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 2015

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Epigenetic dysregulation of hairy and enhancer of split 4 (HES4) is associated with striatal degeneration in postmortem Huntington brains, Guang Bai, Iris Cheung, Hennady P. Shulha, Joana E. Coelho, Ping Li, Xianjun Dong, Mira Jakovcevski, Yumei Wang, Anastasia Grigorenko, Yan Jiang, Andrew Hoss, Krupal Patel, Ming Zheng, Evgeny Rogaev, Richard H. Myers, Zhiping Weng, Schahram Akbarian, and Jiang-Fan Chen

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Chemical Biology of Protein Arginine Modifications in Epigenetic Regulation, Jakob Fuhrmann, Kathleen W. Clancy, and Paul R. Thompson

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Glycolytic enzymes localize to ribonucleoprotein granules in Drosophila germ cells, bind Tudor and protect from transposable elements, Ming Gao, Travis Thomson, T Michael Creed, Shikui Tu, Sudan N. Loganathan, Christina A. Jackson, Patrick McCluskey, Yanyan Lin, Scott E. Collier, Zhiping Weng, Paul Lasko, Melanie D. Ohi, and Alexey L. Arkov

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piPipes: a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing, Bo W. Han, Wei Wang, Phillip D. Zamore, and Zhiping Weng

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Structure-Guided Design of a High Affinity Inhibitor to Human CtBP, Brendan J. Hilbert, Benjamin L. Morris, Keith C. Ellis, Janet L. Paulsen, Celia A. Schiffer, Steven R. Grossman, and William E. Royer

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Utilization of the Soft Agar Colony Formation Assay to Identify Inhibitors of Tumorigenicity in Breast Cancer Cells, Sachi Horibata, Tommy V. Vo, Venkataraman Subramanian, Paul R. Thompson, and Scott A. Coonrod

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miR-10b-5p expression in Huntington's disease brain relates to age of onset and the extent of striatal involvement, Andrew G. Hoss, Adam Labadorf, Jeanne C. Latourelle, Vinay K. Kartha, Tiffany C. Hadzi, James F. Gusella, Marcy E. MacDonald, Jiang-Fan Chen, Schahram Akbarian, Zhiping Weng, Jean Paul Vonsattel, and Richard H. Myers

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Inhibition of PAD4 activity is sufficient to disrupt mouse and human NET formation., Huw D. Lewis and Paul R. Thompson

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Multicolor CRISPR labeling of chromosomal loci in human cells, Hanhui Ma, Ardalan Naseri, Pablo Reyes-Gutierrez, Scot A. Wolfe, Shaojie Zhang, and Thoru Pederson

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Pitfalls of mapping high-throughput sequencing data to repetitive sequences: Piwi's genomic targets still not identified, Georgi K. Marinov, Jie Wang, Dominik Handler, Barbara J. Wold, Zhiping Weng, Gregory J. Hannon, Alexei A. Aravin, Phillip D. Zamore, Julius Brennecke, and Katalin Fejes Toth

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Drug-resistant HIV-1 protease regains functional dynamics through cleavage site coevolution, Nevra Ozer, Aysegul Ozen, Celia A. Schiffer, and Turkan Haliloglu

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Evaluation of novel imidazotetrazine analogues designed to overcome temozolomide resistance and glioblastoma regrowth, Yulian P. Ramirez, Ann C. Mladek, Roger M. Phillips, Mikko Gynther, Jarkko Rautio, Alonzo H. Ross, Richard T. Wheelhouse, and Jann N. Sakaria

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Protein arginine deiminase 2 binds calcium in an ordered fashion: implications for inhibitor design, Daniel J. Slade, Pengfei Fang, Christina J. Dreyton, Ying Zhang, Jakob Fuhrmann, Don Rempel, Benjamin D. Bax, Scott A. Coonrod, Huw D. Lewis, Min Guo, Michael L. Gross, and Paul R. Thompson

