Biochemistry Publications

 

Scientists in the Department of Biochemistry have expertise in genome dynamics, epigenetics, and gene expression; human genetics and clinical biochemistry; signal transduction and intracellular communication; macromolecular structure and dynamics; proteomics; and bioinformatics.

Visit the Department of Biochemistry Research website for additional information,

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Submissions from 2016

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A Unified Analytic Framework for Prioritization of Non-Coding Variants of Uncertain Significance in Heritable Breast and Ovarian Cancer, Eliseos J. Mucaki, Natasha G. Caminsky, Ami M. Perri, Ruipeng Lu, Alain Laederach, Matthew Halvorsen, Joan H. M. Knoll, and Peter K. Rogan

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Molecular pathways: Emergence of protein kinase CK2 (CSNK2) as a potential target to inhibit survival and DNA damage response and repair pathways in cancer cells, Adam J. Rabalski, Laszlo Gyenis, and David W. Litchfield

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Centromere detection of human metaphase chromosome images using a candidate based method, Peter Rogan

Submissions from 2015

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Beclin-1 Expression is Retained in High-Grade Serous Ovarian Cancer yet is Not Essential for Autophagy Induction In Vitro, Rohann J. M. Correa, Yudith Ramos Valdes, Trevor G. Shepherd, and Gabriel E. DiMattia

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Caspase 3 cleavage of Pax7 inhibits self-renewal of satellite cells, Sarah A. Dick, Natasha C. Chang, Nicolas A. Dumont, Ryan A.V. Bell, Charis Putinski, Yoichi Kawabe, David W. Litchfield, Michael A. Rudnicki, Lynn A. Megeney, and Eric N. Olson

Peroxide-mediated oxidation and inhibition of the peptidyl-prolyl isomerase Pin1, Brendan T. Innes, Modupeola A. Sowole, Laszlo Gyenis, Michelle Dubinsky, Lars Konermann, David W. Litchfield, Christopher J. Brandl, and Brian H. Shilton

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Molecular effects of cancer-associated somatic mutations on the structural and target recognition properties of Keap1., Halema Khan, Ryan C Killoran, Anne Brickenden, Jingsong Fan, Daiwen Yang, and Wing-Yiu Choy

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Reversing chromatin accessibility differences that distinguish homologous mitotic metaphase chromosomes., Wahab A Khan, Peter K Rogan, and Joan H M Knoll

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Structural Analysis of the 14-3-3ζ/Chibby Interaction Involved in Wnt/β-Catenin Signaling, Ryan C Killoran, Jingsong Fan, Daiwen Yang, Brian H Shilton, and Wing-Yiu Choy

Protein kinase CK2: Systematic relationships with other posttranslational modifications, David W. Litchfield and Laszlo Gyenis

Pin1: Intimate involvement with the regulatory protein kinase networks in the global phosphorylation landscape, David W. Litchfield, Brian H. Shilton, Christopher J. Brandl, and Laszlo Gyenis

FANCM c.5791C>T nonsense mutation (rs144567652) induces exon skipping, affects DNA repair activity and is a familial breast cancer risk factor, Paolo Peterlongo, Irene Catucci, Mara Colombo, Laura Caleca, Eliseos Mucaki, Massimo Bogliolo, Maria Marin, Francesca Damiola, Loris Bernard, Valeria Pensotti, Sara Volorio, Valentina Dall'Olio, Alfons Meindl, Claus Bartram, Christian Sutter, Harald Surowy, Valérie Sornin, Marie Gabrielle Dondon, Séverine Eon-Marchais, Dominique Stoppa-Lyonnet, Nadine Andrieu, Olga M. Sinilnikova, Gillian Mitchell, Paul A. James, Ella Thompson, Marina Marchetti, Cristina Verzeroli, Carmen Tartari, Gabriele Lorenzo Capone, Anna Laura Putignano, and Maurizio Genuardi

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Characterization of RanBPM Molecular Determinants that Control its Subcellular Localization, Louisa M Salemi, Sandra O Loureiro, and Caroline Schild-Poulter

Differential expression, distinct localization and opposite effect on Golgi structure and cell differentiation by a novel splice variant of human PRMT5, Muhammad Sohail, Manli Zhang, David Litchfield, Lisheng Wang, Sam Kung, and Jiuyong Xie

Noncovalent binding of a cyclic peptide inhibitor to the peptidyl-prolyl isomerase Pin1, explored by hydrogen exchange mass spectrometry, Modupeola A. Sowole, Brendan T. Innes, Mahasilu Amunugama, David W. Litchfield, Christopher J. Brandl, Brian H. Shilton, and Lars Konermann

Systematic investigation of hierarchical phosphorylation by protein kinase CK2, Nicole St-Denis, Michelle Gabriel, Jacob P. Turowec, Gregory B. Gloor, Shawn S.C. Li, Anne Claude Gingras, and David W. Litchfield

Protein Kinases and Caspases: Bidirectional Interactions in Apoptosis, Stephanie A. Zukowski and David W. Litchfield

Submissions from 2014

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Interpretation of mRNA splicing mutations in genetic disease: review of the literature and guidelines for information-theoretical analysis., Natasha Caminsky, Eliseos J Mucaki, and Peter K Rogan

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Splicing mutation analysis reveals previously unrecognized pathways in lymph node-invasive breast cancer., Stephanie N Dorman, Coby Viner, and Peter K Rogan

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Unifying the analysis of high-throughput sequencing datasets: characterizing RNA-seq, 16S rRNA gene sequencing and selective growth experiments by compositional data analysis., Andrew D Fernandes, Jennifer Ns Reid, Jean M Macklaim, Thomas A McMurrough, David R Edgell, and Gregory B Gloor

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Localized, non-random differences in chromatin accessibility between homologous metaphase chromosomes., Wahab A Khan, Peter K Rogan, and Joan Hm Knoll

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Automating dicentric chromosome detection from cytogenetic biodosimetry data., Peter K Rogan, Yanxin Li, Asanka Wickramasinghe, Akila Subasinghe, Natasha Caminsky, Wahab Khan, Jagath Samarabandu, Ruth Wilkins, Farrah Flegal, and Joan H Knoll

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Validation of predicted mRNA splicing mutations using high-throughput transcriptome data., Coby Viner, Stephanie N Dorman, Ben C Shirley, and Peter K Rogan

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Validation of predicted mRNA splicing mutations using high-throughput transcriptome data, Coby Viner, Stephanie Dorman, Ben Shirley, and Peter Rogan

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MegaTevs: Single-Chain Dual Nucleases for Efficient Gene Disruption, Jason M Wolfs, Matthew DaSilva, Sarah E Meister, Xu Wang, Caroline Schild-Poulter, and David R. Edgell