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Publications from 2012
POS-1 and GLD-1 repress glp-1 translation through a conserved binding-site cluster, Brian M. Farley and Sean P. Ryder
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
Structural insights into neuronal K+ channel-calmodulin complexes, Karen Mruk, Shivender Shandilya, Robert O. Blaustein, Celia A. Schiffer, and William R. Kobertz
Immune responses in cystic fibrosis: are they intrinsically defective?, Dmitry Ratner and Christian Mueller
Sequence Determinants of GLUT1-mediated Accelerated-exchange Transport: Analysis by Homology-Scanning Mutagenesis, Sabrina S. Vollers and Anthony Carruthers
Publications from 2011
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
Argonaute proteins, Elif Sarinay Cenik and Phillip D. Zamore
A modified bacterial one-hybrid system yields improved quantitative models of transcription factor specificity, Ryan G. Christensen, Ankit Gupta, Zheng Zuo, Lawrence A. Schriefer, Scot A. Wolfe, and Gary D. Stormo
Zinc finger protein-dependent and -independent contributions to the in vivo off-target activity of zinc finger nucleases, Ankit Gupta, Xiangdong Meng, Lihua Julie Zhu, Nathan D. Lawson, and Scot A. Wolfe
FBF represses the Cip/Kip cell-cycle inhibitor CKI-2 to promote self-renewal of germline stem cells in C. elegans, Irene Kalchhauser, Brian M. Farley, Sandra Pauli, Sean P. Ryder, and Rafal Ciosk
Structural insights into early folding events using continuous-flow time-resolved SAXS, Sagar V. Kathuria, Liang Guo, Rita Graceffa, Raul Barrea, R. Paul Nobrega, C. Robert Matthews, Tom Irving, and Osman Bilsel
Xenopus laevis oocytes infected with multi-drug-resistant bacteria: implications for electrical recordings, Denice O'Connell, Karen Mruk, Jessica M. Rocheleau, and William R. Kobertz
Conformational lability in the class II MHC 3-10 helix and adjacent extended strand dictate HLA-DM susceptibility and peptide exchange, Corrie A. Painter, Maria P. Negroni, Kathy A. Kellersberger, Zarixia Zavala-Ruiz, James E. Evans, and Lawrence J. Stern
Molecular mechanisms of viral and host cell substrate recognition by hepatitis C virus NS3/4A protease, Keith P. Romano, Jennifer M. Laine, Laura M. Deveau, Hong Cao, Francesca Massi, and Celia A. Schiffer
MicroRNA Expression Data Reveals a Signature of Kidney Damage following Ischemia Reperfusion Injury, Michael D. Shapiro, Jessamyn Bagley, Jeff Latz, Jonathan G. Godwin, Xupeng Ge, Stefan G. Tullius, and John Iacomini
Translocation channel gating kinetics balances protein translocation efficiency with signal sequence recognition fidelity, Steven F. Trueman, Elisabet C. Mandon, and Reid Gilmore
A quantitative RNA code for mRNA target selection by the germline fate determinant GLD-1, Jane E. Wright, Dimos Gaidatzis, Mathias Senften, Brian M. Farley, Eric Westhof, Sean P. Ryder, and Rafal Ciosk
Quaking regulates Hnrnpa1 expression through its 3' UTR in oligodendrocyte precursor cells, Nancy R. Zearfoss, Carina C. Clingman, Brian M. Farley, Lisa M. McCoig, and Sean P. Ryder
Publications from 2010
Molecular Basis for Drug Resistance in HIV-1 Protease, Akbar Ali, Rajintha M. Bandaranayake, Yufeng Cai, Nancy M. King, Madhavi Kolli, Seema Mittal, Jennifer E. Foulkes-Murzycki, Madhavi N. L. Nalam, Ellen A. Nalivaika, Aysegul Ozen, Moses Prabu-Jeyabalan, Kelly Thayer, and Celia A. Schiffer