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Design, synthesis, and biological evaluation of tetrazole analogs of Cl-amidine as protein arginine deiminase inhibitors., Venkataraman Subramanian, Jason S. Knight, Sangram Parelkar, Lynne Anguish, Scott A. Coonrod, Mariana J. Kaplan, and Paul R. Thompson

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Comparative functional characterization of the CSR-1 22G-RNA pathway in Caenorhabditis nematodes, Shikui Tu, Monica Z. Wu, Jie Wang, Asher D. Cutter, Zhiping Weng, and Julie M. Claycomb

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Inhibiting protein arginine deiminases has antioxidant consequences., Erin E. Witalison, Xiangli Cui, Anne B. Hofseth, Venkataraman Subramanian, Corey P. Causey, Paul R. Thompson, and Lorne J. Hofseth

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Protein Arginine Deiminases and Associated Citrullination: Physiological Functions and Diseases Associated with Dysregulation., Erin E. Witalison, Paul R. Thompson, and Lorne J. Hofseth

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Positive Selection Drives Preferred Segment Combinations during Influenza Virus Reassortment, Konstantin B. Zeldovich, Ping Liu, Nicholas Renzette, Matthieu Foll, Serena T. Pham, Sergey V. Venev, Glen R. Gallagher, Daniel N. Bolon, Evelyn A. Kurt-Jones, Jeffrey D. Jensen, Daniel R. Caffrey, Celia A. Schiffer, Timothy F. Kowalik, Jennifer P. Wang, and Robert W. Finberg

Publications from 2014

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High-throughput sequencing analysis of post-liver transplantation HCV E2 glycoprotein evolution in the presence and absence of neutralizing monoclonal antibody, Gregory J. Babcock, Sowmya Iyer, Heidi L. Smith, Yan Wang, Kirk Rowley, Donna M. Ambrosino, Phillip D. Zamore, Brian G. Pierce, Deborah C. Molrine, and Zhiping Weng

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Drug Resistance Mutations Alter Dynamics of Inhibitor-Bound HIV-1 Protease, Yufeng Cai, Wazo Myint, Janet L. Paulsen, Celia A. Schiffer, Rieko Ishima, and Nese Kurt Yilmaz

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High-resolution mapping of chromatin packaging in mouse embryonic stem cells and sperm, Benjamin R. Carone, Jui-Hung Hung, Sarah J. Hainer, Min-Te Chou, Dawn M. Carone, Zhiping Weng, Thomas G. Fazzio, and Oliver J. Rando

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Post-transcriptional regulation of gene expression in innate immunity, Susan Carpenter, Emiliano P. Ricci, Blandine C. Mercier, Melissa J. Moore, and Katherine A. Fitzgerald

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Principles of regulatory information conservation between mouse and human, Yong Cheng, Zhihai Ma, Bong-Hyun Kim, Weisheng Wu, Philip Cayting, Alan P. Boyle, Vasavi Sundaram, Xiaoyun Xing, Nergiz Dogan, Jingjing Li, Ghia Euskirchen, Shin Lin, Yiing Lin, Axel Visel, Trupti Kawli, Xinqiong Yang, Dorrelyn Patacsil, Cheryl A. Keller, Belinda Giardine, Anshul Kundaje, Ting Wang, Len A. Pennacchio, Zhiping Weng, Ross C. Hardison, and Michael P. Snyder

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Cytoplasmic HIV-1 RNA is mainly transported by diffusion in the presence or absence of Gag protein, Jianbo Chen, David Gr├╝nwald, Luca Sardo, Andrea Galli, Sergey Plisov, Olga A Nikolaitchik, De Chen, Stephen Lockett, Daniel R. Larson, Vinay K. Pathak, and Wei-Shau Hu

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Endogenous U2.U5.U6 snRNA complexes in S. pombe are intron lariat spliceosomes, Weijun Chen, Hennady P. Shulha, Ami Ashar-Patel, Jing Yang, Karin M. Green, Charles C. Query, Nicholas R. Rhind, Zhiping Weng, and Melissa J. Moore

