Jason E. McDermott

发表

The effect of inhibition of PP1 and TNFα signaling on pathogenesis of SARS coronavirus

Chengjun Li, Jason E. McDermott, Hugh D. Mitchell, 2016, BMC Systems Biology.

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

Joshua N. Adkins, Richard D. Smith, Hyunjin Yoon, 2011, BMC Systems Biology.

Defining the Players in Higher-Order Networks: Predictive Modeling for Reverse Engineering Functional Influence Networks

Antonio Sanfilippo, Jason E. McDermott, Michelle Archuleta, 2011, Pacific Symposium on Biocomputing.

Ten simple rules for drawing scientific comics

Matthew Partridge, Jason E. McDermott, Yana Bromberg, 2018, PLoS Comput. Biol..

Evolutionary Transients in the Rice Transcriptome

Jian Wang, Jun Li, Jun Yu, 2010, Genom. Proteom. Bioinform..

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

Mudita Singhal, Kelly Domico, H. Steven Wiley, 2009, Int. J. Data Min. Bioinform..

Functional annotation from predicted protein interaction networks

Ram Samudrala, Jason E. McDermott, Roger Eugene Bumgarner, 2005, Bioinform..

Investigating political and demographic factors in crowd based interfaces

Tom Barker, Jason E. McDermott, Matthias Hank Haeusler, 2009, OZCHI '09.

Computational Systems Biology

Roger E. Bumgarner, Ram Samudrala, Jason E. McDermott, 2009, Methods in Molecular Biology.

Session introduction

Richard Bonneau, Jason E. McDermott, Daniel R. Hyduke, 2011, Pacific Symposium on Biocomputing.

Hypergraph models of biological networks to identify genes critical to pathogenic viral response

Qing Tan, Cliff Joslyn, Brenda Praggastis, 2020, BMC Bioinform..

Modeling Emergence in Neuroprotective Regulatory Networks

Jereme Haack, Antonio Sanfilippo, Jason E. McDermott, 2012, Complex.

An Adaptive Coarse Graining Method for Signal Transduction in Three Dimensions

Jeremy S. Edwards, Jason E. McDermott, Michelle Archuleta, 2012, Fundam. Informaticae.

Suppressed Expression of T-Box Transcription Factors Is Involved in Senescence in Chronic Obstructive Pulmonary Disease

Deepti Malhotra, Jason E. McDermott, George K. Acquaah-Mensah, 2012, PLoS Comput. Biol..

Learning biological networks via bootstrapping with optimized go-based gene similarity

Marc Verhagen, Antonio Sanfilippo, Bob Baddeley, 2010, BCB '10.

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

Ram Samudrala, Michal Guerquin, Jason E. McDermott, 2006, BMC Bioinformatics.

An integrated approach to predictive genomic analytics

Antonio Sanfilippo, Bob Baddeley, Jason E. McDermott, 2010, BCB '10.

It Takes Glue to Tango: MeDICi integration framework creates data-intensive computing pipeline

Ian Gorton, Christopher S. Oehmen, Jason E. McDermott, 2008 .

Pacific Symposium on Biocomputing 14:451-463 (2009) A BAYESIAN INTEGRATION MODEL OF HIGH- THROUGHPUT PROTEOMICS AND METABOLOMICS DATA FOR IMPROVED EARLY DETECTION OF MICROBIAL INFECTIONS

Joel G. Pounds, Lee Ann McCue, Bobbie-Jo M. Webb-Robertson, 2022 .

SEBINI-CABIN: An Analysis Pipeline for Biological Network Inference, with a Case Study in Protein-Protein Interaction Network Reconstruction

Mudita Singhal, Kelly Domico, G. Hurst, 2007, ICMLA 2007.

Enriching regulatory networks by bootstrap learning using optimised GO-based gene similarity and gene links mined from PubMed abstracts

James Pustejovsky, Marc Verhagen, Antonio Sanfilippo, 2011, Int. J. Comput. Biol. Drug Des..

Let the Data Do the Talking: Hypothesis Discovery from Large-Scale Data Sets in Real Time

Deborah K. Gracio, Christopher S. Oehmen, Lee Ann McCue, 2012 .

Using the gene ontology to enrich biological pathways

Antonio Sanfilippo, Bob Baddeley, Jason E. McDermott, 2009, Int. J. Comput. Biol. Drug Des..

SEBINI-CABIN: An Analysis Pipeline for Biological Network Inference, with a Case Study in Protein-Protein Interaction Network Reconstruction

Mudita Singhal, Kelly Domico, Denise Schmoyer, 2007, Sixth International Conference on Machine Learning and Applications (ICMLA 2007).

Bioverse: functional, structural and contextual annotation of proteins and proteomes

Ram Samudrala, Jason E. McDermott, R. Samudrala, 2003, Nucleic Acids Res..

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

Ram Samudrala, Michal Guerquin, Jason E. McDermott, 2005, Nucleic Acids Res..

