proteomics

A mass spectrometry-based proteomics analysis was performed in order to compare the protein profile of samples from two different strains of Zea Mays plants. The study was based on the analysis of four groups and performed in three biological replicates of each group (EA2024-Irrigated, B73-Irrigated; EA2024-Drought, B73-Drought). Differentially expressed proteins (DEP) were detected by two-way ANOVA analysis to all the proteins and corrected for multiple-testing by FDR method (Benjamini & Hochberg, 1995). Tukey’s Honest Significant Difference (HSD) test (Tukey, 1949) was applied to discriminate for those significant comparisons over the four study groups.

Migrated to https://github.com/fpozoc/trifid

batch data download from Genbank or RefSeq

fasta toolkit for fasta file processing and modification

The compressed protein structure database

Identify cross-linked peptides in MS/MS data.