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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Dissertations and Theses from 2012

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Hepatitis C Virus Non-Structural Protein 3/4A: A Tale of Two Domains: A Dissertation, Cihan Aydin

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Hi-C: A comprehensive technique to capture the conformation of genomes, Jon-Matthew Belton, Rachel Patton McCord, Johan H. Gibcus, Natalia Naumova, Ye Zhan, and Job Dekker

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D-amino acid based protein arginine deiminase inhibitors: Synthesis, pharmacokinetics, and in cellulo efficacy., Kevin L. Bicker, Lynne Anguish, Alexander A. Chumanevich, Michael D. Cameron, Xiangli Cui, Erin E. Witalison, Venkataraman Subramanian, Xuesen Zhang, Alena P. Chumanevich, Lorne J. Hofseth, Scott A. Coonrod, and Paul R. Thompson

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Seeing citrulline: development of a phenylglyoxal-based probe to visualize protein citrullination., Kevin L. Bicker, Venkataraman Subramanian, Alexander A. Chumanevich, Lorne J. Hofseth, and Paul R. Thompson

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Decomposing the energetic impact of drug-resistant mutations: the example of HIV-1 protease-DRV binding, Yufeng Cai and Celia A. Schiffer

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Methyl- and Normal-Cytosine Deamination by the Foreign DNA Restriction Enzyme APOBEC3A, Michael A. Carpenter, Ming Li, Anurag Rathore, Lela Lackey, Emily R. Law, Allison M. Land, Brandon Leonard, Shivender M. D. Shandilya, Markus-Frederik Bohn, Celia A. Schiffer, William L. Brown, and Reuben S. Harris

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Understanding Small RNA Formation in Drosophila Melanogaster: A Dissertation, Elif Sarinay Cenik

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Understanding transcriptional regulation by integrative analysis of transcription factor binding data, Chao Cheng, Roger Alexander, Rengqiang Min, Jing Leng, Kevin Y. Yip, Joel Rozowsky, Koon-Kiu Yan, Xianjun Dong, Sarah Djebali, Yijun Ruan, Carrie A. Davis, Piero Carninci, Timo Lassman, Thomas R. Gingeras, Roderic Guigo, Ewan Birney, Zhiping Weng, Michael Snyder, and Mark B. Gerstein

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(alpha-NaYbF4:Tm(3+))/CaF2 core/shell nanoparticles with efficient near-infrared to near-infrared upconversion for high-contrast deep tissue bioimaging, Guanying Chen, Jie Shen, Tymish Y. Ohulchansky, Nayan J. Patel, Artem Kutikov, Zhipeng Li, Jie Song, Ravindra K. Pandey, Hans Agren, Paras N. Prasad, and Gang Han

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Recognition models to predict DNA-binding specificities of homeodomain proteins, Ryan G. Christensen, Metewo Selase Enuameh, Marcus Blaine Noyes, Michael H. Brodsky, Scot A. Wolfe, and Gary D. Stormo

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Exploring the DNA-recognition potential of homeodomains, Stephanie W. Chu, Marcus Blaine Noyes, Ryan G. Christensen, Brian G. Pierce, Lihua Julie Zhu, Zhiping Weng, Gary D. Stormo, and Scot A. Wolfe

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CTCF and cohesin help neurons raise their self-awareness, Job Dekker

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3C-based technologies to study the shape of the genome, Wouter de Laat and Job Dekker

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Evidence for transcript networks composed of chimeric RNAs in human cells, Sarah Djebali, Julien Lagarde, Philipp Kapranov, Vincent Lacroix, Christelle Borel, Jonathan M. Mudge, Cedric Howald, Sylvain Foissac, Catherine Ucla, Jacqueline Chrast, Paolo Ribeca, David Marin, Ryan R. Murray, Xinping Yang, Lila Ghamasari, Chenwei Lin, Ian Bell, Erica Dumais, Jorg Drenkow, Michael L. Tress, Josep Lluis Gelpi, Modesto Orozco, Alfonso Valencia, Nynke L. van Berkum, Bryan R. Lajoie, Marc Vidal, John A. Stamatoyannopoulos, Philippe Batut, Alex Dobin, Jennifer Harrow, Tim Hubbard, Job Dekker, Adam Frankish, Kourosh Salehi-Ashtiani, Alexandre Reymond, Stylianos E. Antonarakis, Roderic Guigo, and Thomas R. Gingeras

