Sort   by:  
 Page size 
ProteomicsA proteomic barcoding platform for macromolecular screening and delivery
To address the delivery barriers of macromolecular therapeutics, we sought to develop high-throughput peptide barcoding platform as a homogeneous method for macromolecular screening. Implemented in open-source algorithms, BarcodeBabel and PeptideBabel, this approach permits the design of libraries o...
ORGANISM(S): Homo sapiens (Human) 
2025-05-06 | PXD048412 | Pride
Barcodebabel Barcoding Macromolecular drug delivery Peptidebabel 
ProteomicsOptimized cross-linking mass spectrometry for in situ interaction proteomics
ecent development of mass spectrometer cleavable protein cross-linkers and algorithms for their spectral identification now permits large-scale cross-linking mass spectrometry (XL-MS). Here, we optimized the use of cleavable disuccinimidyl sulfoxide (DSSO) cross-linker for labeling native protein co...
ORGANISM(S): Homo sapiens (Human) 
2019-04-03 | PXD010796 | Pride
Human Cross-linking mass spectrometry Chromatin 
ProteomicsIntegrative proteogenomics using ProteomeGenerator2
Recent advances in nucleic acid sequencing now permit rapid and genome-scale analysis of genetic variation and transcription, enabling population-scale studies of human biology, disease, and diverse organisms. Likewise, advances in mass spectrometry proteomics now permit highly sensitive and accurat...
ORGANISM(S): Homo sapiens (Human) 
2024-05-22 | PXD037061 | Pride
Proteogenomics Genomics Transcriptomics Comprehensive proteomics 
ProteomicsProteomeGenerator analysis of K052
To improve identification of canonical and non-canonical protein isoforms, we introduced ProteomeGenerator, a framework for reference-guided and de novo proteogenomic database generation from transcriptomic sequencing dataset. The proteomic databases output by ProteomeGenerator contain only protein...
ORGANISM(S): Homo sapiens (Human) 
2018-10-11 | PXD008381 | Pride
Proteomegenerator proteogenomics shotgun k052 non-canonical isoforms 
ProteomicsMutant PP2A interactome
Affinity enrichment of ligand to mutant and wild-type PP2A protein
ORGANISM(S): Homo sapiens (Human) 
2020-06-09 | PXD010709 | Pride
Pp2a phosphatase interaction co-ip 
ProteomicsDeep chemoproteomic analysis of LPS-stimulated RAW264.7 cell proteome
Unanticipated regulatory protein modifications can be discovered from the unbiased comprehensive analysis of biological systems using SAMPEI. To explore this idea, we sought to map protein modifications induced during mammalian cell differentiation, modeled by the response of mouse RAW264.7 macropha...
ORGANISM(S): Mus musculus (Mouse) 
2021-07-22 | PXD019853 | Pride
Lc-msms sampei modifications ptm orbitrap macrophages lps scx 
ProteomicsAccumulated ion monitoring for improved sensitivity
This work aimed to improve sensitivity of targeted detection by orbitrap mass spectrometers. Co-isolation of contaminant ions was identified as the major factor limiting sensitivity, and LOD of both PRM and accumulated precursor ion scanning (AIM) was improved by increased chromatographic resolution...
ORGANISM(S): Homo sapiens (Human) 
2017-08-24 | PXD006236 | Pride
Quantitative-ms Prm Orbitrap Phosphorylation Targeted-ms 
ProteomicsHuman proteome derivatized with iodoacetamide and acrylamide
This dataset was generated to parametrize and benchmark software for unbiased discovery of post-translationally modified peptides.
ORGANISM(S): Homo sapiens (Human) 
2021-07-22 | PXD019793 | Pride
Lc-msms iodoacetamide acrylamide modifications ptm orbitrap fusion 
ProteomicsStructural and functional analyses identify unique features of the Smc5/6 complex among SMC family of complexes
Cross-linking mass spectrometry data for integrative structural analyses of the Smc5/6 holo-complex from budding yeast. Electron microscopy, crosslinking mass spectrometry, and computational modeling reveal that while the complex shares an overall organization with other SMC complexes, it possesses ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-05-05 | PXD023164 | Pride
Smc5/6 Cross-linking Yeast Integrative modeling Xl-ms Proteomics 
ProteomicsValidation of itaconate modification on model proteins
This dataset was generated to confirm that +130 and +146 Da adducts observed in LPS-stimulated macrophages were produced by the itaconate metabolite. To this end, model proteins (bovine serum albumin and human KEAP1) were reacted in vitro with itaconate, and the correspondent adducts were analyzed b...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2021-07-22 | PXD019858 | Pride
Itaconate chemoproteomics mass spectrometry sampei adduct cysteine 
Sort   by:  
 Page size