM Tom, Walter R. Gilks, Elizabeth T. Brooke-Powell, and James W. Ajioka

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DAP12 (KARAP) amplifies inflammation and increases mortality from endotoxemia and septic peritonitis, Isaiah R. Turnbull, Jonathan E. McDunn, Toshiyuki Takai, R. Reid Townsend, J. Perren Cobb, and Marco Colonna

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Laparoscopic ureterocalicostomy: Development of a technique simplified by application of nitinol clips and a wet monopolar electrosurgery device, Richard Vanlangendonck, Ramakrishna Venkatesh, Christopher Vulin, Sejal Quayle, Kevin Morrissey, and Jaime Landman

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Genetic networks controlling retinal injury, Felix R. Vazquez-Chona, Amna N. Khan, Chun K. Chan, Anthony N. Moore, Pramod K. Dash, M. Rosario Hernandez, Lu Lu, Elissa J. Chesler, Kenneth F. Manly, Robert W. Williams, and Eldon E. Geisert Jr.

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Impact of a double-pigtail stent on ureteral peristalsis in the porcine model: Initial studies using a novel implantable magnetic sensor, Ramakrishna Venkatesh, Jaime Landman, Scott D. Minor, David I. Lee, Jamil Rehman, Richard Vanlangendonck, Maged Ragab, Kevin Morrissey, Chandru P. Sundaram, and Ralph V. Clayman

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Determination of cell viability after laparoscopic tissue stapling in a porcine model, Ramakrishna Venkatesh, Jamil Rehman, Jaime Landman, David Lee, Maged E. Ragab, Chandru P. Sundaram, Peter A. Humphrey, and Ralph V. Clayman

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PGC-1α coactivates PDK4 gene expression via the orphan nuclear receptor ERRα: A mechanism for transcriptional control of muscle glucose metabolism, Adam R. Wende, Janice M. Huss, Paul J. Schaeffer, Vincent Giguere, and Daniel P. Kelly

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Extension of Lander-Waterman theory for sequencing filtered DNA libraries, Michael C. Wendl and W Brad Barbazuk

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Gliding motility leads to active cellular invasion by Cryptosporidium parvum sporozoites, Dawn M. Wetzel, Joann Schmidt, Mark S. Kuhlenschmidt, J.P. Dubey, and L. David Sibley

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Choice of residential location: Chance, family influences, or genes?, John B. Whitfield, Gu Zhu, Andrew C. Heath, and Nicholas G. Martin

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The repetitive landscape of the chicken genome, Thomas Wicker, Jon S. Robertson, Stefan R. Schulze, F. Alex Feltus, Vincent Magrini, Jason A. Morrison, Elaine R. Mardis, Richard K. Wilson, Daniel G. Peterson, Andrew H. Paterson, and Robert Ivarie

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Cholesterol dependence of HTLV-I infection, Matthew M. Wielgosz, Daniel A. Rauch, Kathryn S. Jones, Frank W. Ruscetti, and Lee Ratner

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Uropathogenic Escherichia coli flagella aid in efficient urinary tract colonization, Kelly J. Wright, Patrick C. Seed, and Scott J. Hultgren

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Macrophage migration inhibitory factor stimulated by Helicobacter pylori increases proliferation of gastric epithelial cells, Harry Hua-Xiang Xia, Shiu Kum Lam, Annie O. O. Chan, Marie Chia Mi Lin, Hsiang Fu Kung, Keiji Ogura, Douglas E. Berg, and Benjamin C. Y. Wong

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Coordinate control of axon defasciculation and myelination by laminin-2 and -8, Dongren Yang, Jesse Bierman, Yukie S. Tarumi, Yong-Ping Zhong, Reshma Rangwala, Thomas M. Proctor, Yuko Miyagoe-Suzuki, Shin'ichi Takeda, Jeffrey H. Miner, Larry S. Sherman, Bruce G. Gold, and Bruce L. Patton

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Transcriptional repression of the Neurofibromatosis-1 tumor suppressor by the t(8;21) fusion protein, Genyan Yang, Waleed Khalaf, Louis van de Locht, Joop H. Jansen, Meihua Gao, Mary Ann Thompson, Bert A. van der Reijden, David H. Gutmann, Ruud Delwel, D. Wade Clapp, and Scott W. Hiebert

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The ponticulus posticus: Implications for screw insertion into the first cervical lateral mass, Jason P. Young, Paul H. Young, Paul A. Anderson, and K. Daniel Riew

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Shiga toxin is transported from the endoplasmic reticulum following interaction with the luminal chaperone HEDJ/ERdj3, Min Yu and David B. Haslam

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Divalent cation sensitivity of BK channel activation supports the existence of three distinct binding sites, Xu-Hui Zeng, Xiao-Ming Xia, and Christopher J. Lingle

Submissions from 2004

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Antimicrobial use and the influence of inadequate empiric antimicrobial therapy on the outcomes of nosocomial bloodstream infections in a neonatal intensive care unit, Anucha Apisarnthanarak, Galit Holzmann-Pazgal, Aaron Hamvas, Margaret A. Olson, and Victoria J. Fraser

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A novel missense mutation in the gene for gap-junction protein α3 (GJA3) associated with autosomal dominant “nuclear punctate” cataracts linked to chromosome 13q, Thomas M. Bennett, Donna S. Mackay, Harry L.S. Knopf, and Alan Shiels

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Polyphosphoinositides-dependent regulation of the osteoclast actin cytoskeleton and bone resorption, Rajat S. Biswas, De Anna Baker, Keith A. Hruska, and Meenakshi A. Chellaiah

