Publications by authors named "Jason McDermott"

100Publications

Terabase Metagenome Sequencing of Grassland Soil Microbiomes.

Microbiol Resour Announc 2020 Aug 6;9(32). Epub 2020 Aug 6.

Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington, USA

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1128/MRA.00718-20DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7409857PMC
August 2020

Ten Simple Rules to becoming a principal investigator.

PLoS Comput Biol 2020 02 20;16(2):e1007448. Epub 2020 Feb 20.

Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1007448DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7032694PMC
February 2020

Unified feature association networks through integration of transcriptomic and proteomic data.

PLoS Comput Biol 2019 09 17;15(9):e1007241. Epub 2019 Sep 17.

Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1007241DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6748406PMC
September 2019

An Integrative Analysis of Tumor Proteomic and Phosphoproteomic Profiles to Examine the Relationships Between Kinase Activity and Phosphorylation.

Mol Cell Proteomics 2019 08 21;18(8 suppl 1):S26-S36. Epub 2019 Jun 21.

‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1074/mcp.RA119.001540DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6692771PMC
August 2019

Prediction of bacterial E3 ubiquitin ligase effectors using reduced amino acid peptide fingerprinting.

PeerJ 2019 7;7:e7055. Epub 2019 Jun 7.

Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.7717/peerj.7055DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6557245PMC
June 2019

Phosphoproteome Analysis Reveals Estrogen-ER Pathway as a Modulator of mTOR Activity Via DEPTOR.

Mol Cell Proteomics 2019 08 12;18(8):1607-1618. Epub 2019 Jun 12.

‡Department of Cell Biology and Anatomy, New York Medical College, Valhalla NY 10595

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1074/mcp.RA119.001506DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6683011PMC
August 2019

Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities.

Cell 2019 05 25;177(4):1035-1049.e19. Epub 2019 Apr 25.

Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA; Dan L Duncan Comprehensive Cancer Center, Baylor College of Medicine, Houston, TX 77030, USA. Electronic address:

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S00928674193029
Publisher Site
http://dx.doi.org/10.1016/j.cell.2019.03.030DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6768830PMC
May 2019

Improving network inference algorithms using resampling methods.

BMC Bioinformatics 2018 Oct 12;19(1):376. Epub 2018 Oct 12.

Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12859-018-2402-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6186128PMC
October 2018

Species-specific transcriptomic network inference of interspecies interactions.

ISME J 2018 08 24;12(8):2011-2023. Epub 2018 May 24.

Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41396-018-0145-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6052077PMC
August 2018

Ten simple rules for drawing scientific comics.

PLoS Comput Biol 2018 01 4;14(1):e1005845. Epub 2018 Jan 4.

Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, New Jersey, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1005845DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5754043PMC
January 2018

Drawing connections.

Authors:
Jason McDermott

Science 2017 Jun;356(6343):1202

Jason McDermott is a senior research scientist at Pacific Northwest National Laboratory in Richland, Washington. His cartoons are on Twitter at Send your career story to

View Article

Download full-text PDF

Source
http://www.sciencemag.org/lookup/doi/10.1126/science.356.634
Publisher Site
http://dx.doi.org/10.1126/science.356.6343.1202DOI Listing
June 2017

Cells Respond to Distinct Nanoparticle Properties with Multiple Strategies As Revealed by Single-Cell RNA-Seq.

ACS Nano 2016 11 31;10(11):10173-10185. Epub 2016 Oct 31.

Earth & Biological Sciences Directorate and ‡National Security Directorate, Pacific Northwest National Laboratory , Richland, Washington 99352, United States.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1021/acsnano.6b05452DOI Listing
November 2016

Network analysis of transcriptomics expands regulatory landscapes in Synechococcus sp. PCC 7002.

Nucleic Acids Res 2016 Oct 27;44(18):8810-8825. Epub 2016 Aug 27.

Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkw737DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5062996PMC
October 2016

The landscape of viral proteomics and its potential to impact human health.

Expert Rev Proteomics 2016 06 26;13(6):579-91. Epub 2016 May 26.

a Biological Sciences Division , Pacific Northwest National Laboratory , Richland , WA , USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1080/14789450.2016.1184091DOI Listing
June 2016

Prediction of multi-drug resistance transporters using a novel sequence analysis method.

F1000Res 2015 9;4:60. Epub 2015 Mar 9.

Biological Sciences, Pacific Northwest National Laboratory, Washington, WA, 99352, USA.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4743146PMC
http://dx.doi.org/10.12688/f1000research.6200.2DOI Listing
February 2016

CpG preconditioning regulates miRNA expression that modulates genomic reprogramming associated with neuroprotection against ischemic injury.

