This collection showcases the books, journal articles, book reviews, and other publications and presentations written by faculty and researchers of the Department of Biochemistry and Molecular Pharmacology.

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Publications from 2018

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Intranuclear and higher-order chromatin organization of the major histone gene cluster in breast cancer, , Deli Hong, A. Rasim Barutcu, Anthony N. Imbalzano, and Gary S. Stein

Publications from 2017

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Hi-C 2.0: An optimized Hi-C procedure for high-resolution genome-wide mapping of chromosome conformation, Houda Belaghzal, Job Dekker, and Johan H. Gibcus (Methods (San Diego, Calif.), 7-1-2017)

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LINE-1 activation after fertilization regulates global chromatin accessibility in the early mouse embryo, , Xin Y. Bing, Julien Pontabry, Ana Boskovic, Oliver J. Rando, and Maria-Elena Torres-Padilla

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The Trypanosome Exocyst: A Conserved Structure Revealing a New Role in Endocytosis, Cordula M. Boehm, Samson Obado, Catarina Gadelha, Alexandra Kaupisch, Paul T. Manna, Gwyn W. Gould, Mary Munson, Brian T. Chait, Michael P. Rout, and Mark C. Field

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ATLAS: A database linking binding affinities with structures for wild-type and mutant TCR-pMHC complexes, Tyler M. Borrman, Jennifer M. Cimons, Michael Cosiano, Michael Purcaro, Brian G. Pierce, Brian M. Baker, and Zhiping Weng

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A systems level approach to temporal expression dynamics in Drosophila reveals clusters of long term memory genes, Julianna Bozler, Balint Z. Kacsoh, Hao Chen, William E. Theurkauf, Zhiping Weng, and Giovanni Bosco

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Synovial fibroblast-neutrophil interactions promote pathogenic adaptive immunity in rheumatoid arthritis, Carmelo Carmona-Rivera, Paul R. Thompson, and Mariana J. Kaplan

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Lowering relative humidity level increases epidermal protein deimination and drives human filaggrin breakdown, Laura Cau, Valerie Pendaries, Emeline Lhuillier, Paul R. Thompson, Guy Serre, Hidenari Takahara, Marie-Claire Mechin, and Michel Simon

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A common class of transcripts with 5'-intron depletion, distinct early coding sequence features, and N1-methyladenosine modification, Can Cenik, Hon Nian Chua, Guramrit Singh, Abdalla Akef, Michael P. Snyder, Alexander F. Palazzo, Melissa J. Moore, and Frederick P. Roth

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The Complex Role of Sequence and Structure in the Stability and Function of the TIM Barrel Proteins, Yvonne H. Chan

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Correlation of fitness landscapes from three orthologous TIM barrels originates from sequence and structure constraints, Yvonne H. Chan, Sergey V. Venev, Konstantin B. Zeldovich, and C. Robert Matthews

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Transcriptome-Wide Analysis of Roles for Transfer RNA Modifications in Translational Regulation, Hsin-Jung Chou

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A synthetic biology approach to probing nucleosome symmetry, , Caitlin M. Connolly, Hsin-Jung Chou, Yuanyuan Chen, Upasna Sharma, Hsuiyi V. Chen, Vineeta Bajaj, Daniel Na. Bolon, Oliver J. Rando, and Paul D. Kaufman

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The 4D nucleome project, Job Dekker, Andrew S. Belmont, Mitchell Guttman, Victor O. Leshyk, John T. Lis, Stavros Lomvardas, Leonid A. Mirny, Clodagh C. O'Shea, Peter J. Park, Bing Ren, Joan C. Ritland Politz, Jay Shendure, Sheng Zhong, and 4D Nucleome Network (Nature, 9-13-2017)

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Mechanism of ribosome rescue by ArfA and RF2, Gabriel Demo, Egor Svidritskiy, Rohini Madireddy, Ruben Diaz-Avalos, Timothy Grant, Nikolaus Grigorieff, Duncan Sousa, and Andrei A. Korostelev

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Bivalent Epigenetic Control of Oncofetal Gene Expression in Cancer, , Seth E. Frietze, Jonathan A. Gordon, Jessica L. Heath, Terri Messier, Deli Hong, Joseph R. Boyd, Mingu Kang, Anthony N. Imbalzano, Jane B. Lian, Janet L. Stein, and Gary S. Stein

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Exploring the Role of Large Clusters of Branched Aliphatic Residues on the Folding Free Energy Landscape of (βα)8 TIM Barrel Proteins, Kevin T. Halloran

