PXD019243

PXD019243 is an original dataset announced via ProteomeXchange.

Title	Optimization of protocols for detection of de novo protein synthesis in whole blood samples via azide-alkyne cycloaddition
Description	Aberrant protein synthesis and protein expression are a hallmark of many disorders ranging from cancer Aberrant protein synthesis and protein expression are a hallmark of many disorders ranging from cancer to neuropsychiatry. Blood-based biomarkers indicative of changes in proteomes have long been held to be potentially useful with respect to disease prognosis and treatment. However, most effort has been focused on unlabelled plasma proteomics which includes non-myeloid origin proteins and no method of dynamically tagging acute changes in proteomes. Herein we report a method for evaluating de novo protein synthesis in whole blood liquid biopsies. Using a modification of the “bioorthogonal noncanonical amino acid tagging” (BONCAT) protocol, rodent whole blood samples were incubated with L-azidohomoalanine (AHA) to allow incorporation of this selectively reactive non-natural amino acid within nascent polypeptides. Overall, we present a rapid and convenient de novo protein synthesis assay usable with whole blood biopsies that can quantify translational change as well as identity of proteins differentially expressed that may be useful for clinical applications
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:13:08.087.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Janani Priya Venkatasubramani
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: 10116;
ModificationList	biotinylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-17 18:14:58	ID requested
1	2020-10-07 23:03:58	announced
⏵ 2	2024-10-22 05:13:14	announced	2024-10-22: Updated project metadata.

Bowling HL, Kasper A, Patole C, Venkatasubramani JP, Leventer SP, Carmody E, Sharp K, Berry-Kravis E, Kirshenbaum K, Klann E, Bhattacharya A, Optimization of Protocols for Detection of De Novo Protein Synthesis in Whole Blood Samples via Azide-Alkyne Cycloaddition. J Proteome Res, 19(9):3856-3866(2020) [pubmed]

10.1021/acs.jproteome.0c00299;

submitter keyword: De novo protein synthesis, blood-based biomarkers, copper(I)-catalyzed click-chemistry, whole blood, ethylenediaminetetraacetic acid

Dr. Aditi Bhattacharya
contact affiliation	Institute for Stem Cell Science and Regenerative Medicine (inStem), Bangalore, India.
contact email	aditi@instem.res.in
lab head
Janani Priya Venkatasubramani
contact affiliation	InStem
contact email	jananipv209@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD019243
     1. Label: PRIDE project
     2. Name: Optimization of protocols for detection of de novo protein synthesis in whole blood samples via azide-alkyne cycloaddition