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Influenza virus drug resistance: a time-sampled population genetics perspective, Matthieu Foll, Yu Ping Poh, Nicholas Renzette, Anna Ferrer Admetlla, Claudia Bank, Hyunjin Shim, Anna Sapfo Malaspinas, Gregory Ewing, Ping Liu, Daniel Wegmann, Daniel R. Caffrey, Konstantin B. Zeldovich, Daniel N. A. Bolon, Jennifer Wang, Timothy F. Kowalik, Celia A. Schiffer, Robert W. Finberg, and Jeffrey D. Jensen

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Predictive polymer modeling reveals coupled fluctuations in chromosome conformation and transcription, Luca Giorgetti, Rafael Galupa, Elphege P. Nora, Tristan Piolot, France Lam, Job Dekker, Guido Tiana, and Edith Heard

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An improved predictive recognition model for Cys2-His2 zinc finger proteins, Ankit Gupta, Ryan G. Christensen, Heather A. Bell, Mathew Goodwin, Ronak Y. Patel, Manishi Pandey, Metewo Selase Enuameh, Amy L. Rayla, Cong Zhu, Stacey Thibodeau-Beganny, Michael H. Brodsky, J. Keith Joung, Scot A. Wolfe, and Gary D. Stormo

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Backbone flexibility of CDR3 and immune recognition of antigens, Jaafar N. Haidar, Wei Zhu, Jacqueline Lypowy, Brian G. Pierce, Amtul Bari, Kris Persaud, Xenia Luna, Marshall Snavely, Dale Ludwig, and Zhiping Weng

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Crystal structures of human CtBP in complex with substrate MTOB reveal active site features useful for inhibitor design, Brendan J. Hilbert, Steven R. Grossman, Celia A. Schiffer, and William E. Royer

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Reply to Brunet and Doolittle: Both selected effect and causal role elements can influence human biology and disease, Manolis Kellis, Job Dekker, Zhiping Weng, and Ross C. Hardison

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HIV-1 protease-substrate coevolution in nelfinavir resistance, Madhavi Kolli, Aysegul Ozen, Nese Kurt Yilmaz, and Celia A. Schiffer

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Hox regulation of transcription: more complex(es), Franck Ladam and Charles G. Sagerstrom

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The Hitchhiker's guide to Hi-C analysis: Practical guidelines, Bryan R. Lajoie, Job Dekker, and Noam Kaplan

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Blind prediction of interfacial water positions in CAPRI, Marc F. Lensink, Iain H. Moal, Paul A. Bates, Panagiotis L. Kastritis, Adrien S.J. Melquiond, Ezgi Karaca, Christophe Schmitz, Marc van Dijk, Alexandre M.J.J. Bonvin, Miriam Eisenstein, Brian G. Pierce, Howook Hwang, Thom Vreven, and Zhiping Weng

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Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe, Takeshi Mizuguchi, Geoffrey Fudenberg, Sameet Mehta, Jon-Matthew Belton, Nitika Taneja, Hernan Diego Folco, Peter FitzGerald, Job Dekker, Leonid Mirny, Jemima Barrowman, and Shiv I. S. Grewal

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Calmodulation meta-analysis: Predicting calmodulin binding via canonical motif clustering, Karen Mruk, Brian M. Farley, Alan W. Ritacco, and William R. Kobertz

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Structural basis and distal effects of Gag substrate coevolution in drug resistance to HIV-1 protease, Aysegul Ozen, Kuan-Hung Lin, Nese Kurt Yilmaz, and Celia A. Schiffer

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ZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers, Brian G. Pierce, Kevin Wiehe, Howook Hwang, Bong-Hyun Kim, Thom Vreven, and Zhiping Weng

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Regulation of cyclin-substrate docking by a G1 arrest signaling pathway and the Cdk inhibitor Far1, Patricia A. Pope, Samyabrata Bhaduri, and Peter M. Pryciak