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Modeling gene expression using chromatin features in various cellular contexts, Xianjun Dong, Melissa C. Greven, Anshul Kundaje, Sarah Djebali, James B. Brown, Chao Cheng, Thomas R. Gingeras, Mark B. Gerstein, Roderic Guigo, Ewan Birney, and Zhiping Weng

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Felty's syndrome autoantibodies bind to deiminated histones and neutrophil extracellular chromatin traps., Nishant Dwivedi, Jagriti Upadhyay, Indira Neeli, Salar Khan, Debendra Pattanaik, Linda Myers, Kyriakos A. Kirou, Bernhard Hellmich, Bryan Knuckley, Paul R. Thompson, Mary K. Crow, Ted R. Mikuls, Elena Csernok, and Marko Radic

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Human protein N-terminal acetyltransferase hNaa50p (hNAT5/hSAN) follows ordered sequential catalytic mechanism: combined kinetic and NMR study., Rune H. Evjenth, Annette K. Brenner, Paul R. Thompson, Thomas Arnesen, Nils Age Froystein, and Johan R. Lillehaug

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Sequence and Target Specificity of the C. elegans Cell Fate Specification Factor POS-1: A Dissertation, Brian M. Farley

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POS-1 and GLD-1 repress glp-1 translation through a conserved binding-site cluster, Brian M. Farley and Sean P. Ryder

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NURDs are required for diversity, Thomas G. Fazzio and Oliver J. Rando

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Genome architecture and expression, Gary Felsenfeld and Job Dekker

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From cells to chromatin: Capturing snapshots of genome organization with 5C technology, Maria A. Ferraiuolo, Amartya Sanyal, Natalia Naumova, Job Dekker, and Josee Dostie

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Dicer partner proteins tune the length of mature miRNAs in flies and mammals, Ryuya Fukunaga, Bo W. Han, Jui-Hung Hung, Jia Xu, Zhiping Weng, and Phillip D. Zamore

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The Acid-Sensitive, Anesthetic-Activated Potassium Leak Channel, KCNK3, Is Regulated By 14-3-3beta-Dependent, PKC-Mediated Endocytic Trafficking, Luke Gabriel, Anatoli Lvov, Demetra Orthodoxou, Ann R. Rittenhouse, William R. Kobertz, and Haley E. Melikian

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Multiscale dynamics in nucleocytoplasmic transport, David Grunwald and Robert H. Singer

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Getting a Tight Grip on DNA: Optimizing Zinc Fingers for Efficient ZFN-Mediated Gene Editing: A Dissertation, Ankit Gupta

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An optimized two-finger archive for ZFN-mediated gene targeting, Ankit Gupta, Amy L. Rayla, Abirami Lakshmanan, Scot A. Wolfe, Ryan G. Christensen, and Gary D. Stormo

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Cutting edge: Evidence for a dynamically driven T cell signaling mechanism, William F. Hawse, Matthew M. Champion, Michelle V. Joyce, Lance M. Hellman, Moushumi Hossain, Veronica Ryan, Brian G. Pierce, Zhiping Weng, and Brian M. Baker

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Fitness analyses of all possible point mutations for regions of genes in yeast, Ryan T. Hietpas, Benjamin P. Roscoe, Li Jiang, and Daniel N. A. Bolon

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Unsupervised pattern discovery in human chromatin structure through genomic segmentation, Michael M. Hoffman, Orion J. Buske, Jie Wang, Zhiping Weng, Jeff A. Bilmes, and William Stafford Noble

