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ORCIDPaul Pavlidis
Person information
- affiliation: University of British Columbia, Department of Psychiatry, BC, Canada
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2020 – today
- 2023
[j35]Rachel J. Harding
, Patrick Bermudez, Alexander Bernier, Michael J. S. Beauvais, Pierre Bellec, Sean L. Hill, Agah Karakuzu, Bartha M. Knoppers, Paul Pavlidis, Jean-Baptiste Poline, Jane Roskams, Nikola Stikov, Jessica Stone, Stephen C. Strother, CONP Consortium, Alan C. Evans:
The Canadian Open Neuroscience Platform - An open science framework for the neuroscience community. PLoS Comput. Biol. 19(7) (2023)- 2021
- [j34]Nathaniel Lim, Stepan Tesar, Manuel Belmadani, Guillaume Poirier-Morency, Burak Ogan Mancarci, Jordan Sicherman, Matthew Jacobson, Justin Leong, Patrick Tan, Paul Pavlidis:
Curation of over 10 000 transcriptomic studies to enable data reuse. Database J. Biol. Databases Curation 2021 (2021) - [j33]Eric Ching-Pan Chu, Alexander M. Morin, Tak Hou Calvin Chang, Tue Nguyen, Yi-Cheng Tsai, Aman Sharma, Chao Chun Liu, Paul Pavlidis:
Experiment level curation of transcriptional regulatory interactions in neurodevelopment. PLoS Comput. Biol. 17(10) (2021)
2010 – 2019
- 2019
- [j32]Marjan Farahbod, Paul Pavlidis:
Differential coexpression in human tissues and the confounding effect of mean expression levels. Bioinform. 35(1): 55-61 (2019) - [j31]Claire Bomkamp, Shreejoy J. Tripathy, Carolina Bengtsson Gonzales, Jens Hjerling-Leffler, Ann Marie Craig, Paul Pavlidis:
Transcriptomic correlates of electrophysiological and morphological diversity within and across excitatory and inhibitory neuron classes. PLoS Comput. Biol. 15(6) (2019) - 2017
- [j30]Sara Ballouz, Melanie Weber, Paul Pavlidis, Jesse A. Gillis:
EGAD: ultra-fast functional analysis of gene networks. Bioinform. 33(4): 612-614 (2017) - [j29]Nikolaus Fortelny, Christopher M. Overall, Paul Pavlidis, Gabriela V. Cohen Freue:
Can we predict protein from mRNA levels? Nat. 547(7663): E19-E20 (2017) - [j28]Shreejoy J. Tripathy, Lilah Toker, Brenna Li, Cindy-Lee Crichlow, Dmitry Tebaykin, B. Ogan Mancarci, Paul Pavlidis:
Transcriptomic correlates of neuron electrophysiological diversity. PLoS Comput. Biol. 13(10) (2017) - 2016
- [j27]Sebastian Burgstaller-Muehlbacher, Andra Waagmeester, Elvira Mitraka, Julia Turner, Tim E. Putman, Justin Leong, Chinmay Naik, Paul Pavlidis, Lynn M. Schriml, Benjamin M. Good, Andrew I. Su:
Wikidata as a semantic framework for the Gene Wiki initiative. Database J. Biol. Databases Curation 2016 (2016) - [c5]Andra Waagmeester, Egon L. Willighagen, Núria Queralt Rosinach, Elvira Mitraka, Sebastian Burgstaller-Muehlbacher, Tim E. Putman, Julia Turner, Lynn M. Schriml, Paul Pavlidis, Andrew I. Su, Benjamin M. Good:
Linking Wikidata to the Rest of the Semantic Web. SWAT4LS 2016 - 2015
- [j26]Leon French, Po Liu, Olivia Marais, Tianna Koreman, Lucia Tseng, Artemis Lai, Paul Pavlidis:
Text mining for neuroanatomy using WhiteText with an updated corpus and a new web application. Frontiers Neuroinformatics 9: 13 (2015) - [j25]Nikolaus Fortelny, Sharon Yang, Paul Pavlidis, Philipp F. Lange, Christopher M. Overall:
Proteome TopFIND 3.0 with TopFINDer and PathFINDer: database and analysis tools for the association of protein termini to pre- and post-translational events. Nucleic Acids Res. 43(Database-Issue): 290-297 (2015) - 2013
- [j24]Jesse A. Gillis, Paul Pavlidis:
Assessing identity, redundancy and confounds in Gene Ontology annotations over time. Bioinform. 29(4): 476-482 (2013) - [j23]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): S15 (2013) - [j22]Spiro P. Pantazatos, Ardesheer Talati, Paul Pavlidis, Joy Hirsch:
Corrigendum to Cortical functional connectivity decodes subconscious, task-irrelevant threat related emotion processing [Neuroimage 61/4 (2012) 1355-1363]. NeuroImage 72: 324 (2013) - 2012
- [j21]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): 2272-2273 (2012) - [j20]Leon French, Suzanne Lane, Lydia Xu, Celia Siu, Cathy Kwok, Yiqi Chen, Claudia Krebs, Paul Pavlidis:
