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Elucidating Proteoform Families

ABSTRACT: Intact mass analyses (HPLC-ESI-MS) of GELFREE separated fractions of yeast. A total of 66 raw files, representing two replicate analyses.

INSTRUMENT(S): LTQ Velos

ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932)

SUBMITTER: Lloyd Smith

PROVIDER: MSV000079261 | MassIVE | Tue Aug 18 09:08:00 BST 2015

REPOSITORIES: MassIVE

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Elucidating Proteoform Families from Proteoform Intact Mass and Lysine Count Measurements

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Constructing Human Proteoform Families Using Intact-Mass and Top-Down Proteomics with a Multi-Protease G-PTM-D Database

Project description:This data set contains the following: 1) 66 raw files for NeuCode-labeled human proteoforms from the Jurkat cell line analyzed via "intact-mass" (i.e., LC-MS, with no precursor fragmentation). Three biological replicates were performed (files from the different replicates are labeled with 022317, 031617, or 031817, respectively). For each replicate, proteoforms were separated offline using a 12% Tris-acetate Gelfree cartridge and 11 fractions were collected. Two technical replicate LC-MS injections of each fraction were performed, yielding a total of 66 raw files (3 biological replicates x 11 fractions x 2 injections). 2) 22 raw files for label-free human proteoforms from the Jurkat cell line analyzed via "top-down" (i.e., LC-MS/MS, with precursor fragmentation). One biological replicate was performed (labeled 032017). Proteoforms were separated offline using a 12% Tris-acetate Gelfree cartridge and 11 fractions were collected. Two technical replicate LC-MS/MS injections of each fraction were performed, yielding a total of 22 raw files (1 biological replicate x 11 fractions x 2 injections). 3) Multi-protease and trypsin-only pruned G-PTM-D databases used for proteoform identification. Note that the bottom-up data used to generate these databases can be found elsewhere on MassIVE (MSV000083304).

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