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Drug resistance conferred by mutations outside the active site through alterations in the dynamic and structural ensemble of HIV-1 protease, Debra A. Ragland, Ellen A. Nalivaika, Madhavi N. L. Nalam, Kristina L. Prachanronarong, Hong Cao, Rajintha M. Bandaranayake, Yufeng Cai, Nese Kurt Yilmaz, and Celia A. Schiffer

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Evolution of the influenza A virus genome during development of oseltamivir resistance in vitro, Nicholas Renzette, Daniel R. Caffrey, Konstantin B. Zeldovich, Ping Liu, Glen R. Gallagher, Daniel Aiello, Alyssa J. Porter, Evelyn A. Kurt-Jones, Daniel N. Bolon, Yu-Ping Poh, Jeffrey D. Jensen, Celia A. Schiffer, Timothy F. Kowalik, Robert W. Finberg, and Jennifer P. Wang

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A computational analysis of the structural determinants of APOBEC3's catalytic activity and vulnerability to HIV-1 Vif, Shivender Shandilya, Markus-Frederik Bohn, and Celia A. Schiffer

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Regulation of histone H3K4 methylation in brain development and disease, Erica Shen, Hennady P. Shulha, Zhiping Weng, and Schahram Akbarian

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Structural analysis of asunaprevir resistance in HCV NS3/4A protease, Djade Soumana, Akbar Ali, and Celia A. Schiffer

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Crystal structure of Streptococcus pyogenes EndoS, an immunomodulatory endoglycosidase specific for human IgG antibodies, Beatriz Trastoy, Joseph V. Lomino, Brian G. Pierce, Lester G. Carter, Sebastian Gunther, John P. Giddens, Greg A. Snyder, Thomas M. Weiss, Zhiping Weng, Lai-Xi Wang, and Eric J. Sundberg

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Evaluating template-based and template-free protein-protein complex structure prediction, Thom Vreven, Howook Hwang, Brian G. Pierce, and Zhiping Weng

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Resistance to vemurafenib resulting from a novel mutation in the BRAFV600E kinase domain, Timothy R. Wagenaar, Leyuan Ma, Benjamin P. Roscoe, Sung Mi Park, Daniel N. Bolon, and Michael R. Green

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Widespread spinal cord transduction by intrathecal injection of rAAV delivers efficacious RNAi therapy for amyotrophic lateral sclerosis, Hongyan Wang, Bin Yang, Linghua Qiu, Chunxing Yang, Joshua Kramer, Qin Su, Yansu Guo, Robert H. Brown Jr., Guangping Gao, and Zuoshang Xu

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Protein arginine methyltransferase 5 catalyzes substrate dimethylation in a distributive fashion., Min Wang, Jakob Fuhrmann, and Paul R. Thompson

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Targeted germ line disruptions reveal general and species-specific roles for paralog group 1 hox genes in zebrafish, Steven E. Weicksel, Ankit Gupta, Denise A. Zannino, Scot A. Wolfe, and Charles G. Sagerstrom

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A system for genome-wide histone variant dynamics in ES cells reveals dynamic MacroH2A2 replacement at promoters, Ozlem Yildirim, Jui-Hung Hung, Ryan J. Cedeno, Zhiping Weng, Christopher J. Lengner, and Oliver J. Rando

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Antisense piRNA amplification, but not piRNA production or nuage assembly, requires the Tudor-domain protein Qin, Zhao Zhang, Birgit S. Koppetsch, Jie Wang, Cindy Tipping, Zhiping Weng, William E. Theurkauf, and Phillip D. Zamore

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The HP1 homolog rhino anchors a nuclear complex that suppresses piRNA precursor splicing, Zhao Zhang, Jie Wang, Nadine McGinnis-Schultz, Fan Zhang, Swapnil S. Parhad, Shikui Tu, Thom Vreven, Phillip D. Zamore, Zhiping Weng, and William E. Theurkauf

