Search Results - "Vaughan, Robert M"

Chromatin Regulation through Ubiquitin and Ubiquitin-like Histone Modifications by Vaughan, Robert M., Kupai, Ariana, Rothbart, Scott B.

“…Chromatin functions are influenced by the addition, removal, and recognition of histone post-translational modifications (PTMs). Ubiquitin and ubiquitin-like…”
Get full text

Streamlined quantitative analysis of histone modification abundance at nucleosome-scale resolution with siQ-ChIP version 2.0 by Dickson, Bradley M., Kupai, Ariana, Vaughan, Robert M., Rothbart, Scott B.

“…We recently introduced an absolute and physical quantitative scale for chromatin immunoprecipitation followed by sequencing (ChIP-seq). The scale itself was…”
Get full text

Chromatin structure and its chemical modifications regulate the ubiquitin ligase substrate selectivity of UHRF1 by Vaughan, Robert M., Dickson, Bradley M., Whelihan, Matthew F., Johnstone, Andrea L., Cornett, Evan M., Cheek, Marcus A., Ausherman, Christine A., Cowles, Martis W., Sun, Zu-Wen, Rothbart, Scott B.

“…Mitotic inheritance of DNA methylation patterns is facilitated by UHRF1, a DNA- and histone-binding E3 ubiquitin ligase that helps recruit the maintenance DNA…”
Get full text

Chemical Biology Screening Identifies a Vulnerability to Checkpoint Kinase Inhibitors in TSC2-Deficient Renal Angiomyolipomas by Vaughan, Robert M, Kordich, Jennifer J, Chan, Chun-Yuan, Sasi, Nanda K, Celano, Stephanie L, Sisson, Kellie A, Van Baren, Megan, Kortus, Matthew G, Aguiar, Dean J, Martin, Katie R, MacKeigan, Jeffrey P

“…The tuberous sclerosis complex (TSC) is a rare genetic syndrome and multisystem disease resulting in tumor formation in major organs. A molecular hallmark of…”
Get full text

SARS-CoV-2 Genotyping Highlights the Challenges in Spike Protein Drift Independent of Other Essential Proteins by Prokop, Jeremy W, Alberta, Sheryl, Witteveen-Lane, Martin, Pell, Samantha, Farag, Hosam A, Bhargava, Disha, Vaughan, Robert M, Frisch, Austin, Bauss, Jacob, Bhatti, Humza, Arora, Sanjana, Subrahmanya, Charitha, Pearson, David, Goodyke, Austin, Westgate, Mason, Cook, Taylor W, Mitchell, Jackson T, Zieba, Jacob, Sims, Matthew D, Underwood, Adam, Hassouna, Habiba, Rajasekaran, Surender, Tamae Kakazu, Maximiliano A, Chesla, Dave, Olivero, Rosemary, Caulfield, Adam J

“…As of 2024, SARS-CoV-2 continues to propagate and drift as an endemic virus, impacting healthcare for years. The largest sequencing initiative for any species…”
Get full text

The histone and non-histone methyllysine reader activities of the UHRF1 tandem Tudor domain are dispensable for the propagation of aberrant DNA methylation patterning in cancer cells by Vaughan, Robert M, Kupai, Ariana, Foley, Caroline A, Sagum, Cari A, Tibben, Bailey M, Eden, Hope E, Tiedemann, Rochelle L, Berryhill, Christine A, Patel, Varun, Shaw, Kevin M, Krajewski, Krzysztof, Strahl, Brian D, Bedford, Mark T, Frye, Stephen V, Dickson, Bradley M, Rothbart, Scott B

“…The chromatin-binding E3 ubiquitin ligase ubiquitin-like with PHD and RING finger domains 1 (UHRF1) contributes to the maintenance of aberrant DNA methylation…”
Get full text

The complex, dynamic SpliceOme of the small GTPase transcripts altered by technique, sex, genetics, tissue specificity, and RNA base editing by Das, Akansha S, Sherry, Emily C, Vaughan, Robert M, Henderson, Marian L, Zieba, Jacob, Uhl, Katie L, Koehn, Olivia, Bupp, Caleb P, Rajasekaran, Surender, Li, Xiaopeng, Chhetri, Surya B, Nissim, Sahar, Williams, Carol L, Prokop, Jeremy W

“…The small GTPase family is well-studied in cancer and cellular physiology. With 162 annotated human genes, the family has a broad expression throughout cells…”
Get full text

A Degenerate Peptide Library Approach to Reveal Sequence Determinants of Methyllysine-Driven Protein Interactions by Kupai, Ariana, Vaughan, Robert M, Dickson, Bradley M, Rothbart, Scott B

“…Lysine methylation facilitates protein-protein interactions through the activity of methyllysine (Kme) "reader" proteins. Functions of Kme readers have…”
Get full text

A Read/Write Mechanism Connects p300 Bromodomain Function to H2A.Z Acetylation by Colino-Sanguino, Yolanda, Cornett, Evan M., Moulder, David, Smith, Grady C., Hrit, Joel, Cordeiro-Spinetti, Eric, Vaughan, Robert M., Krajewski, Krzysztof, Rothbart, Scott B., Clark, Susan J., Valdés-Mora, Fátima

“…Acetylation of the histone variant H2A.Z (H2A.Zac) occurs at active regulatory regions associated with gene expression. Although the Tip60 complex is proposed…”
Get full text