Application and evaluation of automated methods to extract neuroanatomical connectivity statements from free text. Bioinform. 28(22): 2963-2970 (2012) - [j19]Spiro P. Pantazatos, Ardesheer Talati, Paul Pavlidis, Joy Hirsch:
Cortical functional connectivity decodes subconscious, task-irrelevant threat-related emotion processing. NeuroImage 61(4): 1355-1363 (2012) - [j18]Jesse A. Gillis, Paul Pavlidis:
"Guilt by Association" Is the Exception Rather Than the Rule in Gene Networks. PLoS Comput. Biol. 8(3) (2012) - [j17]Spiro P. Pantazatos, Ardesheer Talati, Paul Pavlidis, Joy Hirsch:
Decoding Unattended Fearful Faces with Whole-Brain Correlations: An Approach to Identify Condition-Dependent Large-Scale Functional Connectivity. PLoS Comput. Biol. 8(3) (2012) - [i1]Paul Pavlidis, Jesse A. Gillis:
Progress and challenges in the computational prediction of gene function using networks. F1000Research 1: 14 (2012) - 2011
- [j16]Jesse A. Gillis, Paul Pavlidis:
The role of indirect connections in gene networks in predicting function. Bioinform. 27(13): 1860-1866 (2011) - [j15]Leon French, Powell Patrick Cheng Tan, Paul Pavlidis:
Large-Scale Analysis of Gene Expression and Connectivity in the Rodent Brain: Insights through Data Integration. Frontiers Neuroinformatics 5: 12 (2011) - [j14]Leon French, Paul Pavlidis:
Relationships between Gene Expression and Brain Wiring in the Adult Rodent Brain. PLoS Comput. Biol. 7(1) (2011)
2000 – 2009
- 2009
- [j13]Leon French, Suzanne Lane, Tamryn Law, Lydia Xu, Paul Pavlidis:
Application and evaluation of automated semantic annotation of gene expression experiments. Bioinform. 25(12): 1543-1549 (2009) - [j12]Jesse A. Gillis, Paul Pavlidis:
A methodology for the analysis of differential coexpression across the human lifespan. BMC Bioinform. 10: 306 (2009) - [j11]Leon French, Suzanne Lane, Lydia Xu, Paul Pavlidis:
Automated recognition of brain region mentions in neuroscience literature. Frontiers Neuroinformatics 3: 29 (2009) - 2008
- [j10]Meeta Mistry, Paul Pavlidis:
Gene Ontology term overlap as a measure of gene functional similarity. BMC Bioinform. 9 (2008) - 2007
- [j9]Leon French, Paul Pavlidis:
Informatics in neuroscience. Briefings Bioinform. 8(6): 446-456 (2007) - [j8]Xiang Wan, Paul Pavlidis:
Sharing and Reusing Gene Expression Profiling Data in Neuroscience. Neuroinformatics 5(3): 161-175 (2007) - 2005
- [j7]Homin K. Lee, William Braynen, Kiran Keshav, Paul Pavlidis:
ErmineJ: Tool for functional analysis of gene expression data sets. BMC Bioinform. 6: 269 (2005) - 2004
- [j6]Paul Pavlidis, Ilan Wapinski, William Stafford Noble:
Support vector machine classification on the web. Bioinform. 20(4): 586-587 (2004) - [j5]Paul Pavlidis:
Book Review. J. Biomed. Informatics 37(1): 54-55 (2004) - 2003
- [j4]Paul Pavlidis, William Stafford Noble:
Matrix2png: a utility for visualizing matrix data. Bioinform. 19(2): 295-296 (2003) - [j3]Paul Pavlidis, Qinghong Li, William Stafford Noble:
The effect of replication on gene expression microarray experiments. Bioinform. 19(13): 1620-1627 (2003) - [j2]Hanga C. Galfalvy, Loubna Erraji-Benchekroun, Peggy Smyrniotopoulos, Paul Pavlidis, Steven P. Ellis, J. John Mann, Etienne Sibille, Victoria Arango:
Sex genes for genomic analysis in human brain: internal controls for comparison of probe level data extraction. BMC Bioinform. 4: 37 (2003) - 2002
- [j1]Paul Pavlidis, Jason Weston, Jinsong Cai, William Stafford Noble:
Learning Gene Functional Classifications from Multiple Data Types. J. Comput. Biol. 9(2): 401-411 (2002) - [c4]Paul Pavlidis, Darrin P. Lewis, William Stafford Noble:
Exploring Gene Expression Data with Class Scores. Pacific Symposium on Biocomputing 2002: 474-485 - 2001
- [c3]Paul Pavlidis, Christopher Tang, William Stafford Noble:
Classification of genes using probabilistic models of microarray expression profiles. BIOKDD 2001: 15-21 - [c2]Paul Pavlidis, Terrence S. Furey, M. Liberto, David Haussler, William Noble Grundy:
Promoter Region-Based Classification of Genes. Pacific Symposium on Biocomputing 2001: 151-164 - [c1]Paul Pavlidis, Jason Weston, Jinsong Cai, William Noble Grundy:
Gene functional classification from heterogeneous data. RECOMB 2001: 249-255
Coauthor Index
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