Publications by authors named "Adam Zemla"

41Publications

Single Amino Acid Mutations Affect Zika Virus Replication In Vitro and Virulence In Vivo.

Viruses 2020 11 12;12(11). Epub 2020 Nov 12.

Biosciences and Biotechnology Division, Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550, USA.

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November 2020

Factors Associated with High Preoperative Anxiety: Results from Cluster Analysis.

World J Surg 2020 07;44(7):2162-2169

Department of Cardiac Surgery, Florian Ceynowa Specialist Hospital, Dr. Jagalski Str. 10, 84-200, Wejherowo, Poland.

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July 2020

Multiscale analysis for patterns of Zika virus genotype emergence, spread, and consequence.

PLoS One 2019 6;14(12):e0225699. Epub 2019 Dec 6.

Computations Directorate, Lawrence Livermore National Laboratory, Livermore, California, United States of America.

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April 2020

Assessment of anxiety in patients after cardiac surgery: validation study of the Visual Analogue Scale.

Kardiol Pol 2019 Nov 10;77(11):1081-1083. Epub 2019 Oct 10.

Department of Cardiac Surgery, Florian Ceynowa Specialist Hospital, Wejherowo, Poland

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November 2019

Measures of preoperative anxiety.

Anaesthesiol Intensive Ther 2019 ;51(1):64-69

Department of Cardiac Surgery, Ceynowa Specialist Hospital in Wejherowo, Poland.

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April 2020

Constructivism in patient education: using drawings to explore preconception of coronary artery disease.

Kardiol Pol 2018 ;76(8):1274-1276

Department of Family Medicine, Medical University of Gdańsk, Dębinki 2, 80-211 Gdańsk, Poland; Department of Cardiac Surgery, Ceynowa Hospital, Wejherowo, Poland.

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December 2018

Microbial mercury methylation in Antarctic sea ice.

Nat Microbiol 2016 08 1;1(10):16127. Epub 2016 Aug 1.

School of Earth Sciences, University of Melbourne, Parkville, Victoria 3010, Australia.

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August 2016

GeneSV - an Approach to Help Characterize Possible Variations in Genomic and Protein Sequences.

Bioinform Biol Insights 2014 Jan 8;8:1-16. Epub 2014 Jan 8.

Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA, USA.

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January 2014

Rapid countermeasure discovery against Francisella tularensis based on a metabolic network reconstruction.

PLoS One 2013 21;8(5):e63369. Epub 2013 May 21.

Department of Defense Biotechnology High Performance Computing Software Applications Institute, Telemedicine and Advanced Technology Research Center, U.S. Army Medical Research and Materiel Command, Fort Detrick, Maryland, United States of America.

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December 2013

Computational analysis of pathogen-borne metallo β-lactamases reveals discriminating structural features between B1 types.

BMC Res Notes 2012 Feb 14;5:96. Epub 2012 Feb 14.

Global Security Computing Applications Division, Lawrence Livermore National Laboratory, Livermore, 94550 CA, USA.

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February 2012

A semi-quantitative, synteny-based method to improve functional predictions for hypothetical and poorly annotated bacterial and archaeal genes.

PLoS Comput Biol 2011 Oct 20;7(10):e1002230. Epub 2011 Oct 20.

Department of Environmental Science, Policy, and Management, University of California, Berkeley, California, United States of America.

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October 2011

StralSV: assessment of sequence variability within similar 3D structures and application to polio RNA-dependent RNA polymerase.

BMC Bioinformatics 2011 Jun 2;12:226. Epub 2011 Jun 2.

Global Security Computing Applications Division, Lawrence Livermore National Laboratory, Livermore, CA 94550, USA.

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June 2011

Practical applications of structural genomics technologies for mutagen research.

Mutat Res 2011 Jun 21;722(2):165-70. Epub 2010 Dec 21.

Global Security Computing Applications Division, Lawrence Livermore National Laboratory, Livermore, CA 94551 0808, USA.

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June 2011

Amino acid and structural variability of Yersinia pestis LcrV protein.