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PGBD5 promotes site-specific oncogenic mutations in human tumors, Anton G. Henssen, Jiali Zhuang, Zhiping Weng, and Alex Kentsis

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The large terminase DNA packaging motor grips DNA with its ATPase domain for cleavage by the flexible nuclease domain, Brendan J. Hilbert, Janelle A. Hayes, Nicholas P. Stone, Rui-Gang Xu, and Brian A. Kelch

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Role of peptidylarginine deiminase 2 (PAD2) in mammary carcinoma cell migration, Sachi Horibata, Katherine E. Rogers, David Sadegh, Lynne J. Anguish, John L. McElwee, Pragya Shah, Paul R. Thompson, and Scott A. Coonrod

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Three-dimensional Folding of Eukaryotic Genomes, Tsung-Han S. Hsieh

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Discovering cis-Regulatory Motifs, Jui-Hung Hung and Zhiping Weng

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Identifying Regions Enriched in a ChIP-seq Data Set (Peak Finding), Jui-Hung Hung and Zhiping Weng

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Mapping Short Sequence Reads to a Reference Genome, Jui-Hung Hung and Zhiping Weng

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Motif Finding, Jui-Hung Hung and Zhiping Weng

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Global increase in replication fork speed during a p57KIP2-regulated erythroid cell fate switch, Yung Hwang, Melinda Futran, Daniel Hidalgo, Ramona Pop, Divya Ramalingam Iyer, Ralph Scully, Nicholas R. Rhind, and Merav Socolovsky

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Single-Molecule Studies of Replication Kinetics in Response to DNA Damage, Divya Ramalingam Iyer

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The Intra-S Checkpoint Responses to DNA Damage, Divya Ramalingam Iyer and Nicholas R. Rhind

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Diverse stimuli engage different neutrophil extracellular trap pathways, Elaine F. Kenny, Alf Herzig, Renate Krüger, Aaron Muth, Santanu Mondal, Paul R. Thompson, Volker Brinkmann, Horst Von Bernuth, and Arturo Zychlinsky

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The chemical evolution of oligonucleotide therapies of clinical utility, Anastasia Khvorova and Jonathan K. Watts

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Small methyltransferase RlmH assembles a composite active site to methylate a ribosomal pseudouridine, Cha San Koh, Rohini Madireddy, Timothy J. Beane, Phillip D. Zamore, and Andrei A. Korostelev

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Chloramidine/Bisindolylmaleimide-I-Mediated Inhibition of Exosome and Microvesicle Release and Enhanced Efficacy of Cancer Chemotherapy, Uchini S. Kosgodage, Rita P. Trindade, Paul R. Thompson, Jameel M. Inal, and Sigrun Lange

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Crystal structure of APOBEC3A bound to single-stranded DNA reveals structural basis for cytidine deamination and specificity, Takahide Kouno, Tania V. Silvas, Brendan J. Hilbert, Shivender Shandilya, Markus-Frederik Bohn, Brian A. Kelch, William E. Royer, Mohan Somasundaran, Nese Kurt Yilmaz, Hiroshi Matsuo, and Celia A. Schiffer

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The TREM2-APOE Pathway Drives the Transcriptional Phenotype of Dysfunctional Microglia in Neurodegenerative Diseases, Susanne Krasemann, Yang Xu, Zhiping Weng, Hao Chen, Vladimir Litvak, and Oleg Butovsky

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Polycomb Repressive Complex 1 Generates Discrete Compacted Domains that Change during Differentiation, Sharmistha Kundu, Fei Ji, Hongjae Sunwoo, Gaurav Jain, Jeannie T. Lee, Ruslan I. Sadreyev, Job Dekker, and Robert E. Kingston (Molecular cell, 2-2-2017)

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The Dkk3 gene encodes a vital intracellular regulator of cell proliferation, Jack L. Leonard, Deborah Marie Leonard, Scot A. Wolfe, Jilin Liu, Jaime A. Rivera-Perez, Michelle Yang, Ryan T. Leonard, Jacob P. S. Johnson, Prashant Kumar, Kate L. Liebmann, Amanda A. Tutto, Zhongming Mou, and Karl J. Simin

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Dengue Virus Hijacks a Noncanonical Oxidoreductase Function of a Cellular Oligosaccharyltransferase Complex, David L. Lin, Natalia A. Cherepanova, Leonia Bozzacco, Margaret R. MacDonald, Reid Gilmore, and Andrew W. Tai