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Modulation of HIV protease flexibility by the T80N mutation, Hao Zhou, Shangyang Li, John Badger, Ellen A. Nalivaika, Yufeng Cai, Jennifer E. Foulkes-Murzycki, Celia A. Schiffer, and Lee Makowski

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TEMP: a computational method for analyzing transposable element polymorphism in populations, Jiali Zhuang, Jie Wang, William E. Theurkauf, and Zhiping Weng

Publications from 2013

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Evaluating the Role of Macrocycles in the Susceptibility of Hepatitis C Virus NS3/4A Protease Inhibitors to Drug Resistance, Akbar Ali, Cihan Aydin, Reinhold Gildemeister, Keith P. Romano, Hong Cao, Aysegul Ozen, Djade Soumana, Alicia Newton, Christos J. Petropoulos, Wei Huang, and Celia A. Schiffer

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The interdomain interface in bifunctional enzyme protein 3/4A (NS3/4A) regulates protease and helicase activities, Cihan Aydin, Sourav Mukherjee, Alicia M. Hanson, David N. Frick, and Celia A. Schiffer

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In Vivo Delivery of RNAi by Reducible Interfering Nanoparticles (iNOPs), Huricha Baigude, Jie Su, Joshua McCarroll, and Tariq M. Rana

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Amyotrophic lateral sclerosis-linked FUS/TLS alters stress granule assembly and dynamics, Desiree M. Baron, Laura J. Kaushansky, Catherine L. Ward, Reddy Ranjith Kumar Sama, Ru-ju Chian, Kristin J. Boggio, Alexandre J. C. Quaresma, Jeffrey A. Nickerson, and Daryl A. Bosco

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A structural role for the PHP domain in E. coli DNA polymerase III, Tiago Barros, Joel Guenther, Brian Kelch, Jordan Anaya, Arjun Prabhakar, Mike O'Donnell, John Kuriyan, and Meindert H. Lamers

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Crystal Structure of the DNA Cytosine Deaminase APOBEC3F: The Catalytically Active and HIV-1 Vif-Binding Domain, Markus-Frederik Bohn, Shivender M. D. Shandilya, John S. Albin, Takahide Kouno, Brett D. Anderson, Rebecca M. McDougle, Michael A. Carpenter, Anurag Rathore, Leah Evans, Ahkillah N. Davis, JingYing Zhang, Yongjian Lu, Mohan Somasundaran, Hiroshi Matsuo, Reuben S. Harris, and Celia A. Schiffer

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Identification of human monoclonal antibodies specific for human SOD1 recognizing distinct epitopes and forms of SOD1, Teresa J. Broering, Hongyan Wang, Naomi K. Boatright, Yang Wang, Katherine Baptista, Gilda Shayan, Kerry A. Garrity, Can Kayatekin, Daryl A. Bosco, C. Robert Matthews, Donna M. Ambrosino, Zuoshang Xu, and Gregory J. Babcock

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A long noncoding RNA mediates both activation and repression of immune response genes, Susan Carpenter, Daniel Aiello, Maninjay K. Atianand, Emiliano P. Ricci, Pallavi Gandhi, Lisa L. Hall, Meg Byron, Brian G. Monks, Meabh Henry-Bezy, Jeanne B. Lawrence, Luke A. J. O'Neill, Melissa J. Moore, Daniel R. Caffrey, and Katherine A. Fitzgerald

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Development of a Novel Screening Strategy Designed to Discover a New Class of HIV Drugs, Nancy Cheng, Sook-Kyung Lee, P. Scott Donover, Mel Reichman, Celia A. Schiffer, Emily A. Hull-Ryde, Ronald I. Swanstrom, and William P. Janzen

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Gudu, an Armadillo repeat-containing protein, is required for spermatogenesis in Drosophila, Wei Cheng, Y. Tony Ip, and Zuoshang Xu

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Painting by numbers: increasing the parts list for chromatin domains, Hsiuyi V. Chen and Oliver J. Rando