A DNA methylation reader complex that enhances gene transcription by Harris, C Jake, Scheibe, Marion, Wongpalee, Somsakul Pop, Liu, Wanlu, Cornett, Evan M, Vaughan, Robert M, Li, Xueqin, Chen, Wei, Xue, Yan, Zhong, Zhenhui, Yen, Linda, Barshop, William D, Rayatpisheh, Shima, Gallego-Bartolome, Javier, Groth, Martin, Wang, Zonghua, Wohlschlegel, James A, Du, Jiamu, Rothbart, Scott B, Butter, Falk, Jacobsen, Steven E

“…DNA methylation generally functions as a repressive transcriptional signal, but it is also known to activate gene expression. In either case, the downstream…”
Get full text

The finger loop of the SRA domain in the E3 ligase UHRF1 is a regulator of ubiquitin targeting and is required for the maintenance of DNA methylation by Vaughan, Robert M., Rothbart, Scott B., Dickson, Bradley M.

“…The Su(var)3–9, enhancer of zeste, and trithorax (SET) and really interesting new gene (RING) finger–associated (SRA) protein domain is conserved across…”
Get full text

Examining the Roles of H3K4 Methylation States with Systematically Characterized Antibodies by Shah, Rohan N., Grzybowski, Adrian T., Cornett, Evan M., Johnstone, Andrea L., Dickson, Bradley M., Boone, Brandon A., Cheek, Marcus A., Cowles, Martis W., Maryanski, Danielle, Meiners, Matthew J., Tiedemann, Rochelle L., Vaughan, Robert M., Arora, Neha, Sun, Zu-Wen, Rothbart, Scott B., Keogh, Michael-Christopher, Ruthenburg, Alexander J.

“…Histone post-translational modifications (PTMs) are important genomic regulators often studied by chromatin immunoprecipitation (ChIP), whereby their locations…”
Get full text

Molecular dynamics simulations provide insights into ULK-101 potency and selectivity toward autophagic kinases ULK1/2 by Vaughan, Robert M., Dickson, Bradley M., Martin, Katie R., MacKeigan, Jeffrey P.

“…Kinase domains are highly conserved within proteins in both sequence and structure. Many factors, including phosphorylation, amino acid substitutions or…”
Get full text

A physical basis for quantitative ChIP-sequencing by Dickson, Bradley M., Tiedemann, Rochelle L., Chomiak, Alison A., Cornett, Evan M., Vaughan, Robert M., Rothbart, Scott B.

“…ChIP followed by next-generation sequencing (ChIP-Seq) is a key technique for mapping the distribution of histone posttranslational modifications (PTMs) and…”
Get full text

Comparative biochemical analysis of UHRF proteins reveals molecular mechanisms that uncouple UHRF2 from DNA methylation maintenance by Vaughan, Robert M, Dickson, Bradley M, Cornett, Evan M, Harrison, Joseph S, Kuhlman, Brian, Rothbart, Scott B

“…Abstract UHRF1 is a histone- and DNA-binding E3 ubiquitin ligase that functions with DNMT1 to maintain mammalian DNA methylation. UHRF1 facilitates DNMT1…”
Get full text

A trivalent nucleosome interaction by PHIP/BRWD2 is disrupted in neurodevelopmental disorders and cancer by Morgan, Marc A J, Popova, Irina K, Vaidya, Anup, Burg, Jonathan M, Marunde, Matthew R, Rendleman, Emily J, Dumar, Zachary J, Watson, Rachel, Meiners, Matthew J, Howard, Sarah A, Khalatyan, Natalia, Vaughan, Robert M, Rothbart, Scott B, Keogh, Michael-C, Shilatifard, Ali

“…Mutations in the chromatin regulator cause the human neurodevelopmental disorder Chung-Jansen syndrome, while alterations in expression are linked to cancer…”
Get full text

A fluorescent carbapenem for structure function studies of penicillin-binding proteins, β-lactamases, and β-lactam sensors by June, Cynthia M., Vaughan, Robert M., Ulberg, Lucas S., Bonomo, Robert A., Witucki, Laurie A., Leonard, David A.

“…By reacting fluorescein isothiocyanate with meropenem, we have prepared a carbapenem-based fluorescent β-lactam. Fluorescein–meropenem binds both…”
Get full text

A functional proteomics platform to reveal the sequence determinants of lysine methyltransferase substrate selectivity by Cornett, Evan M, Dickson, Bradley M, Krajewski, Krzysztof, Spellmon, Nicholas, Umstead, Andrew, Vaughan, Robert M, Shaw, Kevin M, Versluis, Philip P, Cowles, Martis W, Brunzelle, Joseph, Yang, Zhe, Vega, Irving E, Sun, Zu-Wen, Rothbart, Scott B

“…Lysine methylation is a key regulator of histone protein function. Beyond histones, few connections have been made to the enzymes responsible for the…”
Get full text

Epigenetic Regulation through UHRF Proteins by Rothbart, Scott B, Vaughan, Robert M, Cornett, Evan M, Dickson, Bradley M

“…Abstract only The epigenetic inheritance of DNA methylation requires UHRF1, a histone‐ and DNA‐binding RING E3 ubiquitin ligase whose misregulation may…”
Get full text

Biochemical Studies of the E3 Ubiquitin Ligases UHRF1 and UHRF2 by Vaughan, Robert M

“…Deoxyribonucleic acid (DNA) and histone proteins are the building blocks of nucleosomes, repeating units of chromatin. Both DNA and histone proteins are…”
Get full text