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Gene set enrichment analysis: performance evaluation and usage guidelines, Jui-Hung Hung, Tun-Hsiang Yang, Zhenjun Hu, Zhiping Weng, and Charles Delisi

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Iterative correction of Hi-C data reveals hallmarks of chromosome organization, Maxim Imakaev, Geoffrey Fudenberg, Rachel Patton McCord, Natalia Naumova, Anton Goloborodko, Bryan R. Lajoie, Job Dekker, and Leonid A. Mirny

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Synthesis and screening of a haloacetamidine containing library to identify PAD4 selective inhibitors., Justin E. Jones, Jessica L. Slack, Pengfei Fang, Xuesen Zhang, Venkataraman Subramanian, Corey P. Causey, Scott A. Coonrod, Min Guo, and Paul R. Thompson

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Potential role for PADI-mediated histone citrullination in preimplantation development., Rui Kan, Mei Jin, Venkataraman Subramanian, Corey P. Causey, Paul R. Thompson, and Scott A. Coonrod

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Long-term correction of very long-chain acyl-coA dehydrogenase deficiency in mice using AAV9 gene therapy, Allison M. Keeler, Thomas J. Conlon, Glenn Walter, Huadong Zeng, Scott A. Shaffer, Fu Dungtao, Kirsten E. Erger, Travis L. Cossette, Qiushi Tang, Christian Mueller, and Terence R. Flotte

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Extreme Entropy-Enthalpy Compensation in a Drug-Resistant Variant of HIV-1 Protease, Nancy M. King, Moses Prabu-Jeyabalan, Rajintha M. Bandaranayake, Madhavi N. L. Nalam, Ellen A. Nalivaika, Aysegul Ozen, Turkan Haliloglu, Nese Kurt Yilmaz, and Celia A. Schiffer

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Mechanism of evenness interrupted (evi)-exosome release at synaptic boutons, Kate Koles, John J. Nunnari, Ceren Korkut, Romina Barria, Cassandra Brewer, Yihang Li, John D. Leszyk, Bing Zhang, and Vivian Budnik

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Protein Ligand Interactions Probed by NMR: A Dissertation, Jennifer M. Laine

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Context surrounding processing sites is crucial in determining cleavage rate of a subset of processing sites in HIV-1 Gag and Gag-Pro-Pol polyprotein precursors by viral protease, Sook-Kyung Lee, Marc Potempa, Madhavi Kolli, Aysegul Ozen, Celia A. Schiffer, and Ronald I. Swanstrom

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Probing adenylation: using a fluorescently labelled ATP probe to directly label and immunoprecipitate VopS substrates., Daniel M. Lewallen, Caitlin J. Steckler, Bryan Knuckley, Michael J. Chalmers, and Paul R. Thompson

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First-in-class small molecule inhibitors of the single-strand DNA cytosine deaminase APOBEC3G, Ming Li, Shivender Shandilya, Michael A. Carpenter, Anurag Rathore, William L. Brown, Angela L. Perkins, Daniel A. Harki, Jonathan Solberg, Derek J. Hook, Krishan K. Pandey, Michael A. Parniak, Jeffrey R. Johnson, Nevan J. Krogan, Mohan Somasundaran, Akbar Ali, Celia A. Schiffer, and Reuben S. Harris

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Dissecting Somatic Cell Reprogramming by MicroRNAs and Small Molecules: A Dissertation, Zhonghan Li

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Identification of PADI2 as a potential breast cancer biomarker and therapeutic target., John L. McElwee, Sunish Mohanan, Obi L. Griffith, Heike C. Breuer, Lynne J. Anguish, Brian D. Cherrington, Ashley M. Palmer, Louise R. Howe, Venkataraman Subramanian, Corey P. Causey, Paul R. Thompson, Joe W. Gray, and Scott A. Coonrod

