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 2019

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A chromosome folding intermediate at the condensin-to-cohesin transition during telophase, Kristin Abramo, Anne-Laure Valton, Sergey V. Venev, Hakan Ozadam, A. Nicole Fox, and Job Dekker

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Naturally processed HLA-DR3-restricted HHV-6B peptides are recognized broadly with polyfunctional and cytotoxic CD4 T-cell responses, Aniuska Becerra Artiles, John Cruz, John D. Leszyk, John Sidney, Alessandro Sette, Scott A. Shaffer, and Lawrence J. Stern

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Mechanistic Basis for Control of Early Embryonic Development by a 5’ tRNA Fragment, Xin Y. Bing

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Constrained mutational sampling of amino acids in HIV-1 protease evolution, Jeffrey I. Boucher, Troy W. Whitfield, Ann Dauphin, Gily S. Nachum, Carl Hollins III, Konstantin B. Zeldovich, Ronald Swanstrom, Celia A. Schiffer, Jeremy Luban, and Daniel N. Bolon

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Nonnative structure in a peptide model of the unfolded state of SOD1: Implications for ALS-linked aggregation, Noah R. Cohen, Jill A. Zitzewitz, Osman Bilsel, and C. Robert Matthews

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Resting-state functional connectivity, cortical GABA, and neuroactive steroids in peripartum and peripartum depressed women: a functional magnetic resonance imaging and spectroscopy study, Kristina M. Deligiannidis, Christina L. Fales, Aimee Kroll-Desrosiers, Scott A. Shaffer, Vanessa Villamarin, Yanglan Tan, Janet E. Hall, Blaise B. Frederick, Elif M. Sikoglu, Richard A. Edden, Anthony J. Rothschild, and Constance M. Moore

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Rapid Irreversible Transcriptional Reprogramming in Human Stem Cells Accompanied by Discordance between Replication Timing and Chromatin Compartment, Vishnu Dileep, Rachel Patton McCord, Job Dekker, and David M. Gilbert

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TRAPPing a Rab GTPase by the Tail, Jianjun Duan and David G. Lambright

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Multimodal quantitative imaging of brain cancer in cultured cells, Xin Feng, Alona Muzikansky, Alonzo H. Ross, Michael R. Hamblin, Peter R. Jermain, and Anna N. Yaroslavsky

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Extensive Heterogeneity and Intrinsic Variation in Spatial Genome Organization, Elizabeth H. Finn, Gianluca Pegoraro, Hugo B. Brandao, Anne-Laure Valton, Marlies E. Oomen, Job Dekker, Leonid Mirny, and Tom Misteli (Cell, 2019-03-07)

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The non-canonical SMC protein SmcHD1 antagonises TAD formation and compartmentalisation on the inactive X chromosome, Michal R. Gdula, Tatyana B. Nesterova, Greta Pintacuda, Jonathan Godwin, Ye Zhan, Hakan Ozadam, Michael McClellan, Daniella Moralli, Felix Krueger, Catherine M. Green, Wolf Reik, Skirmantas Kriaucionis, Edith Heard, Job Dekker, and Neil Brockdorff

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The RNA-Binding ATPase, Armitage, Couples piRNA Amplification in Nuage to Phased piRNA Production on Mitochondria, Daniel Tianfang Ge, Wei Wang, Cindy Tipping, Ildar Gainetdinov, Zhiping Weng, and Phillip D. Zamore

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Epigenetic-genetic chromatin footprinting identifies novel and subject-specific genes active in prefrontal cortex neurons, Fedor E. Gusev, Anastasia P. Grigorenko, Elena Filippova, Zhiping Weng, Schahram Akbarian, and Evgeny I. Rogaev

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Transfer RNA Genes Affect Chromosome Structure and Function via Local Effects, Omar Hamdani, Tsung-Han S. Hsieh, Oliver J. Rando, and Rohinton T. Kamakaka

