research data . Dataset . 2017

Differential Gene Expression In Ipsc-Derived Macrophages After Ifng Stimulation And Salmonella Infection

Alasoo, Kaur;
Open Access
  • Published: 04 Aug 2017
  • Publisher: Zenodo
Abstract
We used likelihood ratio test implemented in DESeq2 v1.10.0 (test = “LRT”) to test if a model that allowed different mean expression in each condition explained the data better than a null model assuming the same mean expression across conditions. See the manuscript for more details: http://www.biorxiv.org/content/early/2017/05/18/102392 . We used the following commands in DESeq2: #Run DESeq2 dds = DESeq2::DESeqDataSetFromMatrix(combined_expression_data_filtered$counts, design, ~condition_name)  dds = DESeq2::DESeq(dds, test = "LRT", reduced = ~ 1) #Extract differentially expressed genes in each condition ifng_genes = results(dds, contrast=c("condition_name","IF...
Subjects
free text keywords: RNA-seq, differential expression
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Open Access
Zenodo
Dataset . 2017
Provider: Datacite
Open Access
Zenodo
Dataset . 2017
Provider: Zenodo
Open Access
Zenodo
Dataset . 2017
Provider: Datacite
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