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Hdac6 regulates Tip60-p400 function in stem cells, Poshen B. Chen, Jui-Hung Hung, Taylor L. Hickman, Andrew H. Coles, James F. Carey, Zhiping Weng, Feixia Chu, and Thomas G. Fazzio

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Human monoclonal antibody MBL-HCV1 delays HCV viral rebound following liver transplantation: a randomized controlled study, R. T. Chung, F. D. Gordon, M. P. Curry, T. D. Schiano, S. Emre, K. Corey, J. F. Markmann, M. Hertl, J. J. Pomposelli, E. A. Pomfret, S. Florman, M. Schilsky, Teresa J. Broering, Robert W. Finberg, Gyongyi Szabo, Phillip D. Zamore, U. Khettry, Gregory J. Babcock, Donna M. Ambrosino, Brett A. Leav, Mark Leney, H. L. Smith, and Deborah C. Molrine

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Metabolite sensing in eukaryotic mRNA biology, Carina C. Clingman and Sean P. Ryder

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Single-molecule colocalization FRET evidence that spliceosome activation precedes stable approach of 5' splice site and branch site, Daniel J. Crawford, Aaron A. Hoskins, Larry J. Friedman, Jeff Gelles, and Melissa J. Moore

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Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data, Job Dekker, Marc A. Marti-Renom, and Leonid A. Mirny

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Biological techniques: Chromosomes captured one by one, Job Dekker and Leonid A. Mirny

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Nuclear biology: what's been most surprising, Job Dekker, Joanna Wysocka, Iain Mattaj, Erez Lieberman-Aiden, and Craig Pikaard

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GABAergic neuroactive steroids and resting-state functional connectivity in postpartum depression: a preliminary study, Kristina M. Deligiannidis, Elif M. Sikoglu, Scott A. Shaffer, Blaise Frederick, Abby E. Svenson, Andre Kopoyan, Chelsea A. Kosma, Anthony J. Rothschild, and Constance M. Moore

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The correlation between histone modifications and gene expression, Xianjun Dong and Zhiping Weng

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Global analysis of Drosophila Cys2-His2 zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants, Metewo Selase Enuameh, Yuna Asriyan, Adam Richards, Ryan G. Christensen, Victoria L. Hall, Majid Kazemian, Cong Zhu, Hannah Pham, Qiong Cheng, Charles Blatti, Jessie A. Brasefield, Matthew D. Basciotta, Jianhong Ou, Joseph C. McNulty, Lihua Julie Zhu, Susan E. Celniker, Saurabh Sinha, Gary D. Stormo, Michael H. Brodsky, and Scot A. Wolfe

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Chemical screening identifies filastatin, a small molecule inhibitor of Candida albicans adhesion, morphogenesis, and pathogenesis, Ahmed Fazly, Charu Jain, Amie C. Dehner, Luca Issi, Elizabeth A. Lilly, Akbar Ali, Hong Cao, Paul L. Fidel Jr., Reeta P. Rao, and Paul D. Kaufman

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Rapid and specific purification of Argonaute-small RNA complexes from crude cell lysates, Carlos Fabian Flores-Jasso, William E. Salomon, and Phillip D. Zamore

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Cooperative effects of drug-resistance mutations in the flap region of HIV-1 protease, Jennifer E. Foulkes-Murzycki, Christina Rosi, Nese Kurt Yilmaz, Robert W. Shafer, and Celia A. Schiffer

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Clusters of branched aliphatic side chains serve as cores of stability in the native state of the HisF TIM barrel protein, Basavanapura N. Gangadhara, Jennifer M. Laine, Sagar V. Kathuria, Francesca Massi, and C. Robert Matthews

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Small RNA-Directed Silencing: The Fly Finds Its Inner Fission Yeast, Daniel Tianfang Ge and Phillip D. Zamore

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The Hierarchy of the 3D Genome, Johan H. Gibcus and Job Dekker