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Serum Deprivation of Mesenchymal Stem Cells Improves Exosome Activity and Alters Lipid and Protein Composition, Reka A. Haraszti, Rachael Miller, Michelle L. Dubuke, Andrew H. Coles, Marie C. Didiot, Dimas Echeverria, Matteo Stoppato, Yves Y. Sere, John D. Leszyk, Julia F. Alterman, Bruno M. D. C. Godinho, Matthew R. Hassler, Rachel Wollacott, Yan Wang, Scott A. Shaffer, Neil Aronin, and Anastasia Khvorova

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Molecular Determinants of Epistasis in HIV-1 Protease: Elucidating the Interdependence of L89V and L90M Mutations in Resistance, Mina Henes, Klajdi Kosovrasti, Gordon J. Lockbaum, Florian Leidner, Gily S. Nachum, Ellen A. Nalivaika, Daniel N. Bolon, Nese Kurt Yilmaz, Celia A. Schiffer, and Troy W. Whitfield

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Picomolar to Micromolar: Elucidating the Role of Distal Mutations in HIV-1 Protease in Conferring Drug Resistance, Mina Henes, Gordon J. Lockbaum, Klajdi Kosovrasti, Florian Leidner, Gily S. Nachum, Ellen A. Nalivaika, Sook-Kyung Lee, Ean Spielvogel, Shuntai Zhou, Ronald Swanstrom, Daniel N. Bolon, Nese Kurt Yilmaz, and Celia A. Schiffer

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NMR and MD studies combined to elucidate inhibitor and water interactions of HIV-1 protease and their modulations with resistance mutations, Rieko Ishima, Nese Kurt Yilmaz, and Celia A. Schiffer

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Precise therapeutic gene correction by a simple nuclease-induced double-stranded break, Sukanya Iyer, Sneha Suresh, Dongsheng Guo, Katelyn Daman, Jennifer C. J. Chen, Pengpeng Liu, Marina Zieger, Kevin Luk, Benjamin P. Roscoe, Christian Mueller, Oliver D. King, Charles P. Emerson Jr., and Scot A. Wolfe

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A permethrin metabolite is associated with adaptive immune responses in Gulf War Illness, Utsav Joshi, Lawrence J. Stern, and Laila Abdullah

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Selective inhibition of N-linked glycosylation impairs receptor tyrosine kinase processing, Elsenoor Klaver, Peng Zhao, Melanie May, Heather Flanagan-Steet, Hudson H. Freeze, Reid Gilmore, Lance Wells, Joseph Contessa, and Richard Steet

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DEBrowser: interactive differential expression analysis and visualization tool for count data, Alper Kucukural, Onur Yukselen, Deniz M. Ozata, Melissa J. Moore, and Manuel Garber

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Ste5 Membrane Localization Allows MAPK Pathway Signaling in trans Between Kinases on Separate Scaffold Molecules, Rachel E. Lamson, Matthew J. Winters, and Peter M. Pryciak

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Target-Specific Prediction of Ligand Affinity with Structure-Based Interaction Fingerprints, Florian Leidner, Nese Kurt Yilmaz, and Celia A. Schiffer

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Cutting Edge: Protein Arginine Deiminase 2 and 4 Regulate NLRP3 Inflammasome-Dependent IL-1β Maturation and ASC Speck Formation in Macrophages, Neha Mishra, Lidja Schwerdtner, Kelly Sams, Santanu Mondal, Fareed Ahmad, Reinhold E. Schmidt, Scott A. Coonrod, Paul R. Thompson, Markus M. Lerch, and Lukas Bossaller

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Halogen Bonding Increases the Potency and Isozyme-selectivity of Protein Arginine Deiminase 1 Inhibitors, Santanu Mondal, Xuefeng Gong, Xiaoqian Zhang, Ari J. Salinger, Li Zheng, Sudeshna Sen, Eranthie Weerapana, Xuesen Zhang, and Paul R. Thompson