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Characterization of New Factors in the 18S Nonfunctional Ribosomal RNA Decay Pathway in S. cerevisiae: A Dissertation, Christopher N. Merrikh

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Hydrophobic core flexibility modulates enzyme activity in HIV-1 protease, Seema Mittal, Yufeng Cai, Madhavi N. L. Nalam, Daniel N. A. Bolon, and Celia A. Schiffer

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Citrullination of proteins: a common post-translational modification pathway induced by different nanoparticles in vitro and in vivo., Bashir M. Mohamed, Navin K. Verma, Anthony M. Davies, Aoife McGowan, Kieran Crosbie-Staunton, Adriele Prina-Mello, Dermot Kelleher, Catherine H. Botting, Corey P. Causey, Paul R. Thompson, Ger Jm Pruijn, Elena R. Kisin, Alexey V. Tkach, Anna A. Shvedova, and Yuri Volkov

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Potential role of peptidylarginine deiminase enzymes and protein citrullination in cancer pathogenesis., Sunish Mohanan, Brian D. Cherrington, Sachi Horibata, John L. McElwee, Paul R. Thompson, and Scott A. Coonrod

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MORC family ATPases required for heterochromatin condensation and gene silencing, Guillaume Moissiard, Shawn J. Cokus, Joshua Cary, Suhua Feng, Allison C. Billi, Hume Stroud, Dylan Husmann, Ye Zhan, Bryan R. Lajoie, Rachel Patton McCord, Christopher J. Hale, Wei Feng, Scott D. Michaels, Alison R. Frand, Matteo Pellegrini, Job Dekker, John K. Kim, and Steven E. Jacobsen

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Angiogenic biomarkers for prediction of maternal and neonatal complications in suspected preeclampsia., Andreea G. Moore, Heather Young, Jennifer M. Keller, Linda R. Ojo, Jing Yan, Tiffany A. Moore Simas, and Sharon E. Maynard

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Mid-gestation Angiogenic Biomarker Levels are Increased in Women at High Risk for Preeclampsia, Tiffany A. Moore Simas, Sybil L. Crawford, Susie Bathgate, Jing Yang, Laura Robidoux, Melissa J. Moore, and Sharon E. Maynard

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Small Molecule Investigation of KCNQ Potassium Channels: A Dissertation, Karen Mruk

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Structural insights into neuronal K+ channel-calmodulin complexes, Karen Mruk, Shivender Shandilya, Robert O. Blaustein, Celia A. Schiffer, and William R. Kobertz

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Sustained miRNA-mediated Knockdown of Mutant AAT With Simultaneous Augmentation of Wild-type AAT Has Minimal Effect on Global Liver miRNA Profiles, Christian Mueller, Qiushi Tang, Alisha Gruntman, Keith S. Blomenkamp, Jeffrey H. Teckman, Lina Song, Phillip D. Zamore, and Terence R. Flotte

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Quantitative comparison of errors in 15N transverse relaxation rates measured using various CPMG phasing schemes, Wazo Myint, Yufeng Cai, Celia A. Schiffer, and Rieko Ishima

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Human CD4+ T cell response to human herpesvirus 6, Maria-Dorothea Nastke, Aniuska Becerra, Liusong Yin, Omar Dominguez-Amorocho, Laura L. Gibson, Lawrence J. Stern, and J. Mauricio Calvo-Calle

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Analysis of long-range chromatin interactions using Chromosome Conformation Capture, Natalia Naumova, Emily M. Smith, Ye Zhan, and Job Dekker

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Spatial partitioning of the regulatory landscape of the X-inactivation centre, Elphege P. Nora, Bryan R. Lajoie, Edda G. Schulz, Luca Giorgetti, Ikuhiro Okamoto, Nicolas Servant, Tristan Piolot, Nynke L. van Berkum, Johannes Meisig, John Sedat, Joost Gribnau, Emmanuel Barillot, Nils Bluthgen, Job Dekker, and Edith Heard

