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ProteomicsMycobacterial strain-specific temporal modulations of newly synthesized macrophage secretome
THP-1 macrophages were infected with four strains of Mycobacterium tuberculosis to study the temporal dynamics of newly synthesized proteins in the secretome. Temporal snapshots of secretome reflect the macrophage response to pathogenicity which in combination with intracellular events, completes th...
ORGANISM(S): Homo sapiens (Human) 
2016-08-10 | PXD004281 | Pride
Boncat Mtb infection Hyperplexing Newly synthesized Silac Temporal Itraq Secretome 
ProteomicsSystematic evaluation of protein synthesis inhibition through global quantification of newly synthesized protiens
Manipulating protein synthesis is commonly applied in bio-related research to uncover protein functions and cellular activities. Multiple inhibitors with distinct mechanisms are widely used, but it is extraordinarily challenging to systematically determine and evaluate their inhibition efficiencies,...
ORGANISM(S): Homo sapiens (Human) 
2023-05-24 | PXD035992 | Pride
Bioorhogonal chemistry  protein synthesis inhibtion  protein inhibition efficiency  mass spectromety  multiplexed proteomics  newly synthesized proteins 
ProteomicsNewly synthesized proteome analysis of interferon gamma treated Hela cells
Using a newly-developed workflow for quantitative newly synthesized proteome analysis (QuaNPA), featuring automated sample processing and multiplexed DIA (plexDIA) analysis, changes in the newly synthesized proteome of IFN-gamma treated Hela cells were monitored over time.
ORGANISM(S): Homo sapiens (Human) 
2023-10-19 | PXD038915 | Pride
Dia Nascent proteome analysis Automated sample processing Interferon gamma Silac 
ProteomicsApplying plexDIA analysis to newly synthesized proteome samples generated using a semi-automated enrichment protocol
Samples generated with a newly development semi-automated enrichment protocol for newly synthesized proteins, using different amounts of protein input, were analysed using data-independent acquisition (DIA) and processed with the plexDIA software features of DIA-NN (https://www.nature.com/articles/s...
ORGANISM(S): Homo sapiens (Human) 
2023-10-19 | PXD043817 | Pride
Silac Plexdia Quanpa 
Proteomicssemi-automated enrichment of AHA-containing newly-synthesized proteins with magnetic alkyne agarose beads
Development of an improved workflow for newly synthesized proteome analysis, based on combined pulsed metabolic labelling with L-azidohomoalanine (AHA) and semi-automated click chemistry-based enrichments with magnetic alkyne agarose beads.
ORGANISM(S): Homo sapiens (Human) 
2023-10-19 | PXD036886 | Pride
Automation Silac Click chemistry Nascent proteome 
ProteomicsNewly Synthesized protein after VapC5 induction in Mycobacterium abscessus ATCC19977
Analyzing newly synthesized protein after VapC5 induction in mycobacterium abscessus 19977
ORGANISM(S): Mycobacteroides abscessus subsp. abscessus 
2023-07-20 | PXD025047 | Pride
Lc-ms Mycobacterium abscessus atcc19977 
GenomicsAn end-to-end workflow to study newly synthesized mRNA following rapid protein depletion in Saccharomyces cerevisiae
An end-to-end workflow to study newly synthesized mRNA following rapid protein depletion in Saccharomyces cerevisiae
PRJNA1085387 | ENA
TranscriptomicsGlobal gene expression profiling using newly synthesized RNA [mock and LPS]
Innate stimulation with TLR ligands leads to the activation of various genes in macrophages and various populations of these cells may exhibit different responses. Here wanted to delineate and characterize these transcriptional responses in newly established, self-renewing, in vitro grown non-trans...
ORGANISM(S): Mus musculus 
2013-06-08 | E-GEOD-47530 | biostudies-arrayexpress
ProteomicsDual roles of HSP70 chaperone HSPA1 in quality control of nascent and newly synthesized proteins
Exposure to heat stress triggers a well-defined acute response marked by HSF1-dependent transcriptional upregulation of heat shock proteins. Cells allowed to recover acquire thermotolerance, but this adaptation is poorly understood. By quantitative proteomics, we discovered selective upregulation of...
ORGANISM(S): Homo sapiens (Human) 
2021-05-02 | PXD025123 | Pride
Heat shock protein 70 Esophageal cancer Ubiquitin proteasome system (ups) Stress response 
ProteomicsSelective Enrichment of Newly Synthesized Proteins using Phos-tag Click Tip Enables Nascent Proteome Analysis in Influenza A Virus Infection
Bioorthogonal non-canonical amino acid tagging (BONCAT)-based approaches enable selective labeling of newly synthesized proteins (NSPs). We developed a workflow termed the “Phos-tag Click Tip” by integrating a phosphorylated variant of bicyclononyne (pBCN) with Phos-tag affinity purification to sele...
ORGANISM(S): Homo Sapiens (human) 
PXD059239 | JPOST Repository
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