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Thioredoxin Modulates Protein Arginine Deiminase 4 (PAD4)-Catalyzed Citrullination, Mitesh Nagar, Ronak Tilvawala, and Paul R. Thompson

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Extracellular-Signal Regulated Kinase: A Central Molecule Driving Epithelial-Mesenchymal Transition in Cancer, Monserrat Olea-Flores, Miriam Daniela Zuniga-Eulogio, Miguel Angel Mendoza-Catalan, Hugo Alberto Rodriguez-Ruiz, Eduardo Castaneda-Saucedo, Carlos Ortuno-Pineda, Teresita Padilla-Benavides, and Napoleon Navarro-Tito

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Leptin promotes expression of EMT-related transcription factors and invasion in a Src and FAK-dependent pathway in MCF10A mammary epithelial cells, Monserrat Olea-Flores, Miriam Zuñiga-Eulogio, Arvey Tacuba-Saavedra, Magdalena Bueno-Salgado, Andrea Sánchez-Carvajal, Yovani Vargas-Santiago, Miguel A. Mendoza-Catalán, Eduardo Pérez Salazar, Alejandra García-Hernández, Teresita Padilla-Benavides, and Napoleón Navarro-Tito

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CTCF sites display cell cycle-dependent dynamics in factor binding and nucleosome positioning, Marlies E. Oomen, Anders S. Hansen, Yu Liu, Xavier Darzacq, and Job Dekker (Genome research, 2019-02-01)

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Resistance outside the substrate envelope: hepatitis C NS3/4A protease inhibitors, Aysegul Ozen, Kristina L. Prachanronarong, Ashley N. Matthew, Djade I. Soumana, and Celia A. Schiffer

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Effective mismatch repair depends on timely control of PCNA retention on DNA by the Elg1 complex, Lovely Jael Paul Solomon Devakumar, Christl Gaubitz, Victoria Lundblad, Brian A. Kelch, and Takashi Kubota

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Enhanced Cas12a editing in mammalian cells and zebrafish, Pengpeng Liu, Kevin Luk, Masahiro Shin, Feston Idrizi, Samantha F. Kwok, Benjamin P. Roscoe, Esther Mintzer, Sneha Suresh, Kyle Morrison, Josias B. Frazao, Mehmet Fatih Bolukbasi, Karthikeyan Ponnienselvan, Jeremy Luban, Lihua Julie Zhu, Nathan D. Lawson, and Scot A. Wolfe

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Unfolded states under folding conditions accommodate sequence-specific conformational preferences with random coil-like dimensions, Ivan Peran, Alex S. Holehouse, Isaac S. Carrico, Rohit V. Pappu, Osman Bilsel, and Daniel P. Raleigh

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HIV-1 Protease Inhibitors Incorporating Stereochemically Defined P2' Ligands to Optimize Hydrogen Bonding in the Substrate Envelope, Linah N. Rusere, Gordon J. Lockbaum, Sook-Kyung Lee, Mina Henes, Klajdi Kosovrasti, Ean Spielvogel, Ellen A. Nalivaika, Ronald Swanstrom, Nese Kurt Yilmaz, Celia A. Schiffer, and Akbar Ali

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HLA Class II Antigen Processing and Presentation Pathway Components Demonstrated by Transcriptome and Protein Analyses of Islet beta-Cells From Donors With Type 1 Diabetes, Mark A. Russell, Sambra D. Redick, David Blodgett, Jenny Aurielle B. Babon, Chaoxing Yang, Sally C. Kent, Alan G. Derr, Alper Kucukural, Manuel Garber, and David M. Harlan

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Development of a Suicide Inhibition-Based Protein Labeling Strategy for Nicotinamide N-Methyltransferase, Sudeshna Sen, Santanu Mondal, Li Zheng, Ari J. Salinger, Walter Fast, Eranthie Weerapana, and Paul R. Thompson

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APOBEC3s: DNA-editing human cytidine deaminases, Tania V. Silvas and Celia A. Schiffer