An enhanced Java graph applet interface for visualizing interactomes

Ram Samudrala, Jason E. McDermott, Aaron N. Chang, 2005, Bioinform..

Bottlenecks and Hubs in Inferred Networks Are Important for Virulence in Salmonella typhimurium

Hyunjin Yoon, Jason E. McDermott, Fred Heffron, 2009, J. Comput. Biol..

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

Courtney Corley, Jason E. McDermott, Michael G. Katze, 2012, BMC Systems Biology.

Conserved host response to highly pathogenic avian influenza virus infection in human cell culture, mouse and macaque model systems

Chengjun Li, Jason E. McDermott, Amie J. Eisfeld, 2011, BMC Systems Biology.

Reproducibility: Two more red flags for suspect work

Jason E. McDermott, 2013, Nature.

Sequential projection pursuit principal component analysis--dealing with missing data associated with new -omics technologies.

Joel G. Pounds, Bobbie-Jo M. Webb-Robertson, Thomas O. Metz, 2013, BioTechniques.

Modeling Dynamic Regulatory Processes in Stroke

Antonio Sanfilippo, Keri B. Vartanian, Mary J. Lancaster, 2012, PLoS Comput. Biol..

Controlling the Response: Predictive Modeling of a Highly Central, Pathogen-Targeted Core Response Module in Macrophage Activation

Joshua N. Adkins, Jason E. McDermott, Katrina M. Waters, 2011, PloS one.

A Network Integration Approach to Predict Conserved Regulators Related to Pathogenicity of Influenza and SARS-CoV Respiratory Viruses

Thomas O. Metz, Jean H. Chang, Jason E. McDermott, 2013, PloS one.

Impact of Dietary Resistant Starch on the Human Gut Microbiome, Metaproteome, and Metabolome

Rob Knight, Jörg Bernhardt, Jason E. McDermott, 2017, mBio.

Technologies and Approaches to Elucidate and Model the Virulence Program of Salmonella

Bernhard O. Palsson, Joshua N. Adkins, Thomas O. Metz, 2011, Front. Microbio..

Accurate Prediction of Secreted Substrates and Identification of a Conserved Putative Secretion Signal for Type III Secretion Systems

Ram Samudrala, Jason E. McDermott, Fred Heffron, 2009, PLoS pathogens.

Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities

Subha Madhavan, Peter B. McGarvey, Li Ding, 2019, Cell.

Proteome Profiling Outperforms Transcriptome Profiling for Coexpression Based Gene Function Prediction*

Daniel C. Liebler, Bing Zhang, Amanda G. Paulovich, 2016, Molecular & Cellular Proteomics.

The Role of EGFR in Influenza Pathogenicity: Multiple Network-Based Approaches to Identify a Key Regulator of Non-lethal Infections

Lisa M. Bramer, Jason E. McDermott, Hugh D. Mitchell, 2019, Front. Cell Dev. Biol..

Identification and Validation of Ifit1 as an Important Innate Immune Bottleneck

Antonio Sanfilippo, Keri B. Vartanian, Jason E. McDermott, 2012, PloS one.

Discovery of Novel Secreted Virulence Factors from Salmonella enterica Serovar Typhimurium by Proteomic Analysis of Culture Supernatants

Joshua N. Adkins, Jason E. McDermott, Fred Heffron, 2010, Infection and Immunity.

Abstract 5123: Proteogenomic characterization reveals mitotic kinase and replication stress implicated in ovarian high-grade serous cancer

Li Ding, Henry Rodriguez, Jason E. McDermott, 2020 .

Proteogenomic Characterization of Ovarian HGSC Implicates Mitotic Kinases, Replication Stress in Observed Chromosomal Instability

Li Ding, Molly Brewer, Rui Zhao, 2020, Cell reports medicine.

Conservation of protein abundance patterns reveals the regulatory architecture of the EGFR-MAPK pathway

Peter K. Sorger, Jason E. McDermott, Carrie D. Nicora, 2016, Science Signaling.

Coordinated Regulation of Virulence during Systemic Infection of Salmonella enterica Serovar Typhimurium

Hyunjin Yoon, Jason E. McDermott, Fred Heffron, 2009, PLoS pathogens.

Temporal Proteome and Lipidome Profiles Reveal Hepatitis C Virus-Associated Reprogramming of Hepatocellular Metabolism and Bioenergetics

Qibin Zhang, Rui Zhao, Thomas O. Metz, 2010, PLoS pathogens.

Computational Prediction of Type III and IV Secreted Effectors in Gram-Negative Bacteria

Ram Samudrala, Joshua N. Adkins, Elena S. Peterson, 2010, Infection and Immunity.

Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts

David L. Tabb, Daniel C. Liebler, Bing Zhang, 2015, Journal of proteome research.

Unlocking the Constraints of Cyanobacterial Productivity: Acclimations Enabling Ultrafast Growth

Hans C. Bernstein, Jason E. McDermott, James K. Fredrickson, 2016, mBio.