The effect of clade-specific sequence polymorphisms on HIV-1 protease activity and inhibitor resistance pathways, Rajintha M. Bandaranayake, Madhavi Kolli, Nancy M. King, Ellen A. Nalivaika, Annie Heroux, Junko Kakizawa, Wataru Sugiura, and Celia A. Schiffer
Decomposing the energetic impact of drug resistant mutations in HIV-1 protease on binding DRV, Yufeng Cai and Celia A. Schiffer
Acute Modulation of Sugar Transport in Brain Capillary Endothelial Cell Cultures during Activation of the Metabolic Stress Pathway, Anthony J. Cura and Anthony Carruthers
Drug resistance against HCV NS3/4A inhibitors is defined by the balance of substrate recognition versus inhibitor binding, Keith P. Romano, Akbar Ali, William E. Royer, and Celia A. Schiffer
Discovery of a novel function for human Rad51: maintenance of the mitochondrial genome, Jay M. Sage, Otto S. Gildemeister, and Kendall L. Knight
Crystal structure of the APOBEC3G catalytic domain reveals potential oligomerization interfaces., Shivender Shandilya, Madhavi N. L. Nalam, Ellen A. Nalivaika, Phillip J. Gross, Johnathan C. Valesano, Keisuke Shindo, Ming Li, Mary Munson, William E. Royer, Elena Harjes, Takahide Kono, Hiroshi Matsuo, Reuben S. Harris, Mohan Somasundaran, and Celia A. Schiffer
Therapeutic targeting of C-terminal binding protein in human cancer, Michael W. Straza, Seema Paliwal, Ramesh C. Kovi, Barur R. Rajeshkumar, Peter Trenh, Daniel Parker, Giles F. Whalen, Stephen Lyle, Celia A. Schiffer, and Steven R. Grossman
Publications from 2009
A convergence of rRNA and mRNA quality control pathways revealed by mechanistic analysis of nonfunctional rRNA decay, Sarah E. Cole, Frederick J. laRiviere, Christopher N. Merrikh, and Melissa J. Moore
Discovery of a novel activator of KCNQ1-KCNE1 K channel complexes., Karen Mruk and William R. Kobertz
Publications from 2008
Modulation of N-type Calcium Channel Activity by G-proteins and Protein Kinase C, Curtis F. Barrett and Ann R. Rittenhouse
Amphetamine-induced decreases in dopamine transporter surface expression are protein kinase C-independent, Ekaterina Boudanova, Deanna M. Navaroli, and Haley E. Melikian
RNA target specificity of the embryonic cell fate determinant POS-1, Brian M. Farley, John M. Pagano, and Sean P. Ryder
Zinc binding modulates the entire folding free energy surface of human Cu,Zn superoxide dismutase., Can Kayatekin, Jill A. Zitzewitz, and C. Robert Matthews
Model for the peptide-free conformation of class II MHC proteins, Corrie A. Painter, Anthony Cruz, Gustavo E. Lopez, Lawrence J. Stern, and Zarixia Zavala-Ruiz
Non-obese diabetic-recombination activating gene-1 (NOD-Rag1 null) interleukin (IL)-2 receptor common gamma chain (IL2r gamma null) null mice: a radioresistant model for human lymphohaematopoietic engraftment, Todd Pearson, Leonard D. Shultz, David M. Miller, Marie A. King, Joseph Laning, William Fodor, Amy Cuthbert, Lisa M. Burzenski, Bruce Gott, Bonnie L. Lyons, Oded Foreman, Aldo A. Rossini, and Dale L. Greiner
Class II major histocompatibility complex tetramer staining: progress, problems, and prospects, Sabrina S. Vollers and Lawrence J. Stern
Publications from 2007
Coordinated regulation of Toll-like receptor and NOD2 signaling by K63-linked polyubiquitin chains, Derek W. Abbott, Yibin Yang, Jessica E. Hutti, Swetha Madhavarapu, Michelle A. Kelliher, and Lewis C. Cantley
