Jesse A. Gillis

19 papers Journal 19
YearRankTypeTitle / Venue / Authors
2024 J jnl
Improving replicability in single-cell RNA-Seq cell type discovery with Dune.
BMC Bioinform.
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
2023 J jnl
Learning single-cell chromatin accessibility profiles using meta-analytic marker genes.
Briefings Bioinform.
Risa Karakida Kawaguchi, Ziqi Tang, Stephan Fischer, Chandana Rajesh, Rohit Tripathy, Peter K. Koo, Jesse A. Gillis
2022 J jnl
Defining the extent of gene function using ROC curvature.
Bioinform.
Stephan Fischer, Jesse A. Gillis
2020 J jnl
CoCoCoNet: conserved and comparative co-expression across a diverse set of species.
Nucleic Acids Res.
John Lee, Manthan Shah, Sara Ballouz, Megan Crow, Jesse A. Gillis
2017 J jnl
EGAD: ultra-fast functional analysis of gene networks.
Bioinform.
Sara Ballouz, Melanie Weber, Paul Pavlidis, Jesse A. Gillis
2016 J jnl
AuPairWise: A Method to Estimate RNA-Seq Replicability through Co-expression.
PLoS Comput. Biol.
Sara Ballouz, Jesse A. Gillis
2016 J jnl
Positive and negative forms of replicability in gene network analysis.
Bioinform.
Wim Verleyen, Sara Ballouz, Jesse A. Gillis
2015 J jnl
Guidance for RNA-seq co-expression network construction and analysis: safety in numbers.
Bioinform.
Sara Ballouz, Wim Verleyen, Jesse A. Gillis
2015 J jnl
Measuring the wisdom of the crowds in network-based gene function inference.
Bioinform.
Wim Verleyen, Sara Ballouz, Jesse A. Gillis
2013 J jnl
Assessing identity, redundancy and confounds in Gene Ontology annotations over time.
Bioinform.
Jesse A. Gillis, Paul Pavlidis
2013 J jnl
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.
Jesse A. Gillis, Paul Pavlidis
2012 J jnl
"Guilt by Association" Is the Exception Rather Than the Rule in Gene Networks.
PLoS Comput. Biol.
Jesse A. Gillis, Paul Pavlidis
2012 J jnl
Gemma: a resource for the reuse, sharing and meta-analysis of expression profiling data.
Bioinform.
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
2012 J jnl
Progress and challenges in the computational prediction of gene function using networks.
F1000Research
Paul Pavlidis, Jesse A. Gillis
2011 J jnl
The role of indirect connections in gene networks in predicting function.
Bioinform.
Jesse A. Gillis, Paul Pavlidis
2010 J jnl
Spatial coherence and stationarity of local field potentials in an isolated whole hippocampal preparation
J. Comput. Neurosci.
Jesse A. Gillis, Liang Zhang, Frances K. Skinner
2009 J jnl
A methodology for the analysis of differential coexpression across the human lifespan.
BMC Bioinform.
Jesse A. Gillis, Paul Pavlidis
2006 J jnl
Deficiencies in traditional measures of in vitro hippocampal rhythms.
Neurocomputing
Jesse A. Gillis, Liang Zhang, Frances K. Skinner
2005 J jnl
Characterizing in vitro hippocampal ripples using time-frequency analysis.
Neurocomputing
Jesse A. Gillis, W. P. Luk, Liang Zhang, Frances K. Skinner