Search Results - "Bagert, John D."

The expanding landscape of ‘oncohistone’ mutations in human cancers by Nacev, Benjamin A., Feng, Lijuan, Bagert, John D., Lemiesz, Agata E., Gao, JianJiong, Soshnev, Alexey A., Kundra, Ritika, Schultz, Nikolaus, Muir, Tom W., Allis, C. David

“…Mutations in epigenetic pathways are common oncogenic drivers. Histones, the fundamental substrates for chromatin-modifying and remodelling enzymes, are…”
Get full text

A Qrr Noncoding RNA Deploys Four Different Regulatory Mechanisms to Optimize Quorum-Sensing Dynamics by Feng, Lihui, Rutherford, Steven T., Papenfort, Kai, Bagert, John D., van Kessel, Julia C., Tirrell, David A., Wingreen, Ned S., Bassler, Bonnie L.

“…Quorum sensing is a cell-cell communication process that bacteria use to transition between individual and social lifestyles. In vibrios, homologous small RNAs…”
Get full text

In situ chromatin interactomics using a chemical bait and trap approach by Burton, Antony J., Haugbro, Michael, Gates, Leah A., Bagert, John D., Allis, C. David, Muir, Tom W.

“…Elucidating the physiological binding partners of histone post-translational modifications (hPTMs) is key to understanding fundamental epigenetic regulatory…”
Get full text

Aromatic thiol-mediated cleavage of N–O bonds enables chemical ubiquitylation of folded proteins by Weller, Caroline E., Dhall, Abhinav, Ding, Feizhi, Linares, Edlaine, Whedon, Samuel D., Senger, Nicholas A., Tyson, Elizabeth L., Bagert, John D., Li, Xiaosong, Augusto, Ohara, Chatterjee, Champak

“…Access to protein substrates homogenously modified by ubiquitin (Ub) is critical for biophysical and biochemical investigations aimed at deconvoluting the…”
Get full text

Robust production of monovalent bispecific IgG antibodies through novel electrostatic steering mutations at the CH1-Cλ interface by Bagert, John D, Oganesyan, Vaheh, Chiang, Chi-I, Iannotti, Mike, Lin, Jia, Yang, Chunning, Payne, Sterling, McMahon, Will, Edwards, Samuel, Dippel, Andrew, Hutchinson, Mark, Huang, Fengying, Aleti, Vineela, Niu, Chendi, Qian, Chen, Denham, Jessica, Ferreira, Sofia, Pradhan, Pallab, Penney, Mark, Wang, Chunlei, Liu, Wenhai, Walseng, Even, Mazor, Yariv

“…Bispecific antibodies represent an increasingly large fraction of biologics in therapeutic development due to their expanded scope in functional capabilities…”
Get full text

Comparison of Family 9 Cellulases from Mesophilic and Thermophilic Bacteria by Mingardon, Florence, Bagert, John D, Maisonnier, Cyprien, Trudeau, Devin L, Arnold, Frances H

“…Cellulases containing a family 9 catalytic domain and a family 3c cellulose binding module (CBM3c) are important components of bacterial cellulolytic systems…”
Get full text

A Genetically Encoded Approach for Breaking Chromatin Symmetry by Lukasak, Bradley J, Thompson, Robert E, Mitchener, Michelle M, Feng, Vanessa J, Bagert, John D, Muir, Tom W

“…Nucleosomes frequently exist as asymmetric species in native chromatin contexts. Current methods for the traceless generation of these heterotypic chromatin…”
Get full text

Synthesis of ADP-Ribosylated Histones Reveals Site-Specific Impacts on Chromatin Structure and Function by Hananya, Nir, Daley, Sara K, Bagert, John D, Muir, Tom W

“…ADP-ribosylation of nuclear proteins is a critical feature of various DNA damage repair pathways. Histones, particularly H3 and H2B, are major targets of…”
Get full text

Molecular Epigenetics: Chemical Biology Tools Come of Age by Bagert, John D, Muir, Tom W

“…The field of epigenetics has exploded over the last two decades, revealing an astonishing level of complexity in the way genetic information is stored and…”
Get full text

Chromatin landscape signals differentially dictate the activities of mSWI/SNF family complexes by Mashtalir, Nazar, Dao, Hai T, Sankar, Akshay, Liu, Hengyuan, Corin, Aaron J, Bagert, John D, Ge, Eva J, D'Avino, Andrew R, Filipovski, Martin, Michel, Brittany C, Dann, Geoffrey P, Muir, Tom W, Kadoch, Cigall

“…Mammalian SWI/SNF (mSWI/SNF) adenosine triphosphate-dependent chromatin remodelers modulate genomic architecture and gene expression and are frequently mutated…”
Get full text

Oncohistone mutations enhance chromatin remodeling and alter cell fates by Bagert, John D., Mitchener, Michelle M., Patriotis, Agata L., Dul, Barbara E., Wojcik, Felix, Nacev, Benjamin A., Feng, Lijuan, Allis, C. David, Muir, Tom W.