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Dengue Virus NS2B/NS3 Protease Inhibitors Exploiting the Prime Side, Kuan-Hung Lin, Akbar Ali, Linah Rusere, Djade I. Soumana, Nese Kurt Yilmaz, and Celia A. Schiffer

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Nitric oxide prevents a pathogen-permissive granulocytic inflammation during tuberculosis, , Rustin R. Lovewell, Andrew J. Olive, Clare M. Smith, Jia Yao Phuah, Jarukit E. Long, Michelle L. Dubuke, Samantha G. Palace, Jon D. Goguen, Richard E. Baker, Subhalaxmi Nambi, Rabinarayan Mishra, Matthew G. Booty, Christina E. Baer, Scott A. Shaffer, Beth A. McCormick, and Christopher M. Sassetti

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Regulation of the FGF/ERK Signaling Pathway: Roles in Zebrafish Gametogenesis and Embryogenesis, Jennifer M. Maurer

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Shelterin components mediate genome reorganization in response to replication stress, Takeshi Mizuguchi, Nitika Taneja, Emiko Matsuda, Jon-Matthew Belton, Peter FitzGerald, Job Dekker, and Shiv I. Grewal S (Proceedings of the National Academy of Sciences of the United States of America, 5-23-2017)

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IRaPPA: information retrieval based integration of biophysical models for protein assembly selection, Iain H. Moal, Didier Barradas-Bautista, Brian Jimenez-Garcia, Mieczyslaw Torchala, Arjan van der Velde, Thom Vreven, Zhiping Weng, Paul A. Bates, and Juan Fernandez-Recio

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Genetic disruption of oncogenic Kras sensitizes lung cancer cells to Fas receptor-mediated apoptosis, Haiwei Mou, Jill Moore, Sunil K. Malonia, Yingxiang Li, Deniz M. Ozata, Soren Hough, Chun-Qing Song, Jordan L. Smith, Andrew H. Fischer, Zhiping Weng, Michael R. Green, and Wen Xue

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CRISPR/Cas9-mediated genome editing induces exon skipping by alternative splicing or exon deletion, Haiwei Mou, Jordan L. Smith, Lingtao Peng, Jill Moore, Xiao-Ou Zhang, Chun-Qing Song, Ankur Sheel, Deniz M. Ozata, Yingxiang Li, Charles P. Emerson Jr., Erik J. Sontheimer, Melissa J. Moore, Zhiping Weng, and Wen Xue

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Casein kinase 2-mediated phosphorylation of Brahma-related gene 1 controls myoblast proliferation and contributes to SWI/SNF complex composition, , Brian T. Nasipak, Amanda L. Paskavitz, Dominic T. Haokip, Jake M. Schnabl, Jeffrey A. Nickerson, and Anthony N. Imbalzano

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Surveillance for sulfadoxine-pyrimethamine resistant malaria parasites in the Lake and Southern Zones, Tanzania, using pooling and next-generation sequencing, Jeremiah M. Ngondi, Nicholas J. Hathaway, Jeffrey A. Bailey, and Julie Gutman

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Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization, Elphege P. Nora, Anton Goloborodko, Anne-Laure Valton, Johan H. Gibcus, Alec Uebersohn, Nezar Abdennur, Job Dekker, Leonid A. Mirny, and Benoit G. Bruneau (Cell, 5-18-2017)

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Temporal regulation of chromatin during myoblast differentiation, , Yasuyuki Ohkawa, and Anthony N. Imbalzano

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Reconciling contradictory findings: Glucose transporter 1 (GLUT1) functions as an oligomer of allosteric, alternating access transporters, , Ogooluwa A. Ojelabi, Julie K. De Zutter, and Anthony Carruthers

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Epigenetic characteristics of the mitotic chromosome in 1D and 3D, Marlies E. Oomen and Job Dekker (Critical reviews in biochemistry and molecular biology, 4-1-2017)

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The Combined Effect of Oseltamivir and Favipiravir on Influenza A Virus Evolution, Louise Ormond, Ping Liu, Sebastian Matuszewski, Nicholas Renzette, Claudia Bank, Konstantin B. Zeldovich, Daniel N. Bolon, Timothy F. Kowalik, Robert W. Finberg, Jeffrey D. Jensen, and Jennifer P. Wang

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Getting mRNA-Containing Ribonucleoprotein Granules Out of a Nuclear Back Door, Anup Parchure, Mary Munson, and Vivian Budnik

