Jesse A. Gillis

Publication Activity (10 Years)

Years Active: 2005-2024
Publications (10 Years): 9

Top Topics

Positive And Negative

Top Venues

Briefings Bioinform.

Nucleic Acids Res.

Publications

Hector Roux de Bézieux, Kelly Street, Stephan Fischer, Koen Van den Berge, Rebecca Chance, Davide Risso, Jesse A. Gillis, John Ngai, Elizabeth Purdom, Sandrine Dudoit
Improving replicability in single-cell RNA-Seq cell type discovery with Dune. BMC Bioinform. 25 (1) (2024)
Risa Karakida Kawaguchi, Ziqi Tang, Stephan Fischer, Chandana Rajesh, Rohit Tripathy, Peter K. Koo, Jesse A. Gillis
Learning single-cell chromatin accessibility profiles using meta-analytic marker genes. Briefings Bioinform. 24 (1) (2023)
Stephan Fischer, Jesse A. Gillis
Defining the extent of gene function using ROC curvature. Bioinform. 38 (24) (2022)
John Lee, Manthan Shah, Sara Ballouz, Megan Crow, Jesse A. Gillis
CoCoCoNet: conserved and comparative co-expression across a diverse set of species. Nucleic Acids Res. 48 (Webserver-Issue) (2020)
Sara Ballouz, Melanie Weber, Paul Pavlidis, Jesse A. Gillis
EGAD: ultra-fast functional analysis of gene networks. Bioinform. 33 (4) (2017)
Wim Verleyen, Sara Ballouz, Jesse A. Gillis
Positive and negative forms of replicability in gene network analysis. Bioinform. 32 (7) (2016)
Sara Ballouz, Jesse A. Gillis
AuPairWise: A Method to Estimate RNA-Seq Replicability through Co-expression. PLoS Comput. Biol. 12 (4) (2016)
Sara Ballouz, Wim Verleyen, Jesse A. Gillis
Guidance for RNA-seq co-expression network construction and analysis: safety in numbers. Bioinform. 31 (13) (2015)
Wim Verleyen, Sara Ballouz, Jesse A. Gillis
Measuring the wisdom of the crowds in network-based gene function inference. Bioinform. 31 (5) (2015)
Jesse A. Gillis, Paul Pavlidis
Assessing identity, redundancy and confounds in Gene Ontology annotations over time. Bioinform. 29 (4) (2013)
Jesse A. Gillis, Paul Pavlidis
Characterizing the state of the art in the computational assignment of gene function: lessons from the first critical assessment of functional annotation (CAFA). BMC Bioinform. 14 (S-3) (2013)
Paul Pavlidis, Jesse A. Gillis
Progress and challenges in the computational prediction of gene function using networks. F1000Research 1 (2012)
Jesse A. Gillis, Paul Pavlidis
"Guilt by Association" Is the Exception Rather Than the Rule in Gene Networks. PLoS Comput. Biol. 8 (3) (2012)
Anton Zoubarev, Kelsey M. Hamer, Kiran Keshav, E. Luke McCarthy, Joseph Roy C. Santos, Thea Van Rossum, Cameron McDonald, Adam Hall, Xiang Wan, Raymond Lim, Jesse A. Gillis, Paul Pavlidis
Gemma: a resource for the reuse, sharing and meta-analysis of expression profiling data. Bioinform. 28 (17) (2012)
Jesse A. Gillis, Paul Pavlidis
The role of indirect connections in gene networks in predicting function. Bioinform. 27 (13) (2011)
Jesse A. Gillis, Liang Zhang, Frances K. Skinner
. J. Comput. Neurosci. 29 (3) (2010)
Jesse A. Gillis, Paul Pavlidis
A methodology for the analysis of differential coexpression across the human lifespan. BMC Bioinform. 10 (2009)
Jesse A. Gillis, Liang Zhang, Frances K. Skinner
Deficiencies in traditional measures of in vitro hippocampal rhythms. Neurocomputing 69 (10-12) (2006)
Jesse A. Gillis, W. P. Luk, Liang Zhang, Frances K. Skinner
Characterizing in vitro hippocampal ripples using time-frequency analysis. Neurocomputing (2005)