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ProteomicsReprocessed dataset with Skyline Batch: Extending the limits of quantitative proteome profiling with data-independent acquisition and application to acetaminophen treated 3D liver microtissues
The data set represents a fair comparison of shotgun proteomics with HRM (swath type DIA). Additionally, a human liver microtissue was profiled with HRM. REPROCESSING METHODS: Skyline Batch is a newly developed Windows forms application that enables easy and consistent reprocessing of data with Skyl...
ORGANISM(S): Homo Sapiens 
2021-11-12 | PXD029663 | panorama
ProteomicsReprocessed dataset with Skyline Batch: SWATH Analysis of Yeast Proteome over Time in Response to Osmotic Stress
SWATH analysis of Yeast Proteome over time in response to Osmotic Stress. We sampled cell cultures in biological triplicates at six time points following the application of osmotic stress and acquired single injection DIA datasets on a high-resolution 5600 tripleTOF instrument operated in SWATH mode...
ORGANISM(S): Saccharomyces Cerevisiae 
2021-11-12 | PXD029665 | panorama
ProteomicsA framework for quality control in quantitative proteomics
A thorough evaluation of the quality, reproducibility, and variability of bottom-up proteomics data is necessary at every stage of a workflow, from planning to analysis. We share vignettes applying adaptable quality control (QC) measures to assess sample preparation, system function, and quantitativ...
ORGANISM(S): Homo Sapiens Mus Musculus Bos Taurus Saccharomyces Cerevisiae 
PXD051318 | panorama
ProteomicsGlobal Chromatin Profiling Dataset of Chemical Perturbations in Multiple Biological Backgrounds
The Library of Integrated Network-based Cellular Signatures (LINCS) Program aims to create a network-based understanding of biology by cataloging changes in gene expression and other cellular processes that occur when cells are exposed to a variety of perturbing agents. The goal of this project is t...
ORGANISM(S): Homo Sapiens 
2022-03-02 | PXD017459 | panorama
ProteomicsPhospho-proteomic Profiling Dataset of Chemical Perturbations in Multiple Biological Backgrounds
The Library of Integrated Network-based Cellular Signatures (LINCS) Program aims to create a network-based understanding of biology by cataloging changes in gene expression and other cellular processes that occur when cells are exposed to a variety of perturbing agents. The goal of this project is t...
ORGANISM(S): Homo Sapiens 
2022-03-02 | PXD017458 | panorama
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