A5019624482- Click Chemistry and Applications
- Protein Degradation and Inhibitors
- Peptidase Inhibition and Analysis
- Ubiquitin and proteasome pathways
- Adenosine and Purinergic Signaling
- Polyamine Metabolism and Applications
- GABA and Rice Research
- Research Data Management Practices
- Chemical Synthesis and Analysis
- Enzyme Structure and Function
- Pneumocystis jirovecii pneumonia detection and treatment
- Chronic Lymphocytic Leukemia Research
- Scientific Computing and Data Management
- Advanced Proteomics Techniques and Applications
- Mass Spectrometry Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Protein Hydrolysis and Bioactive Peptides
Scripps Institution of Oceanography
2022-2023
Scripps (United States)
2022-2023
Scripps Research Institute
2017-2021
Virginia Tech
2014
The growing complexity and volume of proteomics data necessitate the development efficient software tools for peptide identification quantification from mass spectra. Given their central role in proteomics, it is imperative that these are auditable extensible─requirements best fulfilled by open-source permissively licensed software. This work presents Sage, a high-performance, open-source, freely available pipeline. Scalable cloud-ready, Sage matches performance state-of-the-art while...
Type II pyridoxal 5'-phosphate decarboxylases are an important group of phylogenetically diverse enzymes involved in amino acid metabolism. Within plants, this is represented by aromatic decarboxylases, glutamate and serine decarboxylases. Additional evolutionary divergence plant has resulted further subcategories with distinct substrate specificities enzymatic activities. Despite shared homology, no such been characterized within or (SDC).Comparative analysis two previously...
Summary Most human proteins lack chemical probes, and several large-scale generalizable small-molecule binding assays have been introduced to address this problem. How compounds discovered in such “binding-first” affect protein function, nonetheless, often remains unclear. Here, we describe a “function-first” proteomic strategy that uses size exclusion chromatography (SEC) assess the global impact of electrophilic on complexes cells. Integrating SEC data with cysteine-directed activity-based...
Scientific discovery relies on innovative software as much experimental methods, especially in proteomics, where computational tools are essential for mass spectrometer setup, data analysis, and interpretation. Since the introduction of SEQUEST, proteomics has grown into a complex ecosystem algorithms, predictive models, workflows, but field faces challenges, including increasing complexity spectrometry data, limited reproducibility due to proprietary software, difficulties integrating with...
Electrophilic compounds originating from nature or chemical synthesis have profound effects on immune cells. These are thought to act by cysteine modification alter the functions of immune-relevant proteins; however, our understanding electrophile-sensitive cysteines in human proteome remains limited. Here, we present a global map primary T cells that susceptible covalent electrophilic small molecules. More than 3000 covalently liganded were found functionally and structurally diverse...
Abstract Electrophilic compounds originating from nature or chemical synthesis have profound effects on immune cells. These are thought to act by cysteine modification alter the functions of immune-relevant proteins; however, our understanding electrophile-sensitive cysteines in human proteome remains limited. Here, we present a global map primary T cells that susceptible covalent electrophilic small molecules. More than 3000 covalently liganded were found functionally and structurally...