Additional file 5: of Globular domain structure and function of restriction-like-endonuclease LINEs: similarities to eukaryotic splicing factor Prp8

List of Glu C and Lys C sites with early vs. later designations. (XLSX 482 kb

Le Courrier

24 mars 18361836/03/24 (N83)

Additional file 4: of Globular domain structure and function of restriction-like-endonuclease LINEs: similarities to eukaryotic splicing factor Prp8

Glu C mapping data (internal peptides). (PDF 541 kb

Additional file 2: of RNA-Seq analysis of resistant and susceptible sub-tropical maize lines reveals a role for kauralexins in resistance to grey leaf spot disease, caused by Cercospora zeina

RNA-Seq data analysis pipeline. Read quality was evaluated by the fastQC application v0.11.2. Illumina 1.5 encoded quality scores (Q) were converted to Sanger scale (phred) using FASTQ Groomer Galaxy v1.0.4. Thereafter, sequence reads were mapped to v2 of the B73 reference genome (5b.60 annotation; sequence obtained from Phytozome v9.1), using TopHat v2.0.9 ( http://ccb.jhu.edu/software/tophat/index.shtml /), by implementing Bowtie2 v1.0.0. Cufflinks v2.0.2 ( http://cole-trapnell-lab.github.io/cufflinks/ /) was used to calculate transcript abundance, reported as fragments per kilobase pair of exon model per million fragments mapped (FPKM). Transcript assemblies were merged with the reference annotation into a single .gtf file using Cuffmerge. Differential expression analysis was conducted on the merged file using Cuffdiff with a False Discovery Rate (FDR) threshold set to 0.05 (PPTX 133 kb

Kommentar

Overview of pathways where differentially expressed genes participate as reported by MADIBA. Up-regulated gene products were mapped onto metabolic pathways using the KEGG representation. The number of enzymes in each pathway is portrayed for both RIL165 and RIL387 (PPTX 961 kb