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Structural and Biochemical Studies of Membrane Proteins CFTR and GLUT1 Yield New Insights into the Molecular Basis of Cystic Fibrosis and Biology of Glucose Transport, Kailene S. Simon

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Transient Kinetic Analysis of SWR1C-Catalyzed H2A.Z Deposition Unravels the Impact of Nucleosome Dynamics and the Asymmetry of Histone Exchange, Raushan K. Singh, Jiayi Fan, Nathan Gioacchini, Shinya Watanabe, Osman Bilsel, and Craig L. Peterson

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Mechanism for APOBEC3G catalytic exclusion of RNA and non-substrate DNA, William C. Solomon, Wazo Myint, Shurong Hou, Tapan Kanai, Rashmi Tripathi, Nese Kurt Yilmaz, Celia A. Schiffer, and Hiroshi Matsuo

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The TALE Factors and Nuclear Factor Y Cooperate to Drive Transcription at Zygotic Genome Activation, William J. Stanney III

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TALE and NF-Y co-occupancy marks enhancers of developmental control genes during zygotic genome activation in zebrafish, William J. Stanney III, Franck Ladam, Ian J. Donaldson, Teagan J. Parsons, Rene Maehr, Nicoletta Bobola, and Charles G. Sagerstrom

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Elucidating the structural mechanisms of capsid stability and assembly using a hyperthermophilic bacteriophage, Nicholas P. Stone

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Principles for enhancing virus capsid capacity and stability from a thermophilic virus capsid structure, Nicholas P. Stone, Gabriel Demo, Emily Agnello, and Brian A. Kelch

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MTF1, a classic metal sensing transcription factor, promotes myogenesis in response to copper, Cristina Tavera-Montañez, Sarah J. Hainer, Daniella Cangussu, Shellaina J. V. Gordon, Yao Xiao, Pablo Reyes-Gutierrez, Anthony N. Imbalzano, Juan G. Navea, Thomas G. Fazzio, and Teresita Padilla-Benavides

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Molecular and structural mechanism of pan-genotypic HCV NS3/4A protease inhibition by glecaprevir, Jennifer Timm, Klajdi Kosovrasti, Mina Henes, Florian Leidner, Shurong Hou, Akbar Ali, Nese Kurt Yilmaz, and Celia A. Schiffer

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Ouabain Enhances Cell-Cell Adhesion Mediated by beta1 Subunits of the Na(+),K(+)-ATPase in CHO Fibroblasts, Claudia Andrea Vilchis-Nestor, Maria Luisa Roldan, Angelina Leonardi, Juan G. Navea, Teresita Padilla-Benavides, and Liora Shoshani

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Computational investigation into the fluorescence of luciferin analogues, Thom Vreven and Stephen C. Miller

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Calcineurin broadly regulates the initiation of skeletal muscle-specific gene expression by binding target promoters and facilitating the interaction of the SWI/SNF chromatin remodeling enzyme, Hanna Witwicka, Jumpei Nogami, Sabriya A. Syed, Kazumitsu Maehara, Teresita Padilla-Benavides, Yasuyuki Ohkawa, and Anthony N. Imbalzano

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Measuring the reproducibility and quality of Hi-C data, Galip Gurkan Yardimci, Hakan Ozadam, Bryan R. Lajoie, Ye Zhan, Job Dekker, and William S. Noble

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Understanding the Role of Prdm12b in Zebrafish Development, Ozge Yildiz

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Zebrafish prdm12b acts independently of nkx6.1 repression to promote eng1b expression in the neural tube p1 domain, Ozge Yildiz, Gerald B. Downes, and Charles G. Sagerstrom

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Calcium Regulates the Nuclear Localization of Protein Arginine Deiminase 2, Li Zheng, Mitesh Nagar, Aaron J. Maurais, Daniel J. Slade, Sangram S. Parelkar, Scott A. Coonrod, Eranthie Weerapana, and Paul R. Thompson