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Kinetic mechanism of protein arginine methyltransferase 6 (PRMT6)., Obiamaka Obianyo and Paul R. Thompson

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Serine/threonine acetylation of TGFbeta-activated kinase (TAK1) by Yersinia pestis YopJ inhibits innate immune signaling, Nicholas Paul Paquette, Joseph E. Conlon, Charles R. Sweet, Florentina Rus, Lindsay Wilson, Andrea J. Pereira, Charles V. Rosadini, Nadege Goutagny, Alexander N. R. Weber, William S. Lane, Scott A. Shaffer, Stephanie Maniatis, Katherine A. Fitzgerald, Lynda M. Stuart, and Neal S. Silverman

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Design, synthesis, and biological and structural evaluations of novel HIV-1 protease inhibitors to combat drug resistance, Maloy Kumar Parai, David J. Huggins, Hong Cao, Madhavi N. L. Nalam, Akbar Ali, Celia A. Schiffer, Bruce Tidor, and Tariq M. Rana

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A key role for chd1 in histone h3 dynamics at the 3' ends of long genes in yeast, Marta Radman-Livaja, Tiffani K. Quan, Lourdes Valenzuela, Jennifer A. Armstrong, Tibor van Welsem, Tae Soo Kim, Laura J. Lee, Stephen Buratowski, Fred van Leeuwen, Oliver J. Rando, and Grant A. Hartzog

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Immune responses in cystic fibrosis: are they intrinsically defective?, Dmitry Ratner and Christian Mueller

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Activation of PAD4 in NET formation, Amanda S. Rohrbach, Daniel J. Slade, Paul R. Thompson, and Kerri A. Mowen

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The Molecular Basis of Drug Resistance against Hepatitis C Virus NS3/4A Protease Inhibitors, Keith P. Romano, Akbar Ali, Cihan Aydin, Djade Soumana, Aysegul Ozen, Laura M. Deveau, Casey Silver, Hong Cao, Alicia Newton, Christos J. Petropoulos, Wei Huang, and Celia A. Schiffer

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HERV-H RNA is abundant in human embryonic stem cells and a precise marker for pluripotency, Federico A. Santoni, Jessica Guerra, and Jeremy Luban

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The long-range interaction landscape of gene promoters, Amartya Sanyal, Bryan R. Lajoie, Gaurav Jain, and Job Dekker

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Studies on Cellular Host Factors Involved in the HIV-1 Life Cycle: A Dissertation, Anna Kristina Serquiña

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Epigenetic signatures of autism: trimethylated H3K4 landscapes in prefrontal neurons, Hennady P. Shulha, Iris Cheung, Catheryne Whittle, Jie Wang, Daniel Virgil, Cong L. Lin, Yin Guo, Andree Lessard, Schahram Akbarian, and Zhiping Weng

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Nuclear pore component Nup98 is a potential tumor suppressor and regulates posttranscriptional expression of select p53 target genes, Stephan Singer, Ruiying Zhao, Anthony M. Barsotti, Anette Ouwehand, Mina Fazollahi, Elias Coutavas, Kai Breuhahn, Olaf Neumann, Thomas Longerich, Tobias Pusterla, Maureen A. Powers, Keith M. Giles, Peter J. Leedman, Jochen Hess, David Grunwald, Harmen J. Bussemaker, Robert H. Singer, Peter Schirmacher, and Carol Prives

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The cellular EJC interactome reveals higher-order mRNP structure and an EJC-SR protein nexus, Guramrit Singh, Alper Kucukural, Can Cenik, John D. Leszyk, Scott A. Shaffer, Zhiping Weng, and Melissa J. Moore

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Nuclear envelope budding enables large ribonucleoprotein particle export during synaptic Wnt signaling, Sean D. Speese, James A. Ashley, Vahbiz Jokhi, John J. Nunnari, Romina Barria, Yihang Li, Bulent Ataman, Alex C. Koon, Young-Tae Chang, Qian Li, Melissa J. Moore, and Vivian Budnik