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Adaptive Evolution Leads to Cross-Species Incompatibility in the piRNA Transposon Silencing Machinery, Swapnil S. Parhad, Shikui Tu, Zhiping Weng, and William E. Theurkauf

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Interdependence of Inhibitor Recognition in HIV-1 Protease, Janet L. Paulsen, Florian Leidner, Debra A. Ragland, Nese Kurt Yilmaz, and Celia A. Schiffer

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Locked Nucleic Acid Gapmers and Conjugates Potently Silence ADAM33, an Asthma-Associated Metalloprotease with Nuclear-Localized mRNA, Hannah M. Pendergraff, Pranathi Meda Krishnamurthy, Alexandre J. Debacker, Michael P. Moazami, Vivek K. Sharma, Liisa Niitsoo, Yong Yu, Yen Nee Tan, Hans Michael Haitchi, and Jonathan K. Watts

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Structure-Based Design of Hepatitis C Virus Vaccines That Elicit Neutralizing Antibody Responses to a Conserved Epitope, Brian G. Pierce, Elisabeth N. Boucher, Kurt H. Piepenbrink, Ejemel Monir, Chelsea A. Rapp, William D. Thomas Jr., Eric J. Sundberg, Zhiping Weng, and Yan Wang

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Metabolic Inputs into the Epigenome, and Oliver J. Rando

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SMC complexes differentially compact mitotic chromosomes according to genomic context, Stephanie Andrea Schalbetter, Anton Goloborodko, Geoffrey Fudenberg, Jon-Matthew Belton, Catrina Miles, Miao Yu, Job Dekker, Leonid Mirny, and Jonathan Baxter (Nature cell biology, 9-1-2017)

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A novel homozygous VPS45 p.P468L mutation leading to severe congenital neutropenia with myelofibrosis, Rikin K. Shah, Mary Munson, Klaas J. Wierenga, Hanumantha R. Pokala, Peter E. Newburger, and David Crawford

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Atomistic structural ensemble refinement reveals non-native structure stabilizes a sub-millisecond folding intermediate of CheY, Jade Shi, R Paul. Nobrega, Christian Schwantes, Sagar V. Kathuria, Osman Bilsel, C. Robert Matthews, T J. Lane, and Vijay S. Pande

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Emerging Concepts in TCR Specificity: Rationalizing and (Maybe) Predicting Outcomes, Nishant K. Singh, Timothy P. Riley, Sarah Catherine B. Baker, Tyler M. Borrman, Zhiping Weng, and Brian M. Baker

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Genome-Wide CRISPR Screen Identifies Regulators of Mitogen-Activated Protein Kinase as Suppressors of Liver Tumors in Mice, Chun-Qing Song, Yingxiang Li, Haiwei Mou, Jill Moore, Angela I. Park, Soren Hough, Zachary Kennedy, Andrew H. Fischer, Darryl Conte Jr., Zhiping Weng, and Wen Xue

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PRIMA: a gene-centered, RNA-to-protein method for mapping RNA-protein interactions, Alex M. Tamburino, Ebru Kaymak, Shaleen Shrestha, Amy D. Holdorf, Sean P. Ryder, and Albertha J. M. Walhout (Translation (Austin, Tex.), 2-28-2017)

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Intergenerational Effects of Nicotine in an Animal Model of Paternal Nicotine Exposure, Markus Parzival Vallaster

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Paternal nicotine exposure alters hepatic xenobiotic metabolism in offspring, Markus P. Vallaster, Shweta Kukreja, Xin Y. Bing, Jennifer Ngolab, Rubing Zhao-Shea, Paul D. Gardner, Andrew R. Tapper, and Oliver J. Rando

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Performance of ZDOCK and IRAD in CAPRI rounds 28-34, Thom Vreven, Brian G. Pierce, Tyler M. Borrman, and Zhiping Weng

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Mammalian SWI/SNF Enzymes and the Epigenetics of Tumor Cell Metabolic Reprogramming, , Qiong Wu, and Anthony N. Imbalzano

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The BRG1 ATPase of human SWI/SNF chromatin remodeling enzymes as a driver of cancer, Qiong Wu, Jane B. Lian, Janet L. Stein, Gary S. Stein, Jeffrey A. Nickerson, and Anthony N. Imbalzano