J Cereb Blood Flow Metab 2015 Feb 12;35(2):257-66. Epub 2014 Nov 12.

Department of Molecular Microbiology & Immunology, Oregon Health & Science University, Portland, Oregon, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/jcbfm.2014.193DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4426742PMC
February 2015

Biocellion: accelerating computer simulation of multicellular biological system models.

Bioinformatics 2014 Nov 26;30(21):3101-8. Epub 2014 Jul 26.

Computational Biology and Bioinformatics Group, High-performance Computing Group, Pacific Northwest National Laboratory, Richland, WA 99354, USA, Department of Computer Science, Utah State University, Logan, UT 84322, USA and Institute for Systems Biology, Seattle, WA 98109, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btu498DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4609016PMC
November 2014

Integrative genomics and computational systems medicine.

Biomed Res Int 2014 15;2014:945253. Epub 2014 Jun 15.

Department of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN 37203, USA ; Center for Quantitative Sciences, Vanderbilt University Medical Center, Nashville, TN 37232, USA ; Department of Cancer Biology, Vanderbilt University School of Medicine, Nashville, TN 37232, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2014/945253DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4082850PMC
March 2015

Computational methods for omics data.

Int J Comput Biol Drug Des 2014 28;7(2-3):97-101. Epub 2014 May 28.

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1504/IJCBDD.2014DOI Listing
September 2014

Genus-optimized strategy for the identification of chlamydial type III secretion substrates.

Pathog Dis 2013 Dec 14;69(3):213-22. Epub 2013 Aug 14.

Department of Microbial Pathogenesis, University of Maryland School of Dentistry, Baltimore, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/2049-632X.12070DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3838470PMC
December 2013

Reproducibility: two more red flags for suspect work.

Nature 2013 Jul;499(7458):284

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/499284bDOI Listing
July 2013

RNA type III secretion signals that require Hfq.

J Bacteriol 2013 May 8;195(10):2119-25. Epub 2013 Feb 8.

Department of Microbiology and Immunology, Oregon Health and Science University, Portland, Oregon, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1128/JB.00024-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3650527PMC
May 2013

Modeling dynamic regulatory processes in stroke.

PLoS Comput Biol 2012 11;8(10):e1002722. Epub 2012 Oct 11.

Pacific Northwest National Laboratory, Richland, Washington, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1002722DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3469412PMC
May 2013

Suppressed expression of T-box transcription factors is involved in senescence in chronic obstructive pulmonary disease.

PLoS Comput Biol 2012 19;8(7):e1002597. Epub 2012 Jul 19.

Department of Pharmaceutical Sciences, Massachusetts College of Pharmacy and Health Sciences, Worcester, Massachusetts, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1002597DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3400575PMC
January 2013

Identification and validation of Ifit1 as an important innate immune bottleneck.

PLoS One 2012 20;7(6):e36465. Epub 2012 Jun 20.

Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0036465PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3380000PMC
November 2012

Topological analysis of protein co-abundance networks identifies novel host targets important for HCV infection and pathogenesis.

BMC Syst Biol 2012 Apr 30;6:28. Epub 2012 Apr 30.

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1752-0509-6-28DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3383540PMC
April 2012

An adaptive coarse graining method for signal transduction in three dimensions.

Fundam Inform 2012 ;118(4)

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3233/FI-2012-720DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3865981PMC
January 2012

Systems analysis of multiple regulator perturbations allows discovery of virulence factors in Salmonella.

BMC Syst Biol 2011 Jun 28;5:100. Epub 2011 Jun 28.

Department of Molecular Microbiology and Immunology, Oregon Health & Science University, Portland, Oregon 97239, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1752-0509-5-100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3213010PMC
June 2011

A model of cyclic transcriptomic behavior in the cyanobacterium Cyanothece sp. ATCC 51142.

Mol Biosyst 2011 Aug 23;7(8):2407-18. Epub 2011 Jun 23.

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory, MSIN: J4-33, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1039/c1mb05006kDOI Listing
August 2011

Technologies and approaches to elucidate and model the virulence program of salmonella.

Front Microbiol 2011 2;2:121. Epub 2011 Jun 2.

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory Richland, WA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3389/fmicb.2011.00121DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3108385PMC
July 2011

Evolutionary transients in the rice transcriptome.

Genomics Proteomics Bioinformatics 2010 Dec;8(4):211-28

Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China.

