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Benjamin A. Garcia
Researcher at University of Pennsylvania
Publications - 467
Citations - 40286
Benjamin A. Garcia is an academic researcher from University of Pennsylvania. The author has contributed to research in topics: Histone & Chromatin. The author has an hindex of 90, co-authored 425 publications receiving 31491 citations. Previous affiliations of Benjamin A. Garcia include Ludwig Maximilian University of Munich & Purdue University.
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Improved SILAC Quantification with Data-Independent Acquisition to Investigate Bortezomib-Induced Protein Degradation.
TL;DR: In this paper, the authors developed a SILAC-DIA-MS workflow using free, open-source software and empirically determine that using DIA achieves similar peptide detection numbers as DDA and that DIA improves the quantitative accuracy and precision of SILAC by an order of magnitude.
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HYPERsol: High-Quality Data from Archival FFPE Tissue for Clinical Proteomics.
Dylan M. Marchione,Ilyana Ilieva,Kyle Devins,Danielle Sharpe,Darryl J. Pappin,Benjamin A. Garcia,John P. Wilson,John Wojcik +7 more
TL;DR: High-yield protein extraction and recovery by direct solubilization (HYPERsol) is presented, an optimized workflow using ultrasonication and S-Trap sample processing that enables proteome coverage and quantification from FFPE samples comparable to that achieved from flash-frozen tissue.
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Multiplexed data independent acquisition (MSX-DIA) applied by high resolution mass spectrometry improves quantification quality for the analysis of histone peptides.
TL;DR: MSX‐DIA proved thus to be a more favorable method for histone analysis in data independent mode than traditional DIA in terms of MS/MS spectra quality, instrument scan rate and quantification precision using histones from HeLa cells.
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In Vivo Proximity Labeling for the Detection of Protein−Protein and Protein−RNA Interactions
David B. Beck,Varun Narendra,William J. Drury,Ryan Casey,Pascal W. T. C. Jansen,Zuo-Fei Yuan,Benjamin A. Garcia,Michiel Vermeulen,Roberto Bonasio +8 more
TL;DR: Using quantitative mass spectrometry and deep sequencing, IPL is shown to correctly identify known protein–protein and protein–RNA interactions in the nucleus of mammalian cells and provides additional temporal and spatial information for the characterization of biological interactions in vivo.
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De novo peptide design and experimental validation of histone methyltransferase inhibitors.
James Smadbeck,Meghan B. Peterson,Barry M. Zee,Shivani Garapaty,Aashna Mago,Christina Ji-Young Lee,Athanassios Giannis,Patrick Trojer,Benjamin A. Garcia,Christodoulos A. Floudas +9 more
TL;DR: The discovery of novel EZH2 inhibitory peptides using the de novo peptide design method and these inhibitors should prove useful for further chromatin biology investigations are reported.