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Prochlorococcus marinus MED4 shotgun proteome dataset from “Protein cycling in the eastern tropical North Pacific oxygen deficient zone: a de novo-discovery peptidomic approach”

ABSTRACT: For this manuscript, the Prochlorococcus MED4 strain shotgun proteome dataset was used for benchmarking a de novo-directed sequencing approach. De novo peptide sequencing, where the sequence of amino acids is determined directly from mass spectra rather than by comparison (or peptide spectrum matching) to a selected database. We perform a benchmarking experiment using Prochlorococcus culture data, demonstrating de novo peptides are sufficiently accurate and taxonomically specific to be useful in environmental studies. The MED4 dataset herein represents the output from peptide spectrum matching using COMET within the transproteomic pipeline (TPP). Additional MED4 data outside this manuscript are included for both trypsin and Glu-C protease digestions as well as TPP output for post-translational modification searches. De novo output data derived from Peaks Studio can be found by referencing the manuscript publication.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Prochlorococcus Marinus Subsp. Pastoris Str. Ccmp1986

SUBMITTER: Rachel Lundeen

LAB HEAD: Anitra Ingalls

PROVIDER: PXD027589 | Pride | 2022-01-06

REPOSITORIES: Pride

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			Action	DRS
	022016_RAL4_95_AMBIC1_GluC_1.mzML	Mzml
	022016_RAL4_95_AMBIC1_GluC_1.pep.xml	Pepxml
	022016_RAL4_95_AMBIC1_GluC_1.raw	Raw
	022016_RAL4_95_AMBIC1_GluC_2.mzML	Mzml
	022016_RAL4_95_AMBIC1_GluC_2.pep.xml	Pepxml

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