Publications from 2018

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NmeCas9 is an intrinsically high-fidelity genome editing platform, Nadia Amrani, Xin D. Gao, Pengpeng Liu, Alireza Edraki, Aamir Mir, Raed Ibraheim, Ankit Gupta, Kanae E. Sasaki, Tong Wu, Thomas G. Fazzio, Lihua Julie Zhu, Scot A. Wolfe, and Erik J. Sontheimer

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NmeCas9 is an intrinsically high-fidelity genome-editing platform, Nadia Amrani, Xin D. Gao, Pengpeng Liu, Alireza Edraki, Aamir Mir, Raed Ibraheim, Ankit Gupta, Kanae E. Sasaki, Tong Wu, Thomas G. Fazzio, Lihua Julie Zhu, Scot A. Wolfe, and Erik J. Sontheimer

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Do Skeletal Dynamics Mediate Sugar Uptake and Transport in Human Erythrocytes, Robert J. Asaro, Qiang Zhu, Pedro Cabrales, and Anthony Carruthers

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Evaluation of a method to measure HHV-6B infection in vitro based on cell size, Aniuska Becerra, Tessa Santoro, and Lawrence J. Stern

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Assembly of human C-terminal binding protein (CtBP) into tetramers, Andrew G. Bellesis, Anne M. Jecrois, Janelle A. Hayes, Celia A. Schiffer, and William E. Royer

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Orthogonal Cas9-Cas9 chimeras provide a versatile platform for genome editing, Mehmet F. Bolukbasi, Pengpeng Liu, Kevin Luk, Samantha F. Kwok, Ankit Gupta, Nadia Amrani, Erik J. Sontheimer, Lihua Julie Zhu, and Scot A. Wolfe

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Analysis of the Human Mucosal Response to Cholera Reveals Sustained Activation of Innate Immune Signaling Pathways, Daniel L. Bourque, Diane P. Genereux, Elinor K. Karlsson, Firdausi Qadri, and Jason B. Harris

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Ajulemic acid: potential treatment for chronic inflammation, Sumner Burstein

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Synonymous Mutations at the Beginning of the Influenza A Virus Hemagglutinin Gene Impact Experimental Fitness, Aneth S. Canale, Sergey V. Venev, Troy W. Whitfield, Daniel R. Caffrey, Wayne A. Marasco, Celia A. Schiffer, Timothy F. Kowalik, Jeffrey D. Jensen, Robert W. Finberg, Konstantin B. Zeldovich, Jennifer P. Wang, and Daniel N. Bolon

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Maelstrom Represses Canonical Polymerase II Transcription within Bi-directional piRNA Clusters in Drosophila melanogaster, Timothy Chang, Eugenio Mattei, Ildar Gainetdinov, Cansu Colpan, Zhiping Weng, and Phillip D. Zamore

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Effects of Larval Density on Gene Regulation in Caenorhabditis elegans During Routine L1 Synchronization, Io Long Chan, Oliver J. Rando, and Colin C. Conine

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Transcriptome-wide Interrogation of the Functional Intronome by Spliceosome Profiling, Weijun Chen, Jill E. Moore, Hakan Ozadam, Hennady P. Shulha, Nicholas Rhind, Zhiping Weng, and Melissa J. Moore

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Illuminating Biology with Membrane Penetrating Sulfonate Delivery Scaffolds and Near-Infrared Azasiline Fluorophores, Adam Choi

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Small RNAs gained during epididymal transit of sperm are essential for embryonic development in mice, Colin C. Conine, Fengyun Sun, Lina Song, Jaime A. Rivera-Perez, and Oliver J. Rando

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Small RNAs Gained during Epididymal Transit of Sperm Are Essential for Embryonic Development in Mice, Colin C. Conine, Fengyun Sun, Lina Song, Jaime A. Rivera-Perez, and Oliver J. Rando

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Immunocontraceptive target repertoire defined by systematic identification of sperm membrane alloantigens in a single species, Nathaly Cormier, John J. McGlone, John D. Leszyk, and Daniel M. Hardy