Microsecond hydrophobic collapse in the folding of Escherichia coli dihydrofolate reductase, an alpha/beta-type protein, Munehito Arai, Elena Kondrashkina, Can Kayatekin, C. Robert Matthews, Masahiro Iwakura, and Osman Bilsel
Phosphorylation at serine 208 of the 1alpha,25-dihydroxy Vitamin D3 receptor modulates the interaction with transcriptional coactivators, Gloria Arriagada, Roberto Paredes, Juan Olate, Andre J. Van Wijnen, Jane B. Lian, Gary S. Stein, Janet L. Stein, Sergio Onate, and Martin A. Montecino
Mass spectrometry analysis of HIV-1 Vif reveals an increase in ordered structure upon oligomerization in regions necessary for viral infectivity, Jared R. Auclair, Karin M. Green, Shivender Shandilya, James E. Evans, Mohan Somasundaran, and Celia A. Schiffer
Structural basis of GLUT1 inhibition by cytoplasmic ATP, David M. Blodgett, Julie Kelley De Zutter, Kara B. Levine, Pusha Karim, and Anthony Carruthers
Enterohaemorrhagic and enteropathogenic Escherichia coli Tir proteins trigger a common Nck-independent actin assembly pathway, Michael John Brady, Kenneth Geno Campellone, Megha Ghildiyal, and John M. Leong
Crystallization and preliminary X-ray analysis of a domain in the Runx2 transcription factor that interacts with the 1alpha,25 dihydroxy vitamin D3 receptor, Carola Bruna, Gloria Arriagada, Jane B. Lian, Gary S. Stein, Marta Bunster, Jose Martinez-Oyanedel, and Martin A. Montecino
The 1alpha,25-dihydroxy Vitamin D3 receptor preferentially recruits the coactivator SRC-1 during up-regulation of the osteocalcin gene, Loreto Carvallo, Berta Henriquez, Juan Olate, Andre J. Van Wijnen, Jane B. Lian, Gary S. Stein, Sergio Onate, Janet L. Stein, and Martin A. Montecino
Quantitative analysis of RNA-mediated protein-protein interactions in living cells by FRET, Ya-Lin Chiu, Hong Cao, and Tariq M. Rana
Mutations in the stalk of the measles virus hemagglutinin protein decrease fusion but do not interfere with virus-specific interaction with the homologous fusion protein, Elizabeth Ann Corey and Ronald M. Iorio
Altered selectivity of parathyroid hormone (PTH) and PTH-related protein (PTHrP) for distinct conformations of the PTH/PTHrP receptor, Thomas Dean, Jean-Pierre Vilardaga, John T. Potts, and Thomas James Gardella
TALE-family homeodomain proteins regulate endodermal sonic hedgehog expression and pattern the anterior endoderm, Philip J. Diiorio, Kristen Alexa, Seong-Kyu Choe, Letitiah Etheridge, and Charles G. Sagerstrom
Identification of tau stem loop RNA stabilizers, Christine Patricia Donahue, Jake Ni, Eriks Rozners, Marcie A. Glicksman, and Michael S. Wolfe
YRA1 autoregulation requires nuclear export and cytoplasmic Edc3p-mediated degradation of its pre-mRNA, Shuyun Dong, Chunfang Li, Daniel Zenklusen, Robert H. Singer, Allan Jacobson, and Feng He
Tec kinases in T cell and mast cell signaling, Martin Felices, Markus Falk, Yoko Kosaka, and Leslie J. Berg
Endoplasmic reticulum stress signaling in pancreatic beta-cells, Sonya G. Fonseca, Kathryn L. Lipson, and Fumihiko Urano
The human Rad51 K133A mutant is functional for DNA double-strand break repair in human cells, Anthony L. Forget, Matthew S. Loftus, Dharia A. McGrew, Brian Thomas Bennett, and Kendall L. Knight