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GUIDEseq: a bioconductor package to analyze GUIDE-Seq datasets for CRISPR-Cas nucleases, Lihua Julie Zhu, Michael Lawrence, Ankit Gupta, Herve Pages, Alper Kucukural, Manuel Garber, and Scot A. Wolfe

Publications from 2016

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Intergenerational Transfer of Epigenetic Information in Sperm

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Ensemble cryo-EM uncovers inchworm-like translocation of a viral IRES through the ribosome, Priyanka D. Abeyrathne, Cha San Koh, Timothy Grant, Nikolaus Grigorieff, and Andrei A. Korostelev

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Type I Interferon Induction by Neisseria gonorrhoeae: Dual Requirement of Cyclic GMP-AMP Synthase and Toll-like Receptor 4, Warrison A. Andrade, Sarika Agarwal, Shunyan Mo, Scott A. Shaffer, Joseph P. Dillard, Tobias Schmidt, Veit Hornung, Katherine A. Fitzgerald, Evelyn A. Kurt-Jones, and Douglas T. Golenbock

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A Long Noncoding RNA lincRNA-EPS Acts as a Transcriptional Brake to Restrain Inflammation, Maninjay K. Atianand, Emiliano P. Ricci, Ankit Bhatta, Stefan A. Schattgen, Jason D. McGowan, Juliana Blin, Joerg E. Braun, Pallavi Gandhi, Melissa J. Moore, Daniel R. Caffrey, and Katherine A. Fitzgerald

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RUNX1 contributes to higher-order chromatin organization and gene regulation in breast cancer cells, A. Rasim Barutcu, Deli Hong, Bryan R. Lajoie, Rachel Patton McCord, Andre J. van Wijnen, Jane B. Lian, Janet L. Stein, Job Dekker, Anthony N. Imbalzano, and Gary S. Stein (Biochimica et biophysica acta)

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SMARCA4 regulates gene expression and higher-order chromatin structure in proliferating mammary epithelial cells, A. Rasim Barutcu, Bryan R. Lajoie, Andrew J. Fritz, Rachel P. McCord, Jeffrey A. Nickerson, Andre J. van Wijnen, Jane B. Lian, Janet L. Stein, Job Dekker, Gary S. Stein, and Anthony N. Imbalzano (Genome research)

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Tumor necrosis factor alpha, citrullination, and peptidylarginine deiminase 4 in lung and joint inflammation, Mandar Bawadekar, Annette Gendron-Fitzpatrick, Ryan Rebernick, Daeun Shim, Thomas F. Warner, Anthony P. Nicholas, Lennart K. Lundblad A, Paul R. Thompson, and Miriam A. Shelef

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Local Genome Topology Can Exhibit an Incompletely Rewired 3D-Folding State during Somatic Cell Reprogramming, Jonathan A. Beagan, Thomas G. Gilgenast, Jesi Kim, Zachary Plona, Heidi K. Norton, Gui Hu, Sarah C. Hsu, Emily J. Shields, Xiaowen Lyu, Effie Apostolou, Konrad Hochedlinger, Victor G. Corces, Job Dekker, and Jennifer E. Phillips-Cremins (Cell stem cell, 5-5-2016)

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How structural adaptability exists alongside HLA-A2 bias in the human alphabeta TCR repertoire, Sydney J. Blevins, Brian G. Pierce, Nishant K. Singh, Timothy P. Riley, Yuan Wang, Timothy T. Spear, Michael I. Nishimura, Zhiping Weng, and Brian M. Baker

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Synthesis and Testing of Modular Dual-Modality Nanoparticles for Magnetic Resonance and Multispectral Photoacoustic Imaging, Alexei A. Bogdanov Jr., Adam J. Dixon, Suresh Gupta, Lejie Zhang, Shaokuan Zheng, Mohammed S. Shazeeb, Surong Zhang, and Alexander L. Klibanov

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A benchmark testing ground for integrating homology modeling and protein docking, Tanggis Bohnuud, Lingqi Luo, Shoshana J. Wodak, Alexandre M. J. J. Bonvin, Zhiping Weng, Sandor Vajda, Ora Schueler-Furman, and Dima Kozakov

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A molecular signature of preclinical rheumatoid arthritis triggered by dysregulated PTPN22, Hui-Hsin Chang, Paul R. Thompson, and I-Cheng Ho

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Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs, Jenny Chen, Alexander A. Shishkin, Xiaopeng Zhu, Sabah Kadri, Itay Maza, Mitchell Guttman, Jacob H. Hanna, Aviv Regev, and Manuel Garber