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Sequence Determinants of GLUT1-mediated Accelerated-exchange Transport: Analysis by Homology-Scanning Mutagenesis, Sabrina S. Vollers and Anthony Carruthers

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Prediction of protein-protein binding free energies, Thom Vreven, Howook Hwang, Brian G. Pierce, and Zhiping Weng

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Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors, Jie Wang, Jiali Zhuang, Sowmya Iyer, Xinying Lin, Troy W. Whitfield, Melissa C. Greven, Brian G. Pierce, Xianjun Dong, Anshul Kundaje, Yong Cheng, Oliver J. Rando, Ewan Birney, Richard M. Myers, William S. Noble, Michael Snyder, and Zhiping Weng

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Argonaute divides its RNA guide into domains with distinct functions and RNA-binding properties, LiangMeng Wee, Carlos Fabian Flores-Jasso, William E. Salomon, and Phillip D. Zamore

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Functional analysis of transcription factor binding sites in human promoters, Troy W. Whitfield, Jie Wang, Patrick J. Collins, E. Christopher Partridge, Shelley Force Aldred, Nathan D. Trinklein, Richard M. Myers, and Zhiping Weng

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FANCJ/BACH1 Acetylation at Lysine 1249 Regulates the DNA Damage Response, Jenny X. Xie, Min Peng, Shawna Guillemette, Steven Quan, Stephanie Maniatis, Yuliang Wu, Aditya Venkatesh, Scott A. Shaffer, Robert M. Brosh Jr., and Sharon B. Cantor

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Long-term, efficient inhibition of microRNA function in mice using rAAV vectors, Jun Xie, Stefan L. Ameres, Randall H. Friedline, Jui-Hung Hung, Yu Zhang, Qing Xie, Li Zhong, Qin Su, Ran He, Mengxin Li, Huapeng Li, Xin Mu, Hongwei Zhang, Jennifer A. Broderick, Jason K. Kim, Zhiping Weng, Terence R. Flotte, Phillip D. Zamore, and Guangping Gao

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Genome-wide identification and characterization of replication origins by deep sequencing, Jia Xu, Yoshimi Yanagisawa, Alexander M. Tsankov, Christopher Hart, Keita Aoki, Naveen Kommajosyula, Kathleen E. Steinmann, James Bochicchio, Carsten Russ, Aviv Regev, Oliver J. Rando, Chad Nusbaum, Hironori Niki, Patrice Milos, Zhiping Weng, and Nicholas R. Rhind

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Bleomycin sensitivity in Escherichia coli is medium-dependent, Tao Xu, William Brown, and Martin G. Marinus

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Does a loss of TDP-43 function cause neurodegeneration, Zuoshang Xu

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Modeling formamide denaturation of probe-target hybrids for improved microarray probe design in microbial diagnostics, L. Safak Yilmaz, Alexander Loy, Erik S. Wright, Michael Wagner, and Daniel R. Noguera

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RNA: methods and protocols - a new series, Phillip D. Zamore

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UAP56 couples piRNA clusters to the perinuclear transposon silencing machinery, Fan Zhang, Jie Wang, Jia Xu, Zhao Zhang, Birgit S. Koppetsch, Nadine Schultz, Thom Vreven, Carine Meignin, Ilan Davis, Phillip D. Zamore, Zhiping Weng, and William E. Theurkauf

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HIF1α is required for survival maintenance of chronic myeloid leukemia stem cells, Haojian Zhang, Huawei Li, Hualin S. Xi, and Shaoguang Li

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Peptidylarginine deiminase 2-catalyzed histone H3 arginine 26 citrullination facilitates estrogen receptor alpha target gene activation., Xuesen Zhang, Michael Bolt, Michael J. Guertin, Wei Chen, Sheng Zhang, Brian D. Cherrington, Daniel J. Slade, Christina J. Dreyton, Venkataraman Subramanian, Kevin L. Bicker, Paul R. Thompson, Michael A. Mancini, John T. Lis, and Scott A. Coonrod

