PXD032042-1

PXD032042 is an original dataset announced via ProteomeXchange.

Title	Profiling Yeast Deletion Strains using Sample Multiplexing and Network-based Analyses
Description	The yeast, Saccharomyces cerevisiae, is a widely used model system for investigating conserved biological functions and pathways. Advancements in sample multiplexing have facilitated the study of the yeast proteome, yet many yeast proteins remain uncharacterized or only partially characterized. The availability of yeast deletion strain collections is a powerful resource for yeast proteome studies, uncovering the effects of gene function, genetic interactions, and cellular stresses. As complex biological systems cannot be understood by simply analyzing the individual components, a systems approach is often required in which a protein is represented as a component of large, interacting networks. Here, to evaluate the current state of yeast proteome analysis, we used isobaric tag-based sample multiplexing (TMTpro16) to profile the proteomes of 75 yeast deletion strains. Using this strategy, we measured the abundance of nearly 5,000 proteins. We highlight covariance and regulation sub-networks and determine the gene ontology classifications of co-varying and co-regulated proteins. This dataset presents a resource that is amenable to further datamining to study individual deletion strains, pathways, proteins, and/or interactions thereof, while serving as a template for future network-based investigations using the yeast deletion strain collection.
HostingRepository	PRIDE
AnnounceDate	2022-09-02
AnnouncementXML	Submission_2022-09-02_12:54:39.636.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joao Paulo
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-03 11:57:12	ID requested
⏵ 1	2022-09-02 12:54:40	announced

Liu X, Li J, Gygi SP, Paulo JA, Profiling Yeast Deletion Strains Using Sample Multiplexing and Network-Based Analyses. J Proteome Res, 21(6):1525-1536(2022) [pubmed]

submitter keyword: TMTpro, deletion strains, yeast, RTS-MS3, YKO

Joao Paulo
contact affiliation	Cell Biology, Harvard Medical School, Boston, MA, USA
contact email	joao_paulo@post.harvard.edu
lab head
Joao Paulo
contact affiliation	Harvard Medical School
contact email	joao_paulo@post.harvard.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD032042
     1. Label: PRIDE project
     2. Name: Profiling Yeast Deletion Strains using Sample Multiplexing and Network-based Analyses