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Characterization of a defensin from the sand fly Phlebotomus duboscqi induced by challenge with bacteria or the protozoan parasite Leishmania major, Nathalie Boulanger, Carl Lowenberger, Petr Volf, Raul Ursic, Lucie Sigutova, Laurence Sabatier, Milena Svobodova, Stephen M. Beverley, Gerald Spath, Reto Brun, Bernard Pesson, and Philippe Bulet

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ARF impedes NPM/B23 shuttling in an Mdm2-sensitive tumor suppressor pathway, Suzanne N. Brady, Yue Yu, Leonard B. Maggi Jr., and Jason D. Weber

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Contribution of glutathione peroxidase to the virulence of streptococcus pyogenes, Audrey Brenot, Katherine Y. King, Blythe Janowiak, Owen Griffith, and Michael G. Caparon

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What's new in spine surgery, Keith H. Bridwell, Paul A. Anderson, Scott D. Boden, Alexander R. Vaccaro, and Jack E. Zigler

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Pedicle subtraction osteotomy for the treatment of fixed sagittal imbalance: Surgical technique., Keith H. Bridwell, Stephen J. Lewis, Anthony Rinella, Lawrence G. Lenke, Christy Baldus, and Kathy Blanke

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Evaluation of a real-time PCR assay using the LightCycler system for detection of parvovirus B19 DNA, Richard S. Buller and Gregory Storch

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Evolutionary and functional relationships among the nontypeable Haemophilus influenzae HMW family of adhesins, Amy Z. Buscher, Katie Burmeister, Stephen J. Barenkamp, and Joseph W. St. Geme III

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Type I Interferon Sensitizes Lymphocytes to Apoptosis and Reduces Resistance to Listeria Infection, Javier A. Carrero, Boris Calderon, and Emil R. Unanue

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Differential requirements for Vav proteins in DAP10- and ITAM-mediated NK cell cytotoxicity, Marina Cella, Keiko Fujikawa, Ilaria Tassi, Sunjin Kim, Kevin Latinis, Shinzo Nishi, Wayne Yokoyama, Marco Colonna, and Wojciech Swat

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Type III Secretion System Genes in Clinical Aeromonas Isolates, M. R. Chacón, L. Soler, E. A. Groisman, J. Guarro, and M. J. Figueras

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Multiplex PCR assay for rapid detection and genotyping of Helicobacter pylori directly from biopsy specimens, Santanu Chattopadhyay, Rajashree Patra, T. Ramamurthy, Abhijit Chowdhury, Amal Santra, G. K. Dhali, S. K. Bhattacharya, Douglas E. Berg, G. Balakrish Nair, and Asish K. Mukhopadhyay

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Helicobacter acinonychis: Genetic and rodent infection studies of a Helicobacter pylori-like gastric pathogen of cheetahs and other big cats, Daiva Dailidiene, Keiji Ogura, Maojun Zhang, Asish K. Mukhopadhyay, Kathryn A. Eaton, Giovanni Cattoli, Johannes G. Kusters, and Douglas E. Berg

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Distinct roles for the AAA ATPases NSF and p97 in the secretory pathway, Seema Dalal, Meredith F.N. Rosser, Douglas M. Cyr, and Phyllis I. Hanson

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Perceptual ‘‘read-out’’ of conjoined direction and disparity maps in extrastriate area MT, Gregory C. DeAngelis and William T. Newsome

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Visual activation in prefrontal cortex is stronger in monkeys than in humans, Katrien Denys, Wim Vanduffel, Denis Fize, Koen Nelissen, Hiromasa Sawamura, Svetlana Georgieva, Rufin Vogels, David Van Essen, and Guy A. Orban

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EAnnot: A genome annotation tool using experimental evidence, Li Ding, Aniko Sabo, Nicolas Berkowicz, Rekha R. Meyer, Yoram Shotland, Mark R. Johnson, Kymberlie H. Pepin, Richard K. Wilson, and John Spieth

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Absent posterior tibial artery associated with idiopathic clubfoot: A report of two cases, Matthew B. Dobbs, J. Eric Gordon, and Perry L. Schoenecker

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Use of an intramedullary rod for treatment of congenital pseudarthrosis of the tibia: A long-term follow-up study, Matthew B. Dobbs, Margaret M. Rich, J. Eric Gordon, Deborah A. Szymanski, and Perry L. Schoenecker

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Factors Predictive of Outcome after Use of the Ponseti Method for the Treatment of Idiopathic Clubfeet, Matthew B. Dobbs, J. R. Rudzki, Derek B. Purcell, Tim Walton, Kristina R. Porter, and Christina A. Gurnett

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Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction, Robin D. Dowell and Sean R. Eddy

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Protective role of interleukin-6 during Yersinia enterocolitica infection is mediated through the modulation of inflammatory cytokines, Peter H. Dube, Scott A. Handley, James Lewis, and Virginia L. Miller

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Accurate Identification of adverse outcomes after cervical spine surgery, Charles C. Edwards II, Yekaterina Karpitskaya, Chuck Cha, John G. Heller, Carl Lauryssen, S. Timothy Yoon, and K. Daniel Riew

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RNAi-mediated Hip1R silencing results in stable association between the endocytic machinery and the actin assembly machinery, Åsa E.Y. Engqvist-Goldstein, Claire X. Zhang, Sebastien Carreno, Consuelo Barroso, John E. Heuser, and David G. Drubin

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Population genetic variation in gene expression is associated with phenotypic variation in Saccharomyces cerevisiae, Justin C. Fay, Heather L. McCullough, Paul D. Sniegowski, and Michael B. Eisen

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Analysis of Human mRNAs With the Reference Genome Sequence Reveals Potential Errors, Polymorphisms, and RNA Editing, Terrence S. Furey, Mark Diekhans, Yontao Lu, Tina A. Graves, Lachlan Oddy, Jennifer Randall-Maher, LaDeana W. Hillier, Richard K. Wilson, and David Haussler