bt.bib

@Article{DESeq2,
  title = {Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2},
  author = {Michael I. Love and Wolfgang Huber and Simon Anders},
  year = {2014},
  journal = {Genome Biology},
  doi = {10.1186/s13059-014-0550-8},
  volume = {15},
  issue = {12},
  pages = {550},
}

@Article{nixon,
  title = {A Syndromic Neurodevelopmental Disorder Caused by Mutations in SMARCD1, a Core SWI/SNF Subunit Needed for Context-Dependent Neuronal Gene Regulation in Flies},
  author = {Kevin C.J. Nixon and Justine Rousseau and Max H. Stone and Mohammed Sarikahya and Sophie Ehresmann and Seiji Mizuno and Naomichi Matsumoto and Noriko Miyake and DDD Study and Diana Baralle and Shane McKee and Kosuke Izumi and Alyssa L. Ritter and Solveig Heide and Delphine Héron and Christel Depienne and Hannah Titheradge and Jamie M. Kramer and Philippe M. Campeau},
  year = {2019},
  journal = {American Journal of Human Genetics},
  doi = {10.1016/j.ajhg.2019.02.001},
  volume = {104},
  issue = {4},
  pages = {596-610}
}

@Article{gsea05,
  title = {Gene set enrichment analysis: A knowkledge-based approach for interpreting genome-wide expression profiles},
  author = { Aravind Subramanian and Pablo Tamayo and Vamsi K. Mootha and Sayan Mukherjee and Benjamin L. Ebert and Michael A. Gillette and Amanda Paulovich and Scott L. Pomeroy and Todd R. Golub and Eric S. Lander and Jill P. Mesirov},
  year = {2005},
  journal = {PNAS},
  doi = {10.1073/pnas.0506580102},
  volume = {102},
  issue = {43},
  pages = {15545-15550}
}

@Manual{gprofiler2,
    title = {gprofiler2: Interface to the 'g:Profiler' Toolset},
    author = {Liis Kolberg and Uku Raudvere},
    year = {2020},
    note = {R package version 0.2.0},
    url = {https://CRAN.R-project.org/package=gprofiler2},
  }

@Article{em10,
  title = {Enrichment map: a network-based method for gene-set enrichment visualization and interpretation},
  author = {Daniele Merico and Ruth Isserlin and Oliver Stueker and Andrew Emili and Gary D. Bader},
  year = {2010},
  journal = {PLoS One},
  doi = {10.1371/journal.pone.0013984},
  volume = {5},
  issue = {11},
  pages = {e13984}
}

@Article{em19,
  title = {Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap},
  author = {Jüri Reimand and Ruth Isserlin and Veronique Voisin and Mike Kucera and Christian Tannus-Lopes and Asha Rostamianfar and Lina Wadi and Mona Meyer and Jeff Wong and Changjiang Xu and Daniele Merico and Gary D. Bader},
  year = {2019},
  journal = {Nature Protocols},
  doi = {10.1038/s41596-018-0103-9},
  volume = {14},
  issue = {2},
  pages = {482-517}

}

@Manual{pheat,
    title = {pheatmap: Pretty Heatmaps},
    author = {Raivo Kolde},
    year = {2019},
    note = {R package version 1.0.12},
    url = {https://CRAN.R-project.org/package=pheatmap},
  }

@Book{ggplot2,
    author = {Hadley Wickham},
    title = {ggplot2: Elegant Graphics for Data Analysis},
    publisher = {Springer-Verlag New York},
    year = {2016},
    isbn = {978-3-319-24277-4},
    url = {https://ggplot2.tidyverse.org},
  }

@Manual{ggpub,
    title = {ggpubr: 'ggplot2' Based Publication Ready Plots},
    author = {Alboukadel Kassambara},
    year = {2020},
    note = {R package version 0.4.0},
    url = {https://CRAN.R-project.org/package=ggpubr},
  }

@Manual{rstatix,
    title = {rstatix: Pipe-Friendly Framework for Basic Statistical Tests},
    author = {Alboukadel Kassambara},
    year = {2020},
    note = {R package version 0.6.0},
    url = {https://CRAN.R-project.org/package=rstatix},
  }

@Article{GSVA,
    title = {{GSVA}: gene set variation analysis for microarray and {RNA-Seq} data},
    author = {Sonja H{\"a}nzelmann and Robert Castelo and Justin Guinney},
    journal = {BMC Bioinformatics},
    volume = {14},
    pages = {7},
    year = {2013},
    url = {http://www.biomedcentral.com/1471-2105/14/7},
    doi = {10.1186/1471-2105-14-7},
  }
@Manual{tidyr,
    title = {tidyr: Tidy Messy Data},
    author = {Hadley Wickham},
    year = {2020},
    note = {R package version 1.1.2},
    url = {https://CRAN.R-project.org/package=tidyr},
  }

@Manual{dplyr,
    title = {dplyr: A Grammar of Data Manipulation},
    author = {Hadley Wickham and Romain François and Lionel {
             Henry} and Kirill Müller},
    year = {2020},
    note = {R package version 1.0.2},
    url = {https://CRAN.R-project.org/package=dplyr},
  }