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Protein expression difference in Drosophila speciation

ABSTRACT: We aim to determine the difference of protein expression in the closely related Drosophila species D.melanogaster and D.simulans to gain further insight into protein expression profiles of both species. Analysis of the protein levels might hint to pathways that have evolved into different direction and explain the separation of th species from their common ancestors. Further, we try to characterize novel gene isoform by combining RNA sequencing and proteomics.

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Drosophila Melanogaster (fruit Fly)

TISSUE(S): Brain

SUBMITTER: Andreas Schmidt

LAB HEAD: Axel Imhof

PROVIDER: PXD005060 | Pride | 2019-02-25

REPOSITORIES: Pride

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Multi-Reference Spectral Library Yields Almost Complete Coverage of Heterogeneous LC-MS/MS Data Sets.

Ammar Constantin C Berchtold Evi E Csaba Gergely G Schmidt Andreas A Imhof Axel A Zimmer Ralf R

Journal of proteome research 20190308 4

Spectral libraries play a central role in the analysis of data-independent-acquisition (DIA) proteomics experiments. A main assumption in current spectral library tools is that a single characteristic intensity pattern (CIP) suffices to describe the fragmentation of a peptide in a particular charge state (peptide charge pair). However, we find that this is often not the case. We carry out a systematic evaluation of spectral variability over public repositories and in-house data sets. We show tha ...[more]

PMID: 30793903

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