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The TRIM-NHL protein NHL-2 is a co-factor in the nuclear and somatic RNAi pathways in C. elegans, Gregory M. Davis, Shikui Tu, Jacqueline A. Wilce, Julie M. Claycomb, Zhiping Weng, and Peter R. Boag

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Histone citrullination represses miRNA expression resulting in increased oncogene mRNAs in somatolactotrope cells., Stanley B DeVore, Coleman H. Young, Guangyuan Li, Anitha Sundararajan, Thiruvarangan Ramaraj, Joann Mudge, Faye Schilkey, Aaron Muth, Paul R. Thompson, and Brian D. Cherrington

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Nuclear Export Through Nuclear Envelope Remodeling in Saccharomyces cerevisiae, Baojin Ding, Anne M. Mirza, James A. Ashley, Vivian Budnik, and Mary Munson

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Integrative detection and analysis of structural variation in cancer genomes, Jesse R. Dixon, Ye Zhan, Hakan Ozadam, Bryan R. Lajoie, Ferhat Ay, William Stafford Noble, Job Dekker, David M. Gilbert, and Feng Yue (Nature genetics, 2018-10)

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ETV4 transcription factor and MMP13 metalloprotease are interplaying actors of breast tumorigenesis, Mandy Dumortier, Franck Ladam, Isabelle Damour, Sophie Vacher, Ivan Bieche, Nathalie Marchand, Yvan de Launoit, David Tulasne, and Anne Chotteau-Lelievre

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Role of TRIP6 and Angiomotins in the Regulation of the Hippo Signaling Pathway, Shubham Dutta

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Heterochromatin drives organization of conventional and inverted nuclei, Martin Falk; Yana Feodorova; Natasha Naumova; Massachusetts Institute of Technology; Illumina Incorporated; Heinrich Leonhardt; Ludwig Maximilians Universitat, Munchen; Job Dekker; University of California, San Francisco; Ludwig Maximilians Universitat, Munchen; and Massachusetts Institute of Technology

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

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Differential analysis of chromatin accessibility and histone modifications for predicting mouse developmental enhancers, Shaliu Fu, Qin Wang, Jill E. Moore, Michael J. Purcaro, Henry E. Pratt, Kaili Fan, Cuihua Gu, Cizhong Jiang, Ruixin Zhu, Anshul Kundaje, Aiping Lu, and Zhiping Weng

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Elimination of PCR duplicates in RNA-seq and small RNA-seq using unique molecular identifiers, Yu Fu, Pei-Hsuan Wu, Timothy J. Beane, Phillip D. Zamore, and Zhiping Weng

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Elimination of PCR duplicates in RNA-seq and small RNA-seq using unique molecular identifiers, Yu Fu, Pei-Hsuan Wu, Timothy J. Beane, Phillip D. Zamore, and Zhiping Weng

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The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology, Yu Fu, Yujing Yang, Han Zhang, Gwen Farley, Junling Wang, Kaycee A. Quarles, Zhiping Weng, and Phillip D. Zamore

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C-BERST: Defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2, Xin D. Gao, Li-Chun Tu, Aamir Mir, Tomas Rodriguez, Yue-He Ding, John D. Leszyk, Job Dekker, Scott A. Shaffer, Lihua Julie Zhu, Scot A. Wolfe, and Erik J. Sontheimer

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C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2, Xin D. Gao, Li-Chun Tu, Aamir Mir, Tomas Rodriguez, Yue-He Ding, John D. Leszyk, Job Dekker, Scott A. Shaffer, Lihua Julie Zhu, Scot A. Wolfe, and Erik J. Sontheimer (Nature methods, 2018-05-07)

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Investigating the Gene Regulatory Network Underlying Caudal Hindbrain Specification in Embryonic Zebrafish, Priyanjali Ghosh

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Analysis of novel caudal hindbrain genes reveals different regulatory logic for gene expression in rhombomere 4 versus 5/6 in embryonic zebrafish, Priyanjali Ghosh, Jennifer M. Maurer, and Charles G. Sagerstrom

