zandiHyde_bipolar_rnaseq

This GitHub repository contains the code for analyzing the RNA-seq data from the BipSeq project available through PsychENCODE at https://psychencode.synapse.org/Explore/Studies/DetailsPage?study=syn5844980.

In order to cite this project, please cite DOI: 10.1038/s41593-022-01024-6.

• Zandi PP,+, Jaffe AE, Goes FS, Burke EE, Collado-Torres L, Huuki-Myers L, Seyedian A, Lin Y, Seifuddin F, Pirooznia M, Ross CA, Kleinman JE, Weinberger DR, Hyde TM, Nat Neurosci 25, 381–389 (2022). https://doi.org/10.1038/s41593-022-01024-6

• Correspondence to: pzandi1@jhu.edu or thomas.hyde@libd.org

Here's the citation in BibTeX format:

@article{zandi_amygdala_2022,
    title = {Amygdala and anterior cingulate transcriptomes from individuals with bipolar disorder reveal downregulated neuroimmune and synaptic pathways},
    volume = {25},
    copyright = {2022 The Author(s), under exclusive licence to Springer Nature America, Inc.},
    issn = {1546-1726},
    url = {https://www.nature.com/articles/s41593-022-01024-6},
    doi = {10.1038/s41593-022-01024-6},
    language = {en},
    number = {3},
    urldate = {2022-04-11},
    journal = {Nature Neuroscience},
    author = {Zandi, Peter P. and Jaffe, Andrew E. and Goes, Fernando S. and Burke, Emily E. and Collado-Torres, Leonardo and Huuki-Myers, Louise and Seyedian, Arta and Lin, Yian and Seifuddin, Fayaz and Pirooznia, Mehdi and Ross, Christopher A. and Kleinman, Joel E. and Weinberger, Daniel R. and Hyde, Thomas M.},
    month = mar,
    year = {2022},
    note = {Number: 3 Publisher: Nature Publishing Group},
    keywords = {Bipolar disorder, Gene expression profiling},
    pages = {381--389}
}

Files

This GitHub repository follows a similar file structure to the one from BrainSEQ Phase II. In general, each directory contains the scripts for a given analysis. If you have any questions about specific scripts, please use the issues and we'll try our best to respond your queries.

Internal

JHPCE location: /dcs04/lieber/lcolladotor/hydeZandi_LIBD2005/zandiHyde_bipolar_rnaseq