C. elegans excretory/secretory proteome

Secretome data from the non-parasitic free-living nematode Caenorhabditis elegans (N2 strain, L4 – young adult stage worms) produced by liquid chromatography, tandem mass spectrometry. This data was generated at Génome Québec (QC, Canada) in 2011.

Worms were synchronized on agar plates, washed extensively, and incubated in M9 buffer for 4 h. The collected excretory/secretory proteins were separated by SDS-PAGE on a 7–15% gradient acrylamide gel, and stained with Coomassie Brilliant Blue G. The entire lane was subjected to automated band excision to generate 13 contiguous bands which were subjected to reduction, cysteine-alkylation, and in-gel tryptic digestion. MS/MS raw data (Q-TOF micro (Waters Micromass, Manchester, UK)) were transferred from the Q-TOF Microcomputer to a server and automatically manipulated for generation of peaklists (MGF files) by employing Distiller version 2.3.2.0 (http://www.matrixscience.com/distiller.html) with peak picking parameters set at 5 for Signal Noise Ratio (SNR) and at 0.4 for Correlation Threshold (CT). Briefly, MS/MS peak lists (MGF files) generated were analyzed using Mascot (Matrix Science, London, UK) and X! Tandem (Version: 2007.01.01.1) , generating the .dat output files.