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.

Follow


Publications from 2013

Link

Tunable Near Infrared to Ultraviolet Upconversion Luminescence Enhancement in (alpha-NaYF :Yb,Tm)/CaF Core/Shell Nanoparticles for In situ Real-time Recorded Biocompatible Photoactivation, Jie Shen, Guanying Chen, Tymish Y. Ohulchanskyy, Samuel J. Kesseli, Steven Buchholz, Zhipeng Li, Paras N. Prasad, and Gang Han

Link

Testing the substrate-envelope hypothesis with designed pairs of compounds, Yang Shen, Michael D. Altman, Akbar Ali, Madhavi N. L. Nalam, Hong Cao, Tariq M. Rana, Celia A. Schiffer, and Bruce Tidor

Link

Mutations in STT3A and STT3B cause two congenital disorders of glycosylation, Shiteshu Shrimal, Bobby G. Ng, Marie-Estelle Losfeld, James R. Gilmore, and Hudson H. Freeze

PDF

Extreme C-terminal sites are posttranslocationally glycosylated by the STT3B isoform of the OST, Shiteshu Shrimal, Steven F. Trueman, and Reid Gilmore

Link

Efficient Computation of Small-Molecule Configurational Binding Entropy and Free Energy Changes by Ensemble Enumeration, Nathaniel W. Silver, Bracken M. King, Madhavi N. L. Nalam, Hong Cao, Akbar Ali, G. S. Kiran Kumar Reddy, Tariq M. Rana, Celia A. Schiffer, and Bruce Tidor

Link

Blasticidin S inhibits translation by trapping deformed tRNA on the ribosome, Egor Svidritskiy, Clarence Ling, Dmitri N. Ermolenko, and Andrei A. Korostelev

PDF

A compendium of Caenorhabditis elegans RNA binding proteins predicts extensive regulation at multiple levels, Alex M. Tamburino, Sean P. Ryder, and Albertha J. M. Walhout

PDF

Networking development by Boolean logic, Shikui Tu, Thoru Pederson, and Zhiping Weng

Link

Prototypical Recombinant Multi-Protease Inhibitor Resistant Infectious Molecular Clones of Human Immunodeficiency Virus Type-1, Vici Varghese, Yumi Mitsuya, W. Jeffrey Fessel, Tommy F. Liu, George L. Melikian, David A. Katzenstein, Celia A. Schiffer, Susan P. Holmes, and Robert W. Shafer

PDF

Identification and Analysis of the Domain Required for Trans-Acceleration Kinetics in the Human Glucose Transporter GLUT1: A Dissertation, Sabrina S. Vollers

Link

Handbook of Systems Biology: Concepts and Insights, Albertha J. M. Walhout, Marc Vidal, and Job Dekker

PDF

Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium, Jie Wang, Jiali Zhuang, Sowmya Iyer, Xinying Lin, Melissa C. Greven, Bong-Hyun Kim, Jill Moore, Brian G. Pierce, Xianjun Dong, Daniel Virgil, Ewan Birney, Jui-Hung Hung, and Zhiping Weng

Link

Substrate specificity, processivity, and kinetic mechanism of protein arginine methyltransferase 5., Min Wang, Rui-Ming Xu, and Paul R. Thompson

Link

A histone acetylation switch regulates H2A.Z deposition by the SWR-C remodeling enzyme, Shinya Watanabe, Marta Radman-Livaja, Oliver J. Rando, and Craig L. Peterson

PDF

hox Gene Regulation and Function During Zebrafish Embryogenesis: A Dissertation, Steven E. Weicksel

PDF

Dynamic Nucleosome Organization at hox Promoters during Zebrafish Embryogenesis, Steven Weicksel, Jia Xu, and Charles G. Sagerstrom

PDF

hnRNP A1 and secondary structure coordinate alternative splicing of Mag, Nancy R. Zearfoss, Emily S. Johnson, and Sean P. Ryder

Link

Rapid reassortment of internal genes in avian influenza A(H7N9) virus, Liangsheng Zhang, Zhenguo Zhang, and Zhiping Weng

Link

Substitution rates of the internal genes in the novel avian H7N9 influenza virus, Liangsheng Zhang, Zhenguo Zhang, Zhiping Weng, and Weifeng Shi

PDF

Downregulation of microRNA-9 in iPSC-derived neurons of FTD/ALS patients with TDP-43 mutations, Zhijun Zhang, Sandra Almeida, Yubing Lu, Agnes L. Nishimura, Lingtao Peng, Danqiong Sun, Bei Wu, Anna M. Karydas, Maria C. Tartaglia, Jamie C. Fong, Bruce L. Miller, Robert V. Farese Jr., Melissa J. Moore, Christopher E. Shaw, and Fen-Biao Gao

PDF

Stem cell labeling using polyethylenimine conjugated (alpha-NaYbF4:Tm3+)/CaF2 upconversion nanoparticles, Liang Zhao, Artem Kutikov, Jie Shen, Chunying Duan, Jie Song, and Gang Han

PDF

Using defined finger-finger interfaces as units of assembly for constructing zinc-finger nucleases, Cong Zhu, Ankit Gupta, Victoria L. Hall, Amy L. Rayla, Ryan G. Christensen, Benjamin Dake, Abirami Lakshmanan, Charlotte Kuperwasser, Gary D. Stormo, and Scot A. Wolfe

Publications from 2012

Link

Structural, kinetic, and thermodynamic studies of specificity designed HIV-1 protease, Oscar Alvizo, Seema Mittal, Stephen L. Mayo, and Celia A. Schiffer

Link

Mass spectrometry tools for analysis of intermolecular interactions, Jared R. Auclair, Mohan Somasundaran, Karin M. Green, James E. Evans, Celia A. Schiffer, Dagmar Ringe, Gregory A. Petsko, and Jeffrey N. Agar

PDF

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

Link

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

Link

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

Link

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

Link

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

Link

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

PDF

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

PDF

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

Link

(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

PDF

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

Link

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

PDF

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

Link

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

PDF

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

PDF

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

Link

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

Link

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

PDF

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

PDF

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

Link

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

Link

Genome architecture and expression, Gary Felsenfeld and Job Dekker

Link

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

Link

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

Link

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

Link

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

PDF

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

Link

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

Link

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

Link

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

Link

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

Link

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

Link

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

Link

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

PDF

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

PDF

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

Link

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

Link

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

PDF

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

Link

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

Link

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

Link

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

PDF

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

PDF

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

PDF

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

Link

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

Link

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

PDF

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

Link

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

Link

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

PDF

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

PDF

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

Link

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

PDF

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

Link

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

Link

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

Link

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

Link

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

Link

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

PDF

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

Link

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

PDF

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

Link

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

PDF

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

PDF

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

PDF

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

PDF

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

PDF

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

Link

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

PDF

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

Link

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

Link

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

Link

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

Link

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

PDF

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

Link

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

PDF

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