The impact of biological sex on alternative splicing
Year: 2020
Type: dataset
Abstract: These files were pulled from the results obtained through the execution of the Nextflow workflow rmats-nf and through numerous notebooks. How the data were generated are noted for each file. as.tar.gz - This file contains the output of executing differentialSplicingJunctionAnalysis.ipynb. When untarred and unzipped. For each tissue, there are 5 alternatively splicing types together with both the statistically significant results (FC > 1.5, p-value < 0.05), the entirety of the results are included. To do this efficiently, this notebook was run with the help of Papermill as a Nextflow workflow. fromGTF.tar.gz - One for each splicing type, generated within rmats-nf: fromGTF.A3SS.txt, fromGTF.A5SS.txt, fromGTF.MXE.txt, fromGTF.RI.txt,fromGTF.SE.txt. dge.tar.gz - This file contains the output of executing differentialGeneExpressionAnalysis.ipynb. Both the statistically significant results (FC > 1.5, p-value < 0.05), the entirety of the results are included. srr.tar.gz - This file contains the Sequence Run (SRR) data merged with phenotype data, generated by differentialGeneExpressionAnalysis.ipynb rmats_final.tar.gz. For each splicing type, we have 5 files for there is a matrix of all included junction (ijc) counts, inclusion lengths (inclen), percent spliced in as calculated by rMATS 3.2.5, skipped junction counts (sjc) and skipped junction lengths (skiplen) for each junction and for each sample (SRR) generated by rmats-nf.
Authors: Karlebach, Guy, Veiga, Diogo F.T., Deslattes Mays, Anne, Chatzipantsiou, Christina, Prieto Barja, Pablo, Chatzou Dunford, Maria, Kesarwani, Anil K, Danis, Daniel, Kararigas, Georgios, Xingmin, Aaron Zhang, George, Joshy, Steinhaus, Robin, Hansen, Peter, Seelow, Dominik, McMurry, Julie A, Haendel, Melissa A, Oprea, Tudor, Anczukow, Olga, Banchereau, Jacques, Robinson, Peter N
Institutions: Jackson Laboratory, University of Iceland, Berlin Institute of Health at Charité - Universitätsmedizin Berlin, Charité – Universitätsmedizin Berlin, University of New Mexico, University of New Mexico Health Sciences Center, University of Connecticut, The Jackson Laboratory for Genomic Medicine, UConn Health
Language: English
Topic: RNA Research and Splicing
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W4393476006