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ProteomicsMouse brain tissue proteomics-Shui group
DIA and PRM raw data of mouse brain tissues. R1: Cerebellum, R2: Midbrain, R3: Spinal cord
ORGANISM(S): Mus Musculus 
2019-11-26 | PXD016441 |
ProteomicsCombining Untargeted and Targeted Proteomic Strategies for Discrimination and Quantification of Cashmere Fibers
Cashmere is regarded as a specialty and luxury fiber due to its scarcity and high economic value. For fiber quality assessment, it is technically very challenging to distinguish and quantify the cashmere fiber from yak or wool fibers because of their highly similar physical appearance and substantial...
ORGANISM(S): Bos mutus grunniens (Wild yak) (Bos grunniens) Ovis aries Capra hircus (Goat) 
2018-10-25 | PXD003107 | Pride
Keratin-associated protein Proteomics Lc-ms Fiber Keratin Biomarker 
MetabolomicsComprehensive evaluation of untargeted metabolomics data processing software in feature detection, quantification and discriminating marker selection (AB SCIEX TripleTOF 6600 assay)

Data analysis represents a key challenge for untargeted metabolomics studies and it commonly requires extensive processing of more than thousands of metabolite peaks included in raw high-resolution MS data. Although a number of software packages have been developed to facilitate untargeted data p...

2019-11-19 | MTBLS736 | MetaboLights
MetabolomicsComprehensive evaluation of untargeted metabolomics data processing software in feature detection, quantification and discriminating marker selection
Data analysis represents a key challenge for untargeted metabolomics studies and it commonly requires extensive processing of more than thousands of metabolite peaks included in raw high-resolution MS data. Although a number of software packages have been developed to facilitate untargeted data proc...
2019-11-19 | MTBLS733 | MetaboLights
ProteomicsProteome-wide identification of SAPs in an industrial yeast strain
Most proteogenomic approaches for mapping single amino acid polymorphisms (SAPs) require construction of a sample-specific database containing protein variants predicted from the next-generation sequencing (NGS) data. We present a new strategy for direct SAP detection without relying on NGS data. Am...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2018-04-18 | PXD003101 | Pride
Industrial yeast strain Proteogenomics Sap 
ProteomicsDeepPhospho generated libraries, search results, models, and synthetic data
In this study, we present a hybrid deep neural network DeepPhospho which conceptually differs from all previous deep learning models for unmodified or modified peptide predictions in regard to peptide representation learning. Our approach utilizes a multi-module network and self attention mechanism ...
ORGANISM(S): Homo Sapiens 
PXD028601 |
ProteomicsGeneration of a deep mouse brain spectral library for transmembrane proteome profiling in mental disease models
The establishment of a high-quality mouse brain transmembrane proteins spectral library enables in-depth profiling of the proteins across multiple brain regions. DIA data analysis, combining different search pipeline based on the spectral library, discovered a new GPCR regulator which was associated...
ORGANISM(S): Mus Musculus 
2023-11-26 | PXD047251 |
ProteomicsBenchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics
This repository is related to the work "Benchmarking commonly usedsoftware suites and analysis workflows for DIA proteomics and phosphoproteomics". The following files are stored here: 1. four MS datasets generated in this work, including two two-species benchmark datasets acquired on QE HF and tims...
ORGANISM(S): Homo Sapiens Saccharomyces Cerevisiae S288c Mus Musculus 
2022-12-08 | PXD034709 |
ProteomicsStructural mass spectrometry captures residue-resolved comprehensive conformational rearrangements of a G protein-coupled receptor
GPCR structural studies with in-solution spectroscopic approaches have offered distinctive insights into GPCR activation and signaling that highly complement those yielded from structural snapshots by crystallography or cryo-EM. While most current spectroscopic approaches excel at probing structural...
ORGANISM(S): Homo Sapiens 
PXD048942 |
ProteomicsConformational dynamics of the activated GLP-1 receptor-Gs complex revealed by cross-linking mass spectrometry and integrative modeling
Despite revolutionary advancements in GPCR structural biology, our understanding of the complexity of GPCR activation and signaling would not be complete without complementary information on the conformational dynamics. Yet it is particularly challenging to study the dynamics of GPCR complexes with ...
ORGANISM(S): Homo Sapiens 
2023-01-08 | PXD039315 |
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