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ProteomicsCombining data independent acquisition with spike-in SILAC (DIA-SiS) improves proteome coverage and quantification )
Data Independent Acquisition (DIA) is increasingly preferred over Data Dependent Acquisition (DDA) due to its higher throughput and fewer missing values. Whereas DDA often utilizes stable isotope labeling to improve quantification, DIA mostly relies on label-free approaches. Efforts to integrate DIA...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2024-10-14 | PXD052080 | Pride
Multiplexing Dia Plexdia Silac Proteomics Benchmark 
UnknownCombining Data Independent Acquisition With Spike-In SILAC (DIA-SiS) Improves Proteome Coverage and Quantification.
Not available
S-EPMC11795695 | biostudies-literature
ProteomicsDIA Spike-in SILAC Revisions; additional submission including single-cell like amounts
Additional data and analyses for submission of DIA-SiS
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2024-10-14 | PXD054343 | Pride
Silac dia benchmark proteomics 
ProteomicsBenchmarking plexDIA analysis with SILAC-labelled Hela cell samples
SILAC labelled Hela cell lysates were mixed in defined ratios and analysed using both DDA and DIA methods, to serve as a benchmark for the novel plexDIA features of DIA-NN.
ORGANISM(S): Homo sapiens (Human) 
2023-10-19 | PXD039578 | Pride
Dia-nn Dia Hela Silac Plexdia 
ProteomicsA Robust Multiplex-DIA Workflow Profiles Protein Turnover Regulations Associated with Cisplatin Resistance and Aneuploidy
Measuring protein turnover is essential for understanding cellular biological processes and advancing drug discovery. The multiplex-DIA mass spectrometry (DIA-MS) approach, combined with dynamic SILAC labeling (pulse-SILAC, or pSILAC), has proven to be a reliable method for analyzing protein turnove...
ORGANISM(S): Homo sapiens (Human) 
2025-05-14 | PXD057632 | Pride
Aneuploidy Quantitative proteomics Protein turnover Dia Drug resistance Multiplex-dia Pulse silac 
ProteomicsBenchmarking of DDA and plexDIA analysis with SILAC-labelled Hela cell samples
SILAC labelled Hela cell lysates were mixed in defined ratios and analysed using both DDA and DIA methods, to serve as a benchmark for the novel plexDIA features of DIA-NN.
ORGANISM(S): Homo sapiens (Human) 
2023-10-19 | PXD039580 | Pride
Hela Silac Dda 
ProteomicsBenchmarking SILAC Proteomics Workflows and Data Analysis Platforms
Stable isotopic labeling by amino acids in cell culture (SILAC) is a powerful metabolic labeling technique with widespread applications and diverse study designs. SILAC proteomics requires the confident identification and quantification of complete isotopic versions of proteins and peptides during d...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-11-13 | MSV000096401 | MassIVE
ProteomicsBenchmarking SILAC Proteomics Workflows and Data Analysis Platforms
SILAC proteomics is a powerful metabolic labeling technique that limits experimental variation, while enabling accurate protein quantification. However, multiple isotopic versions (e.g. heavy and light) of the same proteins are generated, increasing spectral complexity and requiring sample deconvolu...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-07-03 | MSV000095236 | MassIVE
ProteomicsSpike-in enhanced phosphoproteomics uncovers synergistic signaling responses to MEK inhibition in colon cancer cells
Targeted kinase inhibitors are a cornerstone of cancer therapy, but their success is often hindered by the complexity of cellular signaling networks that can lead to resistance. Overcoming this challenge necessitates a deep understanding of cellular signaling responses. While standard global phospho...
ORGANISM(S): Homo sapiens (Human) 
2025-03-11 | PXD050961 | Pride
Caco2 Phosphoproteomics Colorectal cancer Mek inhibition Hct116 Dld-1 Dia Spied-dia 
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