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A pathway for mitotic chromosome formation, Johan H. Gibcus, Kumiko Samejima, Anton Goloborodko, Itaru Samejima, Natalia Naumova, Johannes Nuebler, Masato T. Kanemaki, Linfeng Xie, James R. Paulson, William C. Earnshaw, Leonid A. Mirny, and Job Dekker (Science (New York, N.Y.), 2018-02-09)

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Cell-specific histone modification maps in the human frontal lobe link schizophrenia risk to the neuronal epigenome, Kiran Girdhar, Gabriel E. Hoffman, Yan Jiang, Leanne Brown, Marija Kundakovic, Mads E. Hauberg, Nancy J. Francoeur, Ying-Chih Wang, Hardik Shah, David H. Kavanagh, Elizabeth Zharovsky, Rivka Jacobov, Jennifer R. Wiseman, Royce Park, Jessica S. Johnson, Bibi S. Kassim, Laura Sloofman, Eugenio Mattei, Zhiping Weng, Solveig K. Sieberts, Mette A. Peters, Brent T. Harris, Barbara K. Lipska, Pamela Sklar, Panos Roussos, and Schahram Akbarian

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America's lost dogs, Linda Goodman and Elinor K. Karlsson

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Manganese influx and expression of ZIP8 is essential in primary myoblasts and contributes to activation of SOD2, Shellaina J. V. Gordon, Daniel E. Fenker, Katherine E. Vest, and Teresita Padilla-Benavides

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Optical Temperature Sensing With Infrared Excited Upconversion Nanoparticles, Kory Green, Kai Huang, Hai Pan, Gang Han, and Shuang Fang Lim

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Profiling of pluripotency factors in individual stem cells and early embryos, Sarah J. Hainer, Ana Boskovic, Oliver J. Rando, and Thomas G. Fazzio

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Structural analysis of the active site and DNA binding of human cytidine deaminase APOBEC3B, Shurong Hou, Tania V. Silvas, Florian Leidner, Ellen A. Nalivaika, Hiroshi Matsuo, Nese Kurt Yilmaz, and Celia A. Schiffer

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Two-dimensional transition metal carbides and nitrides (MXenes) for biomedical applications, Kai Huang, Zhongjun Li, Jing Lin, Gang Han, and Peng Huang

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Oligonucleotides targeting TCF4 triplet repeat expansion inhibit RNA foci and mis-splicing in Fuchs' dystrophy, Jiaxin Hu, Ziye Rong, Xin Gong, Zhengyang Zhou, Vivek K. Sharma, Chao Xing, Jonathan K. Watts, David R. Corey, and V. Vinod Mootha

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Computer design of microfluidic mixers for protein/RNA folding studies, Venkatesh Inguva, Sagar V. Kathuria, Osman Bilsel, and Blair James Perot

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A call to arms: Unifying the fight against resistance, Alexis Kaushansky, Lizbeth Hedstrom, Aaron Goldman, Juswinder Singh, Priscilla L. Yang, Pradipsinh K. Rathod, Michael Cynamon, Dominik Wodarz, Daruka Mahadevan, Andrew Tomaras, Manuel A. Navia, and Celia A. Schiffer

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Probing Structural Changes among Analogous Inhibitor-Bound Forms of HIV-1 Protease and a Drug-Resistant Mutant in Solution by Nuclear Magnetic Resonance, Shahid N. Khan, John D. Persons, Janet L. Paulsen, Michel Guerrero, Celia A. Schiffer, Nese Kurt Yilmaz, and Rieko Ishima

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3C-Based Chromatin Interaction Analyses, Tae Hoon Kim and Job Dekker (Cold Spring Harbor protocols, 2018-09-04)

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4C Analysis of 3C, ChIP-Loop, and Control Libraries, Tae Hoon Kim and Job Dekker (Cold Spring Harbor protocols, 2018-09-04)