Paul Pavlidis

Orcid: 0000-0002-0426-5028

Affiliations:
  • University of British Columbia, Department of Psychiatry, BC, Canada


According to our database1, Paul Pavlidis authored at least 41 papers between 2001 and 2023.

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Bibliography

2023
The Canadian Open Neuroscience Platform - An open science framework for the neuroscience community.
PLoS Comput. Biol., 2023

2021
Experiment level curation of transcriptional regulatory interactions in neurodevelopment.
PLoS Comput. Biol., 2021

Curation of over 10 000 transcriptomic studies to enable data reuse.
Database J. Biol. Databases Curation, 2021

2019
Transcriptomic correlates of electrophysiological and morphological diversity within and across excitatory and inhibitory neuron classes.
PLoS Comput. Biol., 2019

Differential coexpression in human tissues and the confounding effect of mean expression levels.
Bioinform., 2019

2017
Transcriptomic correlates of neuron electrophysiological diversity.
PLoS Comput. Biol., 2017

Can we predict protein from mRNA levels?
Nat., 2017

EGAD: ultra-fast functional analysis of gene networks.
Bioinform., 2017

2016
Wikidata as a semantic framework for the Gene Wiki initiative.
Database J. Biol. Databases Curation, 2016

Linking Wikidata to the Rest of the Semantic Web.
Proceedings of the 9th International Conference Semantic Web Applications and Tools for Life Sciences, 2016

2015
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., 2015

Text mining for neuroanatomy using WhiteText with an updated corpus and a new web application.
Frontiers Neuroinformatics, 2015

2013
Corrigendum to Cortical functional connectivity decodes subconscious, task-irrelevant threat related emotion processing [Neuroimage 61/4 (2012) 1355-1363].
NeuroImage, 2013

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., 2013

Assessing identity, redundancy and confounds in Gene Ontology annotations over time.
Bioinform., 2013

2012
Decoding Unattended Fearful Faces with Whole-Brain Correlations: An Approach to Identify Condition-Dependent Large-Scale Functional Connectivity.
PLoS Comput. Biol., 2012

"Guilt by Association" Is the Exception Rather Than the Rule in Gene Networks.
PLoS Comput. Biol., 2012

Cortical functional connectivity decodes subconscious, task-irrelevant threat-related emotion processing.
NeuroImage, 2012

Progress and challenges in the computational prediction of gene function using networks.
F1000Research, 2012

Gemma: a resource for the reuse, sharing and meta-analysis of expression profiling data.
Bioinform., 2012

Application and evaluation of automated methods to extract neuroanatomical connectivity statements from free text.
Bioinform., 2012

2011
Relationships between Gene Expression and Brain Wiring in the Adult Rodent Brain.
PLoS Comput. Biol., 2011

Large-Scale Analysis of Gene Expression and Connectivity in the Rodent Brain: Insights through Data Integration.
Frontiers Neuroinformatics, 2011

The role of indirect connections in gene networks in predicting function.
Bioinform., 2011

2009
Automated recognition of brain region mentions in neuroscience literature.
Frontiers Neuroinformatics, 2009

A methodology for the analysis of differential coexpression across the human lifespan.
BMC Bioinform., 2009

Application and evaluation of automated semantic annotation of gene expression experiments.
Bioinform., 2009

2008
Gene Ontology term overlap as a measure of gene functional similarity.
BMC Bioinform., 2008

2007
Sharing and Reusing Gene Expression Profiling Data in Neuroscience.
Neuroinformatics, 2007

Informatics in neuroscience.
Briefings Bioinform., 2007

2005
ErmineJ: Tool for functional analysis of gene expression data sets.
BMC Bioinform., 2005

2004
Book Review.
J. Biomed. Informatics, 2004

Support vector machine classification on the web.
Bioinform., 2004

2003
Sex genes for genomic analysis in human brain: internal controls for comparison of probe level data extraction.
BMC Bioinform., 2003

Matrix2png: a utility for visualizing matrix data.
Bioinform., 2003

The effect of replication on gene expression microarray experiments.
Bioinform., 2003

2002
Learning Gene Functional Classifications from Multiple Data Types.
J. Comput. Biol., 2002

Exploring Gene Expression Data with Class Scores.
Proceedings of the 7th Pacific Symposium on Biocomputing, 2002

2001
Gene functional classification from heterogeneous data.
Proceedings of the Fifth Annual International Conference on Computational Biology, 2001

Promoter Region-Based Classification of Genes.
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001

Classification of genes using probabilistic models of microarray expression profiles.
Proceedings of the ACM SIGKDD Workshop on Data Mining in Bioinformatics (BIOKDD 2001), 2001


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