Drosophila microRNAs are sorted into functionally distinct argonaute complexes after production by dicer-1, Klaus Forstemann, Michael D. Horwich, LiangMeng Wee, Yukihide Tomari, and Phillip D. Zamore
Microscopic methods for measuring the elasticity of gel substrates for cell culture: microspheres, microindenters, and atomic force microscopy, Margo Tilley Frey, Adam Engler, Dennis E. Discher, Juliet Lee, and Yu-Li Wang
ubiquilin antagonizes presenilin and promotes neurodegeneration in Drosophila, Atish Ganguly, R. M. Renny Feldman, and Ming Guo
Cell cycle dependent phosphorylation and subnuclear organization of the histone gene regulator p220(NPAT) in human embryonic stem cells, Prachi N. Ghule, Klaus A. Becker, J. Wade Harper, Jane B. Lian, Janet L. Stein, Andre J. Van Wijnen, and Gary S. Stein
Danger-free autoimmune disease in Aire-deficient mice, Daniel H. D. Gray, Irina Catrinel Gavanescu, Christophe Benoist, and Diane Mathis
Differential effects of EGF and TGF-beta1 on fibroblast activity in fibrin-based tissue equivalents, Jaime L. Grouf, Angela M. Throm, Jenna L. Balestrini, Katie A. Bush, and Kristen L. Billiar
A chromatin landmark and transcription initiation at most promoters in human cells, Matthew G. Guenther, Stuart S. Levine, Laurie A. Boyer, Rudolf Jaenisch, and Richard A. Young
Chromatin remodeling by SWI/SNF results in nucleosome mobilization to preferential positions in the rat osteocalcin gene promoter, Jose L. Gutierrez, Roberto Paredes, Fernando Cruzat, David A. Hill, Andre J. Van Wijnen, Jane B. Lian, Gary S. Stein, Janet L. Stein, Anthony N. Imbalzano, and Martin A. Montecino
HOXA10 controls osteoblastogenesis by directly activating bone regulatory and phenotypic genes, Mohammad Q. Hassan, Rahul S. Tare, Suk Hee Lee, Matthew Mandeville, Brian Weiner, Martin A. Montecino, Andre J. Van Wijnen, Janet L. Stein, Gary S. Stein, and Jane B. Lian
Evolutionarily conserved structural and functional roles of the FYVE domain, Akira Hayakawa, Susan J. Hayes, Deborah Marie Leonard, David G. Lambright, and Silvia Corvera
In and out of the ER: protein folding, quality control, degradation, and related human diseases, Daniel N. Hebert and Maurizio Molinari
Multispectral quantification of tissue types in a RIF-1 tumor model with histological validation. Part I, Erica C. Henning, Chieko Azuma, Christopher H. Sotak, and Karl G. Helmer
Multispectral tissue characterization in a RIF-1 tumor model: monitoring the ADC and T2 responses to single-dose radiotherapy. Part II, Erica C. Henning, Chieko Azuma, Christopher H. Sotak, and Karl G. Helmer
Verification of enhancement of the CSF space, not parenchyma, in acute stroke patients with early blood-brain barrier disruption, Erica C. Henning, Lawrence L. Latour, and Steven Warach
The transcription factor XBP-1 is essential for the development and survival of dendritic cells, Neal N. Iwakoshi, Marc Pypaert, and Laurie H. Glimcher
A novel alloantigen-specific CD8+PD1+ regulatory T cell induced by ICOS-B7h blockade in vivo, Atsushi Izawa, Kazuhiro Yamaura, Monica J. Albin, Mollie Jurewicz, Katsunori Tanaka, Michael R. Clarkson, Takuya Ueno, Antje Habicht, Gordon J. Freeman, Hideo Yagita, Reza Abdi, Todd Pearson, Dale L. Greiner, Mohamed H. Sayegh, and Nader Najafian
The nucleolar Net1/Cfi1-related protein Dnt1 antagonizes the septation initiation network in fission yeast, Quan-Wen Jin, Samriddha Ray, Sung Hugh Choi, and Dannel McCollum
