12915_2019_726_MOESM4_ESM.gz (3.6 MB)
MOESM4 of Multi-species annotation of transcriptome and chromatin structure in domesticated animals
Version 2 2020-01-16, 04:57
Version 1 2019-12-30, 04:21
dataset
posted on 2020-01-16, 04:57 authored by Sylvain Foissac, Sarah Djebali, Kylie Munyard, Nathalie Vialaneix, Andrea Rau, Kevin Muret, Diane Esquerré, Matthias Zytnicki, Thomas Derrien, Philippe Bardou, Fany Blanc, Cédric Cabau, Elisa Crisci, Sophie Dhorne-Pollet, Françoise Drouet, Thomas Faraut, Ignacio Gonzalez, Adeline Goubil, Sonia Lacroix-Lamandé, Fabrice Laurent, Sylvain Marthey, Maria Marti-Marimon, Raphaelle Momal-Leisenring, Florence Mompart, Pascale Quéré, David Robelin, Magali Cristobal, Gwenola Tosser-Klopp, Silvia Vincent-Naulleau, Stéphane Fabre, Marie-Hélène Pinard-Van der Laan, Christophe Klopp, Michèle Tixier-Boichard, Hervé Acloque, Sandrine Lagarrigue, Elisabetta GiuffraAdditional file 4 Reference DE genes (all combinations): the archive contains four folders, one for each species (bos_taurus, capra_hircus, gallus_gallus, sus_scrofa). Each folder contains itself two subfolders, one for each model: diffcounts.nominsum (Model 1) and diffcounts.cdvsliver (Model 2). Results of Model 1 are given in:• refgenes.counts.min2tpm0.1.normcounts.diff.readme.idx• refgenes.counts.min2tpm0.1.normcounts.diff.cd4.cd8.bed• refgenes.counts.min2tpm0.1.normcounts.diff.cd4.liver.bed• refgenes.counts.min2tpm0.1.normcounts.diff.cd8.liver.bedResults of Model 2 are given in:• refgenes.counts.min2tpm0.1.normcounts.diff.readme.idxrefgenes.counts.min2tpm0.1.normcounts.diff.cd.liver.bed All bed files contain the coordinates and id of the genes found to be differentially expressed between the two conditions. The file also contains the normalized read counts of those genes in the different samples as well as the adjusted pvalue, logFC and normLogFC (see readme.idx file for more details).
