Identification of combinatorial host-specific signatures with a potential to affect host adaptation in influenza A H1N1 and H3N2 subtypes

[1]  J. Komorowski,et al.  A complete map of potential pathogenicity markers of avian influenza virus subtype H5 predicted from 11 expressed proteins , 2015, BMC Microbiology.

[2]  Tin Wee Tan,et al.  Predicting host tropism of influenza A virus proteins using random forest , 2014, BMC Medical Genomics.

[3]  David F. Burke,et al.  A Recommended Numbering Scheme for Influenza A HA Subtypes , 2014, PloS one.

[4]  Yi Shi,et al.  Enabling the 'host jump': structural determinants of receptor-binding specificity in influenza A viruses , 2014, Nature Reviews Microbiology.

[5]  Yuh-Jyh Hu,et al.  Identification and Chronological Analysis of Genomic Signatures in Influenza A Viruses , 2014, PloS one.

[6]  Jan Komorowski,et al.  Learning Rule-Based Models - The Rough Set Approach , 2014 .

[7]  Anice C. Lowen,et al.  Influenza A virus reassortment. , 2014, Current topics in microbiology and immunology.

[8]  J. Komorowski,et al.  Ciruvis: a web-based tool for rule networks and interaction detection using rule-based classifiers , 2014, BMC Bioinformatics.

[9]  Jan Komorowski,et al.  Rule-Based Models of the Interplay between Genetic and Environmental Factors in Childhood Allergy , 2013, PloS one.

[10]  Hua Yang,et al.  New World Bats Harbor Diverse Influenza A Viruses , 2013, PLoS pathogens.

[11]  Mohamed Bekkar,et al.  Imbalanced Data Learning Approaches Review , 2013 .

[12]  Jia Wang,et al.  Predicting transmission of avian influenza A viruses from avian to human by using informative physicochemical properties , 2013, Int. J. Data Min. Bioinform..

[13]  Kendra A Bussey,et al.  Identification of the N-Terminal Domain of the Influenza Virus PA Responsible for the Suppression of Host Protein Synthesis , 2013, Journal of Virology.

[14]  Sakinat Oluwabukonla Folorunso,et al.  Alleviating Classification Problem of Imbalanced Dataset , 2013 .

[15]  T. Takimoto,et al.  Specific Residues in the 2009 H1N1 Swine-Origin Influenza Matrix Protein Influence Virion Morphology and Efficiency of Viral Spread In Vitro , 2012, PloS one.

[16]  Tong Wang,et al.  Amino acids 473V and 598P of PB1 from an avian-origin influenza A virus contribute to polymerase activity, especially in mammalian cells. , 2012, The Journal of general virology.

[17]  K. Lindblade,et al.  A distinct lineage of influenza A virus from bats , 2012, Proceedings of the National Academy of Sciences.

[18]  M. Mura,et al.  Influence of PB2 host-range determinants on the intranuclear mobility of the influenza A virus polymerase , 2011, The Journal of general virology.

[19]  H. Bussey,et al.  PA Residues in the 2009 H1N1 Pandemic Influenza Virus Enhance Avian Influenza Virus Polymerase Activity in Mammalian Cells , 2011, Journal of Virology.

[20]  Zheng Kou,et al.  Prediction of interspecies transmission for avian influenza A virus based on a back-propagation neural network , 2010, Math. Comput. Model..

[21]  Jin Hyun Kim,et al.  Biological and Structural Characterization of a Host-Adapting Amino Acid in Influenza Virus , 2010, PLoS pathogens.

[22]  Steven J. Gamblin,et al.  Influenza Hemagglutinin and Neuraminidase Membrane Glycoproteins , 2010, The Journal of Biological Chemistry.

[23]  Paramvir S. Dehal,et al.  FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments , 2010, PloS one.

[24]  Shibo Jiang,et al.  Genomic Signature and Mutation Trend Analysis of Pandemic (H1N1) 2009 Influenza A Virus , 2010, PloS one.

[25]  Baek Kim,et al.  PB2 Residue 271 Plays a Key Role in Enhanced Polymerase Activity of Influenza A Viruses in Mammalian Host Cells , 2010, Journal of Virology.

[26]  T. Tan,et al.  Complete-Proteome Mapping of Human Influenza A Adaptive Mutations: Implications for Human Transmissibility of Zoonotic Strains , 2010, PloS one.

[27]  B. G. Hale,et al.  Structural insights into phosphoinositide 3-kinase activation by the influenza A virus NS1 protein , 2010, Proceedings of the National Academy of Sciences.

[28]  J. Doudna,et al.  Adaptive strategies of the influenza virus polymerase for replication in humans , 2009, Proceedings of the National Academy of Sciences.

[29]  Guang-Wu Chen,et al.  Genomic Signatures of Influenza A Pandemic (H1N1) 2009 Virus , 2009, Emerging infectious diseases.

[30]  Richard A. Goldstein,et al.  Identifying Changes in Selective Constraints: Host Shifts in Influenza , 2009, PLoS Comput. Biol..

[31]  Ron A M Fouchier,et al.  Antigenic and Genetic Characteristics of Swine-Origin 2009 A(H1N1) Influenza Viruses Circulating in Humans , 2009, Science.

[32]  Yi Guan,et al.  Full Factorial Analysis of Mammalian and Avian Influenza Polymerase Subunits Suggests a Role of an Efficient Polymerase for Virus Adaptation , 2009, PloS one.

[33]  Jonathan E. Allen,et al.  Conserved amino acid markers from past influenza pandemic strains , 2009, BMC Microbiology.

[34]  J. Taubenberger,et al.  Pandemic influenza--including a risk assessment of H5N1. , 2009, Revue scientifique et technique.