Drosophila rasiRNA pathway mutations disrupt embryonic axis specification through activation of an ATR/Chk2 DNA damage response, Carla Andrea Klattenhoff, Diana P. Bratu, Nadine Schultz, Birgit S. Koppetsch, Heather A. Cook, and William E. Theurkauf
SWI/SNF is required for transcriptional memory at the yeast GAL gene cluster, Sharmistha Kundu, Peter J. Horn, and Craig L. Peterson
Programmed death-1 (PD-1) defines a transient and dysfunctional oligoclonal T cell population in acute homeostatic proliferation, Sue-Jane Lin, Craig D. Peacock, Kapil Bahl, and Raymond M. Welsh
The interactome of the histone gene regulatory factor HiNF-P suggests novel cell cycle related roles in transcriptional control and RNA processing, Angela Miele, Ricardo F. Medina, Andre J. Van Wijnen, Gary S. Stein, and Janet L. Stein
Nucleosome organization and targeting of SWI/SNF chromatin-remodeling complexes: contributions of the DNA sequence, Martin A. Montecino, Janet L. Stein, Gary S. Stein, Jane B. Lian, Andre J. Van Wijnen, Fernando Cruzat, Soraya E. Gutierrez, Juan Olate, Sylvain Marcellini, and Jose L. Gutierrez
A derivatized scorpion toxin reveals the functional output of heteromeric KCNQ1-KCNE K+ channel complexes, Trevor J. Morin and William R. Kobertz
Molecular basis of RNA recognition by the embryonic polarity determinant MEX-5, John M. Pagano Jr., Brian M. Farley, Lisa M. McCoig, and Sean P. Ryder
The alternative reading frame tumor suppressor antagonizes hypoxia-induced cancer cell migration via interaction with the COOH-terminal binding protein corepressor, Seema Paliwal, Ramesh C. Kovi, Bharath D. Nath, Ya-Wen Chen, Brian C. Lewis, and Steven R. Grossman
Development of Ad-mda7/IL-24-resistant lung cancer cell lines, Abujiang Pataer, Sunil Chada, Jack A. Roth, Kelly K. Hunt, and Stephen G. Swisher
Progress, paradox, and potential: parathyroid hormone research over five decades, John T. Potts and Thomas James Gardella
Effects of vpu start-codon mutations on human immunodeficiency virus type 1 replication in macrophages, Kathryn H. Richards and Paul R. Clapham
Nitrite does not provide additional protection to thrombolysis in a rat model of stroke with delayed reperfusion, Bawarjan Schatlo, Erica C. Henning, Ryszard M. Pluta, Lawrence L. Latour, Nahal Golpayegani, Marsha J. Merrill, Naomi Lewin, Yong Chen, and Edward H. Oldfield
Zebrafish ae2.2 encodes a second slc4a2 anion exchanger, Boris E. Shmukler, Jeffrey S. Clark, Ann Hsu, David H. Vandorpe, Andrew K. Stewart, Christine E. Kurschat, Seong-Kyu Choe, Yi Zhou, Julio D. Amigo, Barry H. Paw, and Seth L. Alper
grp (chk1) replication-checkpoint mutations and DNA damage trigger a Chk2-dependent block at the Drosophila midblastula transition, Saeko Takada, Seongae Kwak, Birgit S. Koppetsch, and William E. Theurkauf
Type 1 IFN mediates cross-talk between innate and adaptive immunity that abrogates transplantation tolerance, Thomas B. Thornley, Nancy E. Phillips, Britte C. Beaudette-Zlatanova, Thomas G. Markees, Kapil Bahl, Michael A. Brehm, Leonard D. Shultz, Evelyn A. Kurt-Jones, John P. Mordes, Raymond M. Welsh, Aldo A. Rossini, and Dale L. Greiner
Fluorogenic probes for monitoring peptide binding to class II MHC proteins in living cells, Prasanna Venkatraman, Tina T. Nguyen, Matthieu Sainlos, Osman Bilsel, Sriram Chitta, Barbara Imperiali, and Lawrence J. Stern
