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ProteomicsRapid Histone Post-Translational Modification Analysis Using Alternative Proteases and Tandem Mass Tags (RIPUP)
Histone post-translational modifications (PTMs) alter chromatin dynamics and contribute to the regulation of gene expression in health and disease. Mass spectrometry-based analysis is the gold-standard for histone PTM analysis, but it remains constrained by inefficient sample preparation workflows r...
ORGANISM(S): Homo sapiens (Human) Rattus norvegicus (Rat) 
2026-06-20 | PXD073683 | Pride
Post-translational modifications Histones Proteases Lc-ms/ms 
ProteomicsCovalent Protein Painting on Cancer Cell Lines
Cancer cells were labeled with Covalent Protein Painting and resulting peptides analyzed by mass spectrometry. For further information, please see: bioRxiv 2020.01.31.929117; doi: https://doi.org/10.1101/2020.01.31.929117
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-02-28 | MSV000085034 | MassIVE
ProteomicsThe effects of Alcohol Dependence on the CSF Proteome in Mice: Evidence for Blood-Brain Barrier Dysfunction and Neuroinflammation
A DIA analysis of CSF from individual mice undergoing chronic intermittent ethanol via two-bottle choice (non dependent) method versus vapor group and two bottle choice (dependent).
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2025-11-03 | MSV000099732 | MassIVE
ProteomicsProteome Plasticity in Drosophila Hybrids
This submission contains 3 different datasets: - series A: D. melanogaster female ? D. simulans male embryos vs internal standard of pooled D. simulans and D. melanogaster (1:1) embryos - series B: D. simulans female ? D. melanogaster male embryos vs internal standard of pooled D. simulans and D. m...
ORGANISM(S): Drosophila Melanogaster (ncbitaxon:7227) Drosophila Simulans (ncbitaxon:7240) 
MSV000081535 | MassIVE
ProteomicsTargetSeeker-MS: A Bayesian Inference Approach for Drug Target Discovery using Protein Fractionation Coupled to Mass Spectrometry
Determining the affinity of a drug to its putative targets is critical to the understanding of its mechanism and to assess its clinical usefulness and viability. Energetics-based protein separation (EBPS) techniques, such as thermal shift assay, when coupled to mass spectrometry (MS) have shown grea...
ORGANISM(S): Homo sapiens (Human) Caenorhabditis elegans 
2026-04-06 | PXD010799 | Pride
Bioinformatics / drug target discovery / mass spectrometry / proteomics / thermal shift assay 
ProteomicsImpact of the identification strategy on reproducibility of DDA and DIA results
Study of the impact of the identification strategy used for DDA and DIA results
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-11-17 | MSV000081719 | MassIVE
ProteomicsIntercepting IRE1 Kinase-FMRP Signaling Prevents Atherosclerosis Progression
Fragile X Mental Retardation protein (FMRP), widely known for its role in hereditary intellectual disability, is an RNA-binding protein (RBP) that controls translation of select mRNAs. We discovered that endoplasmic reticulum (ER) stress induces phosphorylation of FMRP on a site that is known to enh...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2022-02-15 | PXD030594 | Pride
Cholesterol homeostasis Translational regulation Kinase-substrate Atherosclerosis Efferocytosis 
ProteomicsAn ultrasensitive method for analysis of viral spike N-glycoforms
Viruses can evade the host immune system by displaying numerous glycans on their surface "spike-proteins" that cover immune epitopes. We have developed an ultrasensitive "single pot" method to assess glycan occupancy and the extent of glycan processing from high-mannose to complex forms at each N-gl...
ORGANISM(S): Bg505 Sosip.664 Md39 Bg505 Sosip.664 Homo Sapiens (ncbitaxon:9606) 
2021-05-12 | MSV000087414 | MassIVE
ProteomicsStructural Analysis of Hippocampal Kinase Signal Transduction
Kinases are a major clinical target for human diseases. Identifying the proteins that interact with kinases in vivo will provide information on unreported substrates and will potentially lead to more specific methods for therapeutic kinase regulation. Here, endogenous immunoprecipitations of evolu...
ORGANISM(S): Rattus Norvegicus (ncbitaxon:10116) 
2018-05-23 | MSV000082390 | MassIVE
ProteomicsHuman Immunoglobulin Repertoire-Guided Immunogen Design Targeting HIV V2-Apex Broadly Neutralizing Antibody Precursors
Broadly neutralizing antibodies (bnAbs) to the HIV envelope (Env) V2-apex region are important leads for HIV vaccine design. Most V2-apex bnAbs engage Env with an uncommonly long heavy chain complementarity-determining region 3 (HCDR3), suggesting that rarity of bnAb precursors poses a challenge for...
ORGANISM(S): Homo sapiens (Human) Human immunodeficiency virus 
2023-03-11 | PXD033766 | Pride
Hiv antibodies Aids vaccines Structural vaccinology Immunoinformatics 
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