“…Whole-genome sequencing data mining efforts have revealed numerous histone mutations in a wide range of cancer types. These occur in all four core histones in…”
Get full text

ISWI chromatin remodellers sense nucleosome modifications to determine substrate preference by Dann, Geoffrey P., Liszczak, Glen P., Bagert, John D., Müller, Manuel M., Nguyen, Uyen T. T., Wojcik, Felix, Brown, Zachary Z., Bos, Jeffrey, Panchenko, Tatyana, Pihl, Rasmus, Pollock, Samuel B., Diehl, Katharine L., Allis, C. David, Muir, Tom W.

“…A high-throughput approach using a DNA-barcoded nucleosome library shows that ISWI chromatin remodellers can distinguish between differently modified…”
Get full text

Quantitative, Time-Resolved Proteomic Analysis by Combining Bioorthogonal Noncanonical Amino Acid Tagging and Pulsed Stable Isotope Labeling by Amino Acids in Cell Culture by Bagert, John D., Xie, Yushu J., Sweredoski, Michael J., Qi, Yutao, Hess, Sonja, Schuman, Erin M., Tirrell, David A.

“…An approach to proteomic analysis that combines bioorthogonal noncanonical amino acid tagging (BONCAT) and pulsed stable isotope labeling with amino acids in…”
Get full text

Cleavable Biotin Probes for Labeling of Biomolecules via Azide−Alkyne Cycloaddition by Szychowski, Janek, Mahdavi, Alborz, Hodas, Jennifer J. L, Bagert, John D, Ngo, John T, Landgraf, Peter, Dieterich, Daniela C, Schuman, Erin M, Tirrell, David A

“…The azide−alkyne cycloaddition provides a powerful tool for bio-orthogonal labeling of proteins, nucleic acids, glycans, and lipids. In some labeling…”
Get full text

Robust production of monovalent bispecific IgG antibodies through novel electrostatic steering mutations at the C H 1-C λ interface by Bagert, John D, Oganesyan, Vaheh, Chiang, Chi-I, Iannotti, Mike, Lin, Jia, Yang, Chunning, Payne, Sterling, McMahon, Will, Edwards, Samuel, Dippel, Andrew, Hutchinson, Mark, Huang, Fengying, Aleti, Vineela, Niu, Chendi, Qian, Chen, Denham, Jessica, Ferreira, Sofia, Pradhan, Pallab, Penney, Mark, Wang, Chunlei, Liu, Wenhai, Walseng, Even, Mazor, Yariv

“…Bispecific antibodies represent an increasingly large fraction of biologics in therapeutic development due to their expanded scope in functional capabilities…”
Get full text

Time-resolved proteomic analysis of quorum sensing in Vibrio harveyi by Bagert, John D, van Kessel, Julia C, Sweredoski, Michael J, Feng, Lihui, Hess, Sonja, Bassler, Bonnie L, Tirrell, David A

“…Bacteria use a process of chemical communication called quorum sensing to assess their population density and to change their behavior in response to…”
Get full text

Engineered Aminoacyl-tRNA Synthetase for Cell-Selective Analysis of Mammalian Protein Synthesis by Mahdavi, Alborz, Hamblin, Graham D, Jindal, Granton A, Bagert, John D, Dong, Cathy, Sweredoski, Michael J, Hess, Sonja, Schuman, Erin M, Tirrell, David A

“…Methods for cell-selective analysis of proteome dynamics will facilitate studies of biological processes in multicellular organisms. Here we describe a mutant…”
Get full text

Time-resolved proteomic analysis of quorum sensing in Vibrio harveyiElectronic supplementary information (ESI) available: Figures and tables. See DOI: 10.1039/c5sc03340c by Bagert, John D, van Kessel, Julia C, Sweredoski, Michael J, Feng, Lihui, Hess, Sonja, Bassler, Bonnie L, Tirrell, David A

“…Bacteria use a process of chemical communication called quorum sensing to assess their population density and to change their behavior in response to…”
Get full text

Time-resolved proteomic analysis of quorum sensing in Vibrio harveyi † †Electronic supplementary information (ESI) available: Figures and tables. See DOI: 10.1039/c5sc03340c Click here for additional data file by Bagert, John D., van Kessel, Julia C., Sweredoski, Michael J., Feng, Lihui, Hess, Sonja, Bassler, Bonnie L., Tirrell, David A.

“…Bio-orthogonal non-canonical amino acid tagging allows time-resolved proteomic analysis of quorum sensing in Vibrio harveyi . Bacteria use a process of…”
Get full text

A Qrr non-coding RNA deploys four different regulatory mechanisms to optimize quorum-sensing dynamics by Feng, Lihui, Rutherford, Steven T., Papenfort, Kai, Bagert, John D., van Kessel, Julia C., Tirrell, David A., Wingreen, Ned S., Bassler, Bonnie L.

“…Quorum sensing is a cell-cell communication process that bacteria use to transition between individual and social lifestyles. In vibrios, homologous small RNAs…”
Get full text