[35]  R. Lamb,et al.  A new influenza virus virulence determinant: The NS1 protein four C-terminal residues modulate pathogenicity , 2008, Proceedings of the National Academy of Sciences.

[36]  R. Wagner,et al.  Avian and 1918 Spanish Influenza A Virus NS1 Proteins Bind to Crk/CrkL Src Homology 3 Domains to Activate Host Cell Signaling* , 2008, Journal of Biological Chemistry.

[37]  Jan Komorowski,et al.  BIOINFORMATICS ORIGINAL PAPER doi:10.1093/bioinformatics/btm486 Data and text mining Monte Carlo , 2022 .

[38]  G. He,et al.  Amantadine-resistance among H5N1 avian influenza viruses isolated in Northern China. , 2008, Antiviral research.

[39]  T. Tatusova,et al.  The Influenza Virus Resource at the National Center for Biotechnology Information , 2007, Journal of Virology.

[40]  Lucy A. Perrone,et al.  A Single Mutation in the PB1-F2 of H5N1 (HK/97) and 1918 Influenza A Viruses Contributes to Increased Virulence , 2007, PLoS pathogens.

[41]  David B. Finkelstein,et al.  Persistent Host Markers in Pandemic and H5N1 Influenza Viruses , 2007, Journal of Virology.

[42]  R. Krug,et al.  A site on the influenza A virus NS1 protein mediates both inhibition of PKR activation and temporal regulation of viral RNA synthesis. , 2007, Virology.

[43]  Ilkka Julkunen,et al.  Nuclear and Nucleolar Targeting of Influenza A Virus NS1 Protein: Striking Differences between Different Virus Subtypes , 2007, Journal of Virology.

[44]  R. Webster,et al.  The role of the N-terminal caspase cleavage site in the nucleoprotein of influenza A virus in vitro and in vivo , 2007, Archives of Virology.

[45]  Richard E. Randall,et al.  Influenza A virus NS1 protein binds p85β and activates phosphatidylinositol-3-kinase signaling , 2006, Proceedings of the National Academy of Sciences.

[46]  Guang-Wu Chen,et al.  Genomic Signatures of Human versus Avian Influenza A Viruses , 2006, Emerging infectious diseases.

[47]  Gavin J. D. Smith,et al.  Distribution of amantadine-resistant H5N1 avian influenza variants in Asia. , 2006, The Journal of infectious diseases.

[48]  E. D. Kilbourne.  Influenza Pandemics of the 20th Century , 2006, Emerging infectious diseases.

[49]  R. Webster,et al.  Detection of amantadine-resistant variants among avian influenza viruses isolated in North America and Asia. , 2005, Virology.

[50]  Jeffery K. Taubenberger,et al.  Characterization of the 1918 influenza virus polymerase genes , 2005, Nature.

[51]  Ying-hua Chen,et al.  Sequence comparison between the extracellular domain of M2 protein human and avian influenza A virus provides new information for bivalent influenza vaccine design. , 2005, Microbes and infection.

[52]  G. Boivin,et al.  Generation and Characterization of Recombinant Influenza A (H1N1) Viruses Harboring Amantadine Resistance Mutations , 2005, Antimicrobial Agents and Chemotherapy.

[53]  Z. Ye,et al.  Introduction of a Temperature-Sensitive Phenotype into Influenza A/WSN/33 Virus by Altering the Basic Amino Acid Domain of Influenza Virus Matrix Protein , 2004, Journal of Virology.

[54]  Robert C. Edgar,et al.  MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.

[55]  C. Müller,et al.  Crystal structure of the M1 protein‐binding domain of the influenza A virus nuclear export protein (NEP/NS2) , 2003, The EMBO journal.

[56]  Chin-fen Yang,et al.  Multiple amino acid residues confer temperature sensitivity to human influenza virus vaccine strains (FluMist) derived from cold-adapted A/Ann Arbor/6/60. , 2003, Virology.

[57]  G G Brownlee,et al.  The predicted antigenicity of the haemagglutinin of the 1918 Spanish influenza pandemic suggests an avian origin. , 2001, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.

[58]  Andrzej Skowron,et al.  Rough-Fuzzy Hybridization: A New Trend in Decision Making , 1999 .

[59]  J. Taubenberger,et al.  Origin and evolution of the 1918 "Spanish" influenza virus hemagglutinin gene. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[60]  S. Teneberg,et al.  Avian influenza A viruses differ from human viruses by recognition of sialyloligosaccharides and gangliosides and by a higher conservation of the HA receptor-binding site. , 1997, Virology.

[61]  Aleksander Ohrn,et al.  ROSETTA -- A Rough Set Toolkit for Analysis of Data , 1997 .

[62]  K. Wright,et al.  Mutations in the hemagglutinin and matrix genes of a virulent influenza virus variant, A/FM/1/47-MA, control different stages in pathogenesis. , 1996, Virus research.

[63]  H. Handa,et al.  Mechanism for inhibition of influenza virus RNA polymerase activity by matrix protein , 1996, Journal of virology.

[64]  B. Murphy,et al.  A single amino acid in the PB2 gene of influenza A virus is a determinant of host range , 1993, Journal of virology.

[65]  R. Lamb,et al.  Influenza virus M2 integral membrane protein is a homotetramer stabilized by formation of disulfide bonds. , 1991, Virology.

[66]  J. Yewdell,et al.  The antigenic structure of the influenza virus A/PR/8/34 hemagglutinin (H1 subtype) , 1982, Cell.

[67]  S. Holm.  A Simple Sequentially Rejective Multiple Test Procedure , 1979 .