TRAIL is a novel antiviral protein against dengue virus, Rajas V. Warke, Katherine J. Martin, Krisanthi Giaya, Sunil K. Shaw, Alan L. Rothman, and Irene Bosch
A tightly packed hydrophobic cluster directs the formation of an off-pathway sub-millisecond folding intermediate in the alpha subunit of tryptophan synthase, a TIM barrel protein, Ying Wu, Ramakrishna Vadrevu, Sagar V. Kathuria, Xiaoyan Yang, and C. Robert Matthews
Swi3p controls SWI/SNF assembly and ATP-dependent H2A-H2B displacement, Xiaofang Yang, Roser Zaurin, Miguel Beato, and Craig L. Peterson
Long-range side-chain-main-chain interactions play crucial roles in stabilizing the (betaalpha)8 barrel motif of the alpha subunit of tryptophan synthase, Xiaoyan Yang, Ramakrishna Vadrevu, Ying Wu, and C. Robert Matthews
Dissociation of halted T7 RNA polymerase elongation complexes proceeds via a forward-translocation mechanism, Yi Zhou, Deanna M. Navaroli, Metewo Selase Enuameh, and Craig T. Martin
Publications from 2006
The Tec family tyrosine kinases Itk and Rlk regulate the development of conventional CD8+ T cells, Luana O. Atherly, Julie Ann Lucas, Martin Felices, Catherine C. Yin, Steven L. Reiner, and Leslie J. Berg
Reconstitution of Runx2/Cbfa1-null cells identifies a requirement for BMP2 signaling through a Runx2 functional domain during osteoblast differentiation, Jong-Sup Bae, Soraya E. Gutierrez, Radhika Narla, Jitesh Pratap, Rajitha Devados, Andre J. Van Wijnen, Janet L. Stein, Gary S. Stein, Jane B. Lian, and Amjad Javed
IFN-induced attrition of CD8 T cells in the presence or absence of cognate antigen during the early stages of viral infections, Kapil Bahl, Sung-Kwon Kim, Claudia Calcagno, Dario Ghersi, Roberto Puzone, Franco Celada, Liisa K. Selin, and Raymond M. Welsh
Self-renewal of human embryonic stem cells is supported by a shortened G1 cell cycle phase, Klaus A. Becker, Prachi N. Ghule, Jaclyn A. Therrien, Jane B. Lian, Janet L. Stein, Andre J. Van Wijnen, and Gary S. Stein
Establishment of histone gene regulation and cell cycle checkpoint control in human embryonic stem cells, Klaus A. Becker, Janet L. Stein, Jane B. Lian, Andre J. Van Wijnen, and Gary S. Stein
H2AX chromatin structures and their response to DNA damage revealed by 4Pi microscopy, Jorg Bewersdorf, Brian Thomas Bennett, and Kendall L. Knight
The classic receptor for 1alpha,25-dihydroxy vitamin D3 is required for non-genomic actions of 1alpha,25-dihydroxy vitamin D3 in osteosarcoma cells, Soraya Bravo, Roberto Paredes, Pamela Izaurieta, Jane B. Lian, Janet L. Stein, Gary S. Stein, Maria Victoria Hinrichs, Juan Olate, Luis G. Aguayo, and Martin A. Montecino
Enterohaemorrhagic Escherichia coli Tir requires a C-terminal 12-residue peptide to initiate EspF-mediated actin assembly and harbours N-terminal sequences that influence pedestal length, Kenneth Geno Campellone, Michael John Brady, Judith G. Alamares, Daniel C. Rowe, Brian M. Skehan, Donald J. Tipper, and John M. Leong
KCNE1 subunits require co-assembly with K+ channels for efficient trafficking and cell surface expression, Kshama D. Chandrasekhar, Tuba Bas, and William R. Kobertz
S. pombe FEAR protein orthologs are not required for release of Clp1/Flp1 phosphatase from the nucleolus during mitosis, Chun-Ti Chen, Marie-Pierre Peli-Gulli, Viesturs Simanis, and Dannel McCollum