title: Brain transcriptome atlases: a computational perspective.
abstract: The immense complexity of the mammalian brain is largely reflected in the underlying molecular signatures of its billions of cells. Brain transcriptome atlases provide valuable insights into gene expression patterns across different brain areas throughout the course of development. Such atlases allow researchers to probe the molecular mechanisms which define neuronal identities, neuroanatomy, and patterns of connectivity. Despite the immense effort put into generating such atlases, to answer fundamental questions in neuroscience, an even greater effort is needed to develop methods to probe the resulting high-dimensional multivariate data. We provide a comprehensive overview of the various computational methods used to analyze brain transcriptome atlases.
authors.affiliation: Department of Radiology, Leiden University Medical Center, Leiden, The Netherlands. a.mahfouz@lumc.nl.|Delft Bioinformatics Laboratory, Delft University of Technology, Delft, The Netherlands. a.mahfouz@lumc.nl.
authors.forename: Ahmed
authors.identifier: http://orcid.org/0000-0001-8601-2149
authors.initials: A
authors.lastname: Mahfouz
authors.affiliation: Department of Radiology, Leiden University Medical Center, Leiden, The Netherlands.|Delft Bioinformatics Laboratory, Delft University of Technology, Delft, The Netherlands.
authors.forename: Sjoerd M H
authors.initials: SMH
authors.lastname: Huisman
authors.affiliation: Department of Radiology, Leiden University Medical Center, Leiden, The Netherlands.|Delft Bioinformatics Laboratory, Delft University of Technology, Delft, The Netherlands.
authors.forename: Boudewijn P F
authors.initials: BPF
authors.lastname: Lelieveldt
authors.affiliation: Delft Bioinformatics Laboratory, Delft University of Technology, Delft, The Netherlands.
authors.forename: Marcel J T
authors.initials: MJT
authors.lastname: Reinders
mesh_terms: D000818:Animals; D001271:Atlases as Topic; D001921:Brain / Q000166:cytology* / Q000378:metabolism*; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D007091:Image Processing, Computer-Assisted; D051379:Mice; D009474:Neurons / Q000378:metabolism; D059467:Transcriptome
keywords: Brain atlases; Co-expression; Gene expression; Imaging genetics; Omics integration