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Spatial organization of the mouse genome and its role in recurrent chromosomal translocations, Yu Zhang, Rachel Patton McCord, Yu-Jui Ho, Bryan R. Lajoie, Dominic G. Hildebrand, Alince C. Simon, Michael B. Becker, Frederick W. Alt, and Job Dekker

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Strand-specific libraries for high throughput RNA sequencing (RNA-Seq) prepared without poly(A) selection, Zhao Zhang, William E. Theurkauf, Zhiping Weng, and Phillip D. Zamore

Publications from 2011

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Target RNA-directed tailing and trimming purifies the sorting of endo-siRNAs between the two Drosophila Argonaute proteins, Stefan L. Ameres, Jui-Hung Hung, Jia Xu, Zhiping Weng, and Phillip D. Zamore

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The challenge of developing robust drugs to overcome resistance, Amy C. Anderson, Michael P. Pollastri, Celia A. Schiffer, and Norton P. Peet

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The three-dimensional folding of the α-globin gene domain reveals formation of chromatin globules, Davide Bau, Amartya Sanyal, Bryan R. Lajoie, Emidio Capriotti, Meg Byron, Jeanne B. Lawrence, Job Dekker, and Marc A. Marti-Renom

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Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence, Eugene Berezikov, Nicolas Robine, Anastasia Samsonova, Jakub Orzechowski Westholm, Ammar Naqvi, Jui-Hung Hung, Katsutomo Okamura, Qi Dai, Diane Bortolamiol-Becet, Raquel Martin, Yongjun Zhao, Phillip D. Zamore, Gregory J. Hannon, Marco A. Marra, Zhiping Weng, Norbert Perrimon, and Eric C. Lai

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A combinatorial approach to characterize the substrate specificity of protein arginine methyltransferase 1, Kevin L. Bicker, Obiamaka Obianyo, Heather L. Rust, and Paul R. Thompson

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Boronic acid functionalized peptidyl synthetic lectins: combinatorial library design, peptide sequencing, and selective glycoprotein recognition, Kevin L. Bicker, Jing Sun, John J. Lavigne, and Paul R. Thompson

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Molecular basis of a million-fold affinity maturation process in a protein-protein interaction, Daniel A. Bonsor, Sandra Postel, Brian G. Pierce, Ningyan Wang, Penny Zhu, Rebecca A. Buonpane, Zhiping Weng, David M. Kranz, and Eric J. Sundberg

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Argonaute protein identity and pairing geometry determine cooperativity in mammalian RNA silencing, Jennifer A. Broderick, William E. Salomon, Sean P. Ryder, Neil Aronin, and Phillip D. Zamore

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MicroRNA therapeutics, Jennifer A. Broderick and Phillip D. Zamore

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The development of N-alpha-(2-carboxyl)benzoyl-N(5)-(2-fluoro-1-iminoethyl)-l-ornithine amide (o-F-amidine) and N-alpha-(2-carboxyl)benzoyl-N(5)-(2-chloro-1-iminoethyl)-l-ornithine amide (o-Cl-amidine) as second generation protein arginine deiminase (PAD) inhibitors, Corey P. Causey, Justin E. Jones, Jessica L. Slack, Daisuke Kamei, Larry E. Jones, Venkataraman Subramanian, Bryan Knuckley, Pedram Ebrahimi, Alexander A. Chumanevich, Yuan Luo, Hiroshi Hashimoto, Mamoru Sato, Lorne J. Hofseth, and Paul R. Thompson

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Phosphate and R2D2 Restrict the Substrate Specificity of Dicer-2, an ATP-Driven Ribonuclease, Elif Sarinay Cenik, Ryuya Fukunaga, Gang Lu, Robert Dutcher, Yeming Wang, Traci M. Tanaka Hall, and Phillip D. Zamore

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Argonaute proteins, Elif Sarinay Cenik and Phillip D. Zamore