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S16720229106002
Publisher Site
http://dx.doi.org/10.1016/S1672-0229(10)60023-XDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5054128PMC
December 2010

Controlling the response: predictive modeling of a highly central, pathogen-targeted core response module in macrophage activation.

PLoS One 2011 Feb 14;6(2):e14673. Epub 2011 Feb 14.

Computational Biology and Bioinformatics, Pacific Northwest National Laboratory, Richland, Washington, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0014673PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3038849PMC
February 2011

Computational prediction of type III and IV secreted effectors in gram-negative bacteria.

Infect Immun 2011 Jan 25;79(1):23-32. Epub 2010 Oct 25.

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory, MSIN: J4-33, 902 Battelle Boulevard, P.O. Box 999, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://iai.asm.org/lookup/doi/10.1128/IAI.00537-10
Publisher Site
http://dx.doi.org/10.1128/IAI.00537-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3019878PMC
January 2011

A three-way comparative genomic analysis of Mannheimia haemolytica isolates.

BMC Genomics 2010 Oct 4;11:535. Epub 2010 Oct 4.

Department of Veterinary Microbiology and Pathology, Washington State University, Pullman, WA 99164-7040, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2164-11-535DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091684PMC
October 2010

A multi-pronged search for a common structural motif in the secretion signal of Salmonella enterica serovar Typhimurium type III effector proteins.

Mol Biosyst 2010 Dec 29;6(12):2448-58. Epub 2010 Sep 29.

Fundamental and Computational Sciences Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, USA.

View Article

Download full-text PDF

Source
http://xlink.rsc.org/?DOI=c0mb00097c
Publisher Site
http://dx.doi.org/10.1039/c0mb00097cDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3282560PMC
December 2010

Separating the drivers from the driven: Integrative network and pathway approaches aid identification of disease biomarkers from high-throughput data.

Dis Markers 2010 ;28(4):253-66

Computational Biology and Bioinformatics Group, Pacific Northwest National Laboratory, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3233/DMA-2010-0695DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3833603PMC
September 2010

Using the gene ontology to enrich biological pathways.

Int J Comput Biol Drug Des 2009 10;2(3):221-35. Epub 2009 Dec 10.

Pacific Northwest National Laboratory, Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1504/IJCBDD.2009.030114DOI Listing
March 2010

An analysis pipeline for the inference of protein-protein interaction networks.

Int J Data Min Bioinform 2009 ;3(4):409-30

Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory (US Department of Energy), Richland, WA 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1504/ijdmb.2009.029204DOI Listing
March 2010

Genome sequences of Mannheimia haemolytica serotype A2: ovine and bovine isolates.

J Bacteriol 2010 Feb 4;192(4):1167-8. Epub 2009 Dec 4.

Department of Veterinary Microbiology and Pathology, Washington State University, Pullman, WA 99164-7040, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1128/JB.01527-09DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2812981PMC
February 2010

TRANSCRIPTIONAL ANALYSIS OF THE UNICELLULAR, DIAZOTROPHIC CYANOBACTERIUM CYANOTHECE SP. ATCC 51142 GROWN UNDER SHORT DAY/NIGHT CYCLES(1).

J Phycol 2009 Jun 18;45(3):610-20. Epub 2009 May 18.

Department of Biological Sciences, Purdue University, 201 S. University Street, West Lafayette, Indiana 47907, USAComputational Biology & Bioinformatics Group, Pacific Northwest National Laboratory (PNNL), Richland, Washington 99352, USADepartment of Biological Sciences, Purdue University, 201 S. University Street, West Lafayette, Indiana 47907, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1529-8817.2009.00674.xDOI Listing
June 2009

Accurate prediction of secreted substrates and identification of a conserved putative secretion signal for type III secretion systems.

PLoS Pathog 2009 Apr 24;5(4):e1000375. Epub 2009 Apr 24.

Department of Microbiology, University of Washington, Seattle, Washington, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.ppat.1000375DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2668754PMC
April 2009

Inferring molecular interactions pathways from eQTL data.

Methods Mol Biol 2009 ;541:211-23

Department of Computer Science and Engineering, University of Washington, Seattle, WA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-59745-243-4_10DOI Listing
June 2009

The Bioverse API and web application.

Methods Mol Biol 2009 ;541:511-34

Department of Microbiology, University of Washington, Seattle, WA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-59745-243-4_22DOI Listing
June 2009

Computational representation of biological systems.

Methods Mol Biol 2009 ;541:535-49

Department of Microbiology, University of Washington, Seattle, WA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-59745-243-4_23DOI Listing
June 2009

Prediction and integration of regulatory and protein-protein interactions.