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Sub-millisecond time-resolved SAXS using a continuous-flow mixer and X-ray micro-beam, Rita Graceffa, Robert P. Nobrega, Raul Barrea, Sagar V. Kathuria, Srinivas Chakravarthy, Osman Bilsel, and Thomas Irving

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Using stable MutS dimers and tetramers to quantitatively analyze DNA mismatch recognition and sliding clamp formation, Flora S. Groothuizen, Alexander Fish, Maxim V. Petoukhov, Annet Reumer, Laura Manelyte, Herrie H.K. Winterwerp, Martin G. Marinus, Joyce H.G. Lebbink, Dmitri I. Svergun, Peter Friedhoff, and Titia K. Sixma

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HLA-DO acts as a substrate mimic to inhibit HLA-DM by a competitive mechanism, Abigail I. Guce, Sarah E. Mortimer, Taejin Yoon, Corrie A. Painter, Wei Jiang, Elizabeth D. Mellins, and Lawrence J. Stern

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Targeted chromosomal deletions and inversions in zebrafish, Ankit Gupta, Victoria L. Hall, Fatma O. Kok, Masahiro Shin, Joseph C. McNulty, Nathan D. Lawson, and Scot A. Wolfe

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Cognitive impairment and self-care in heart failure, Alexandra M. Hajduk, Stephenie C. Lemon, David D. McManus, Darleen M. Lessard, Jerry H. Gurwitz, Frederick A. Spencer, Robert J. Goldberg, and Jane S. Saczynski

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Theranostic Upconversion Nanoparticles (II), Gang Han and Guanying Chen

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Shifting fitness landscapes in response to altered environments, Ryan T. Hietpas, Claudia Bank, Jeffrey D. Jensen, and Daniel N. A. Bolon

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Chemical derivatization and purification of peptide-toxins for probing ion channel complexes, Zhengmao Hua and William R. Kobertz

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Latent effects of Hsp90 mutants revealed at reduced expression levels, Li Jiang, Parul Mishra, Ryan T. Hietpas, Konstantin B. Zeldovich, and Daniel N. A. Bolon

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Torsin mediates primary envelopment of large ribonucleoprotein granules at the nuclear envelope, Vahbiz Jokhi, James A. Ashley, John J. Nunnari, Akiko Noma, Naoto ito, Noriko Wakabayashi-Ito, Melissa J. Moore, and Vivian Budnik

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High-throughput genome scaffolding from in vivo DNA interaction frequency, Noam Kaplan and Job Dekker

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Advances in turbulent mixing techniques to study microsecond protein folding reactions, Sagar V. Kathuria, Alexander Chan, Rita Graceffa, Robert P. Nobrega, C. Robert Matthews, Thomas C. Irving, Blair Perot, and Osman Bilsel

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Widespread evidence of cooperative DNA binding by transcription factors in Drosophila development, Majid Kazemian, Hannah Pham, Scot A. Wolfe, Michael H. Brodsky, and Saurabh Sinha

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ASPeak: an abundance sensitive peak detection algorithm for RIP-Seq, Alper Kucukural, Hakan Ozadam, Guramrit Singh, Melissa J. Moore, and Can Cenik

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Flexible ordering of antibody class switch and V(D)J joining during B-cell ontogeny, Satyendra Kumar, Robert Wuerffel, Ikbel Achour, Bryan R. Lajoie, Ranjan Sen, Job Dekker, Ann J. Feeney, and Amy L. Kenter

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Cycling of the signaling protein phospholipase D through cilia requires the BBSome only for the export phase, Karl-Ferdinand Lechtreck, Jason M. Brown, Julio L. Sampaio, Julie M. Craft, Andrej Shevchenko, James E. Evans, and George B. Witman

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A sensitive assay using a native protein substrate for screening HIV-1 maturation inhibitors targeting the protease cleavage site between the matrix and capsid, Sook-Kyung Lee, Nancy Cheng, Emily A. Hull-Ryde, Marc Potempa, Celia A. Schiffer, William P. Janzen, and Ronald I. Swanstrom