Deborah A. Hogan

发表

PathCORE: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia

Casey S. Greene, Kathleen M. Chen, Jie Tan, 2017, bioRxiv.

PathCORE-T: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia

Casey S. Greene, Jie Tan, Kathleen M. Chen, 2018, BioData Mining.

Computational Approaches to Study Microbes and Microbiomes

Casey S. Greene, James A. Foster, Yana Bromberg, 2016, PSB.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Tapio Salakoski, Feng Zhang, Paolo Fontana, 2019, Genome Biology.

Correcting for experiment-specific variability in expression compendia can remove underlying signals

Casey S. Greene, Alexandra J. Lee, YoSon Park, 2020, bioRxiv.

Links between Anr and Quorum Sensing in Pseudomonas aeruginosa Biofilms

Deborah A. Hogan, J. Hammond, D. Hogan, 2015, Journal of bacteriology.

Unsupervised extraction of stable expression signatures from public compendia with eADAGE

Casey S. Greene, Jie Tan, Michael T. Laub, 2016 .

ADAGE analysis of publicly available gene expression data collections illuminates Pseudomonas aeruginosa-host interactions

Casey S. Greene, Jie Tan, Deborah A. Hogan, 2015, bioRxiv.

Medically important bacterial–fungal interactions

Deborah A. Hogan, Eleftherios Mylonakis, D. Hogan, 2010, Nature Reviews Microbiology.

A Novel Mechanism of Host-Pathogen Interaction through sRNA in Bacterial Outer Membrane Vesicles

Katja Koeppen, Bruce A. Stanton, Scott A. Gerber, 2016, PLoS pathogens.

GbdR Regulates Pseudomonas aeruginosa plcH and pchP Transcription in Response to Choline Catabolites

Deborah A. Hogan, D. Hogan, M. Wargo, 2008, Infection and Immunity.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Jari Björne, Tapio Salakoski, Giorgio Valentini, 2019, Genome Biology.