Methods Mol Biol 2009 ;541:101-43

BIOTEC, Pathumthani, Thailand.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-59745-243-4_6DOI Listing
June 2009

A network inference workflow applied to virulence-related processes in Salmonella typhimurium.

Ann N Y Acad Sci 2009 Mar;1158:143-58

Computational Biology & Bioinformatics Group, Pacific Northwest National Laboratory (U.S. Dept of Energy), Richland, Washington, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1749-6632.2008.03762.xDOI Listing
March 2009

Coordinated regulation of virulence during systemic infection of Salmonella enterica serovar Typhimurium.

PLoS Pathog 2009 Feb 20;5(2):e1000306. Epub 2009 Feb 20.

Department of Molecular Microbiology and Immunology, Oregon Health & Science University, Portland, OR, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.ppat.1000306DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2639726PMC
February 2009

Bottlenecks and hubs in inferred networks are important for virulence in Salmonella typhimurium.

J Comput Biol 2009 Feb;16(2):169-80

Computational Biology & Bioinformatics Group, Pacific Northwest National Laboratory, US Department of Energy, Richland, WA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1089/cmb.2008.04TTDOI Listing
February 2009

Proteomics analysis of the causative agent of typhoid fever.

J Proteome Res 2008 Feb 1;7(2):546-57. Epub 2008 Jan 1.

Biological Sciences Division, and Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington 99352, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1021/pr070434uDOI Listing
February 2008

INTEGRATOR: interactive graphical search of large protein interactomes over the Web.

BMC Bioinformatics 2006 Mar 16;7:146. Epub 2006 Mar 16.

Dept. of Biomedical and Health Informatics, University of Washington, Seattle, Washington 98195, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-7-146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1459205PMC
March 2006

Origin and evolution of new exons in rodents.

Genome Res 2005 Sep 18;15(9):1258-64. Epub 2005 Aug 18.

CAS-Max Planck Junior Research Group, Key Laboratory of Cellular and Molecular Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China.

View Article

Download full-text PDF

Source
http://www.genome.org/cgi/doi/10.1101/gr.3929705
Publisher Site
http://dx.doi.org/10.1101/gr.3929705DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1199540PMC
September 2005

BIOVERSE: enhancements to the framework for structural, functional and contextual modeling of proteins and proteomes.

Nucleic Acids Res 2005 Jul;33(Web Server issue):W324-5

Department of Microbiology, University of Washington, Seattle, WA, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gki401DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1160162PMC
July 2005

Functional annotation from predicted protein interaction networks.

Bioinformatics 2005 Aug 26;21(15):3217-26. Epub 2005 May 26.

Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA.

View Article

Download full-text PDF

Source
https://academic.oup.com/bioinformatics/article-lookup/doi/1
Publisher Site
http://dx.doi.org/10.1093/bioinformatics/bti514DOI Listing
August 2005

The Genomes of Oryza sativa: a history of duplications.

PLoS Biol 2005 Feb 1;3(2):e38. Epub 2005 Feb 1.

Beijing Institute of Genomics of the Chinese Academy of Sciences, Beijing Genomics Institute, Beijing Proteomics Institute, China.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pbio.0030038DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC546038PMC
February 2005

An enhanced Java graph applet interface for visualizing interactomes.

Bioinformatics 2005 Apr 21;21(8):1741-2. Epub 2004 Dec 21.

Biomedical and Health Informatics, University of Washington, Seattle, WA 98195, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/bti237DOI Listing
April 2005

Enhanced functional information from predicted protein networks.

Trends Biotechnol 2004 Feb;22(2):60-2; discussion 62-3

Computational Genomics Group, Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.tibtech.2003.11.010DOI Listing
February 2004

Bioverse: Functional, structural and contextual annotation of proteins and proteomes.

Nucleic Acids Res 2003 Jul;31(13):3736-7

Computational Genomics Group, Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC168957PMC
http://dx.doi.org/10.1093/nar/gkg550DOI Listing
July 2003

Retrovirus capsid protein assembly arrangements.

J Mol Biol 2003 Jan;325(1):225-37

Vollum Institute and Department of Microbiology MC L220, Oregon Health and Science University, 31814 SW Sam Jackson Park Rd, Portland, OR 97201-3098, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/s0022-2836(02)01176-2DOI Listing
January 2003

EMXtalOrg: an EM tilt data organization and processing system.

Ultramicroscopy 2002 Oct;93(1):11-7

Vollum Institute, Department of Molecular Microbiology and Immunology, Oregon Health & Science University, Portland 97201-3098, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/s0304-3991(02)00135-3DOI Listing
October 2002