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HIV-1 RNA genome dimerizes on the plasma membrane in the presence of Gag protein, Jianbo Chen, Sheikh Abdul Rahman, Olga A. Nikolaitchik, David Grünwald, Luca Sardo, Ryan C. Burdick, Sergey Plisov, Edward Liang, Sheldon Tai, Vinay K. Pathak, and Wei-Shau Hu

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Detection and identification of protein citrullination in complex biological systems, Kathleen W. Clancy, Eranthie Weerapana, and Paul R. Thompson

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Mapping the 3D genome: Aiming for consilience, Job Dekker (Nature reviews. Molecular cell biology, 11-21-2016)

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The 3D Genome as Moderator of Chromosomal Communication, Job Dekker and Leonid A. Mirny (Cell, 3-10-2016)

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Peripartum neuroactive steroid and gamma-aminobutyric acid profiles in women at-risk for postpartum depression, Kristina M. Deligiannidis, Aimee R. Kroll-Desrosiers, Shunyan Mo, Hien P. Nguyen, Abby E. Svenson, Nina Jaitly, Janet E. Hall, Bruce A. Barton, Anthony J. Rothschild, and Scott A. Shaffer

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Characterizing the Disorder in Tristetraprolin and its Contribution to Post-Transcriptional Gene Regulation: A Dissertation, Laura M. Deveau

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The Secret Life of Tethers: The Role of Tethering Factors in SNARE Complex Regulation, Michelle L. Dubuke and Mary Munson

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Saturation Mutagenesis of the HIV-1 Envelope CD4 Binding Loop Reveals Residues Controlling Distinct Trimer Conformations, Maria J. Duenas-Decamp, Li Jiang, Daniel N. Bolon, and Paul R. Clapham

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Structural Mechanisms of the Sliding Clamp and Sliding Clamp Loader: Insights into Disease and Function: A Dissertation, Caroline M. Duffy

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A Disease-Causing Variant in PCNA Disrupts a Promiscuous Protein Binding Site, Caroline M. Duffy, Brendan J. Hilbert, and Brian A. Kelch

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Unexpected role of interferon-gamma in regulating neuronal connectivity and social behaviour, Anthony J. Filiano, Yang Xu, Nicholas J. Tustison, Rachel L. Marsh, Wendy Baker, Igor Smirnov, Christopher C. Overall, Sachin P. Gadani, Stephen D. Turner, Zhiping Weng, Sayeda Najamussaha Peerzade, Hao Chen, Kevin S. Lee, Michael M. Scott, Mark P. Beenhakker, Vladimir Litvak, and Jonathan Kipnis

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Micro-C XL: assaying chromosome conformation from the nucleosome to the entire genome, , Geoffrey Fudenberg, Anton Goloborodko, and Oliver J. Rando

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Activity-Based Profiling Reveals a Regulatory Link between Oxidative Stress and Protein Arginine Phosphorylation, Jakob Fuhrmann, Venkataraman Subramanian, Douglas J. Kojetin, and Paul R. Thompson

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Protein Arginine Methylation and Citrullination in Epigenetic Regulation, Jakob Fuhrmann and Paul R. Thompson

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Rapid Screening for CRISPR-Directed Editing of the Drosophila Genome Using white Coconversion, Daniel Tianfang Ge, Cindy Tipping, Michael H. Brodsky, and Phillip D. Zamore

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Citrullination-acetylation interplay guides E2F-1 activity during the inflammatory response, Fatemeh Ghari, Anne-Marie Quirke, Shonagh Munro, Joanna Kawalkowska, Sarah Picaud, Joanna McGouran, Venkataraman Subramanian, Aaron Muth, Richard Williams, Benedikt Kessler, Paul R. Thompson, Panagis Fillipakopoulos, Stefan Knapp, Patrick J. Venables, and Nicholas B. La Thangue

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Structural organization of the inactive X chromosome in the mouse, Luca Giorgetti, Bryan R. Lajoie, Ava C. Carter, Mikael Attia, Ye Zhan, Jin Xu, Chong Jian Chen, Noam Kaplan, Howard Y. Chang, Edith Heard, and Job Dekker (Nature, 7-18-2016)

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DNA methylation directs genomic localization of Mbd2 and Mbd3 in embryonic stem cells, Sarah J. Hainer, Kurtis N. McCannell, Jun Yu, Ly-Sha Ee, Lihua (Julie) Zhu, Oliver J. Rando, and Thomas G. Fazzio