PXD024282

PXD024282 is an original dataset announced via ProteomeXchange.

Title	A Semi-automated Paramagnetic Bead-based Platform for Isobaric Tag Sample Preparation
Description	The development of streamlined and high-throughput sample processing workflows is important for capitalizing on emerging advances and innovations in mass spectrometry-based applications. While the adaptation of new technologies and improved methodologies is fast paced, automation of upstream sample processing often lags. Here we have developed and implemented a semi-automated paramagnetic bead-based platform for isobaric tag sample preparation. We benchmarked the robot-assisted platform by comparing the protein abundance profiles of six common parental laboratory yeast strains in triplicate TMTpro16-plex experiments against an identical set of experiments in which the samples were manually processed. Both sets of experiments quantified similar numbers of proteins and peptides with good reproducibility. Using these data, we constructed an interactive website to explore the proteome profiles of six yeast strains. We also provide the community with open-source templates for automating routine proteomics workflows on an opentrons OT-2 liquid handler. The robot-assisted platform offers a versatile and affordable option for reproducible sample processing for a wide range of protein profiling applications.
HostingRepository	PRIDE
AnnounceDate	2022-01-06
AnnouncementXML	Submission_2022-01-06_11:35:12.597.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	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2021-02-22 01:44:08	ID requested
⏵ 1	2022-01-06 11:35:13	announced

Liu X, Gygi SP, Paulo JA, A Semiautomated Paramagnetic Bead-Based Platform for Isobaric Tag Sample Preparation. J Am Soc Mass Spectrom, 32(6):1519-1529(2021) [pubmed]

submitter keyword: TMTpro, FAIMS, RTS, Opentrons, SP3, automation

Joao A. Paulo
contact affiliation	Cell Biology Harvard Medical School 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. PXD024282
     1. Label: PRIDE project
     2. Name: A Semi-automated Paramagnetic Bead-based Platform for Isobaric Tag Sample Preparation