Infect Genet Evol 2010 Jan 14;10(1):137-45. Epub 2009 Oct 14.

State Research Center for Applied Microbiology and Biotechnology, 142279 Obolensk, Moscow Region, Russia.

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January 2010

SpaK/SpaR two-component system characterized by a structure-driven domain-fusion method and in vitro phosphorylation studies.

PLoS Comput Biol 2009 Jun 5;5(6):e1000401. Epub 2009 Jun 5.

Computing Applications and Research Department, Lawrence Livermore National Laboratory, Livermore, California, United States of America.

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June 2009

Characterization of cytochrome 579, an unusual cytochrome isolated from an iron-oxidizing microbial community.

Appl Environ Microbiol 2008 Jul 9;74(14):4454-62. Epub 2008 May 9.

Chemistry Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550, USA.

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July 2008

Structural re-alignment in an immunogenic surface region of ricin A chain.

Bioinform Biol Insights 2008 Feb 1;2:5-13. Epub 2008 Feb 1.

Computational Biology for Countermeasures Group, Lawrence Livermore National Laboratory, Livermore, CA 94550, USA.

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February 2008

STRALCP--structure alignment-based clustering of proteins.

Nucleic Acids Res 2007 26;35(22):e150. Epub 2007 Nov 26.

Computing Applications and Research, Lawrence Livermore National Laboratory, Livermore, CA 94550, USA.

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January 2008

Antibody elbow angles are influenced by their light chain class.

J Mol Biol 2006 Apr 25;357(5):1566-74. Epub 2006 Jan 25.

Department of Molecular Biology, The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA.

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April 2006

A non-cleavable UmuD variant that acts as a UmuD' mimic.

J Biol Chem 2006 Apr 6;281(14):9633-40. Epub 2006 Feb 6.

Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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April 2006

Computational approaches for identification of conserved/unique binding pockets in the A chain of ricin.

Bioinformatics 2005 Jul 19;21(14):3089-96. Epub 2005 May 19.

Lawrence Livermore National Laboratory 7000 E. Avenue, Livermore, CA 94550, USA.

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July 2005

The crystal structures of EAP domains from Staphylococcus aureus reveal an unexpected homology to bacterial superantigens.

J Biol Chem 2005 Apr 3;280(17):17243-50. Epub 2005 Feb 3.

Department of Biophysics and Biophysical Chemistry, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

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April 2005

Mycobacterium tuberculosis RmlC epimerase (Rv3465): a promising drug-target structure in the rhamnose pathway.

Acta Crystallogr D Biol Crystallogr 2004 May 21;60(Pt 5):895-902. Epub 2004 Apr 21.

Department of Chemistry and Biochemistry and W M Keck Foundation Center for Molecular Structure, California State University Fullerton, Fullerton, CA 92834, USA.

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May 2004

Assessment of progress over the CASP experiments.

Proteins 2003 ;53 Suppl 6:585-95

Biology and Biotechnology Research Program, Lawrence Livermore National Laboratory, Livermore, California, USA.

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January 2004

Critical assessment of methods of protein structure prediction (CASP)-round V.

Proteins 2003 ;53 Suppl 6:334-9

Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA.

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January 2004

LGA: A method for finding 3D similarities in protein structures.

Authors:
Adam Zemla

Nucleic Acids Res 2003 Jul;31(13):3370-4

Lawrence Livermore National Laboratory, 7000 East Avenue, Livermore, CA 94550, USA.

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July 2003

The TB structural genomics consortium crystallization facility: towards automation from protein to electron density.

Acta Crystallogr D Biol Crystallogr 2002 Oct 26;58(Pt 10 Pt 1):1514-8. Epub 2002 Sep 26.

Macromolecular Crystallography and TB Structural Genomics Consortium, Lawrence Livermore National Laboratory, Livermore, CA 94551, USA.

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October 2002

The significance of performance ranking in CASP--response to Marti-Renom et al.

Structure 2002 Mar;10(3):291-2; discussion 292-3

Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville 20850, USA.

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March 2002