Selected 2016 Publications
  • Amichetti NM, White AG, Wingfield A. Multiple Solutions to the Same Problem: Utilization of Plausibility and Syntax in Sentence Comprehension by Older Adults with Impaired Hearing. Front Psychol. 2016;7:789. [abstract].

  • Baez-Santiago MA, Reid EE, Moran A, Maier JX, Marrero-Garcia Y, Katz DB. Dynamic taste responses of parabrachial pontine neurons in awake rats. J Neurophysiol. 2016;115(3):1314-23. [abstract].

  • Bai C, Herzfeld J. Surface Propensities of the Self-Ions of Water. ACS Cent Sci. 2016;2(4):225-31. [abstract].

  • Braun M, Lansky Z, Hilitski F, Dogic Z, Diez S. Entropic forces drive contraction of cytoskeletal networks. Bioessays. 2016;38(5):474-81. [abstract].

  • Cannon J, Miller P. Synaptic and intrinsic homeostasis cooperate to optimize single neuron response properties and tune integrator circuits. J Neurophysiol. 2016:jn 00253 2016. [abstract].

  • Chakrabarti KS, Agafonov RV, Pontiggia F, Otten R, Higgins MK, Schertler GF, Oprian DD, Kern D. Conformational Selection in a Protein-Protein Interaction Revealed by Dynamic Pathway Analysis. Cell Rep. 2016;14(1):32-42. [abstract] [full text in PubMed Central].

  • Chen X, Rosbash M. mir-276a strengthens Drosophila circadian rhythms by regulating timeless expression. Proc Natl Acad Sci U S A. 2016;113(21):E2965-72. [abstract] [full text in PubMed Central].

  • Chin SM, Jansen S, Goode BL. TIRF microscopy analysis of human Cof1, Cof2, and ADF effects on actin filament severing and turnover. J Mol Biol. 2016;428(8):1604-16. [abstract] [full text in PubMed Central].

  • Coffey RT, Shi Y, Long MJ, Marr MT, 2nd, Hedstrom L. Ubiquilin-mediated Small Molecule Inhibition of Mammalian Target of Rapamycin Complex 1 (mTORC1) Signaling. J Biol Chem. 2016;291(10):5221-33. [abstract] [full text in PubMed Central].

  • Colthart AM, Tietz DR, Ni Y, Friedman JL, Dang M, Pochapsky TC. Detection of substrate-dependent conformational changes in the P450 fold by nuclear magnetic resonance. Sci Rep. 2016;6:22035. [abstract] [full text in PubMed Central].

  • Cooper DL, Lovett ST. Recombinational branch migration by the RadA/Sms paralog of RecA in Escherichia coli. Elife. 2016;5. [abstract] [full text in PubMed Central].

  • DeCaro R, Peelle JE, Grossman M, Wingfield A. The Two Sides of Sensory-Cognitive Interactions: Effects of Age, Hearing Acuity, and Working Memory Span on Sentence Comprehension. Front Psychol. 2016;7:236. [abstract] [full text in PubMed Central].

  • Deshpande AR, Wagenpfeil K, Pochapsky TC, Petsko GA, Ringe D. Metal-Dependent Function of a Mammalian Acireductone Dioxygenase. Biochemistry. 2016;55(9):1398-407. [abstract].

  • Deshpande M, Rodal AA. The Crossroads of Synaptic Growth Signaling, Membrane Traffic and Neurological Disease: Insights from Drosophila. Traffic. 2016;17(2):87-101. [abstract].

  • Devine JK, Wolf JM. Determinants of cortisol awakening responses to naps and nighttime sleep. Psychoneuroendocrinology. 2016;63:128-34. [abstract].

  • Devine JK, Wolf JM. Integrating nap and night-time sleep into sleep patterns reveals differential links to health-relevant outcomes. J Sleep Res. 2016;25(2):225-33. [abstract].

  • Dogic Z. Filamentous Phages As a Model System in Soft Matter Physics. Front Microbiol. 2016;7:1013. [abstract] [full text in PubMed Central].

  • Donovan MR, Marr MT, 2nd. dFOXO Activates Large and Small Heat Shock Protein Genes in Response to Oxidative Stress to Maintain Proteostasis in Drosophila. J Biol Chem. 2016. [abstract].

  • Eichner T, Kutter S, Labeikovsky W, Buosi V, Kern D. Molecular Mechanism of Pin1-Tau Recognition and Catalysis. J Mol Biol. 2016;428(9 Pt A):1760-75. [abstract].

  • Ekesan S, Lin DY, Herzfeld J. Magnetism and Bond Order in Diatomic Molecules Described by Semiclassical Electrons. J Phys Chem B. 2016;120(26):6264-9. [abstract].

  • Epstein IR, Xu B. Reaction-diffusion processes at the nano- and microscales. Nat Nanotechnol. 2016;11(4):312-9. [abstract].

  • Eskin JA, Rankova A, Johnston AB, Alioto SL, Goode BL. Common formin-regulating sequences in Smy1 and Bud14 are required for the control of actin cable assembly in vivo. Mol Biol Cell. 2016;27(5):828-37. [abstract] [full text in PubMed Central].

  • Flores VL, Moran A, Bernstein M, Katz DB. Preexposure to salty and sour taste enhances conditioned taste aversion to novel sucrose. Learn Mem. 2016;23(5):221-8. [abstract] [full text in PubMed Central].

  • Fritz-Laylin LK, Fulton C. Naegleria: a classic model for de novo basal body assembly. Cilia. 2016;5:10. [abstract] [full text in PubMed Central].

  • Fritz-Laylin LK, Levy YY, Levitan E, Chen S, Cande WZ, Lai EY, Fulton C. Rapid centriole assembly in Naegleria reveals conserved roles for both de novo and mentored assembly. Cytoskeleton (Hoboken). 2016;73(3):109-16. [abstract].

  • Gjorgjieva J, Drion G, Marder E. Computational implications of biophysical diversity and multiple timescales in neurons and synapses for circuit performance. Curr Opin Neurobiol. 2016;37:44-52. [abstract] [full text in PubMed Central].

  • Gjorgjieva J, Evers JF, Eglen SJ. Homeostatic Activity-Dependent Tuning of Recurrent Networks for Robust Propagation of Activity. J Neurosci. 2016;36(13):3722-34. [abstract] [full text in PubMed Central].

  • Habecker BA, Anderson ME, Birren SJ, Fukuda K, Herring N, Hoover DB, Kanazawa H, Paterson DJ, Ripplinger CM. Molecular and cellular neurocardiology: development, and cellular and molecular adaptations to heart disease. J Physiol. 2016;594(14):3853-75. [abstract] [full text in PubMed Central].

  • Haber JE. The rule of three. Nat Rev Mol Cell Biol. 2016;17(6):333. [abstract].

  • Hadar B, Skrzypek JE, Wingfield A, Ben-David BM. Working Memory Load Affects Processing Time in Spoken Word Recognition: Evidence from Eye-Movements. Front Neurosci. 2016;10:221. [abstract] [full text in PubMed Central].

  • Haefner RM, Berkes P, Fiser J. Perceptual Decision-Making as Probabilistic Inference by Neural Sampling. Neuron. 2016;90(3):649-60. [abstract].

  • Hagan MF, Zandi R. Recent advances in coarse-grained modeling of virus assembly. Curr Opin Virol. 2016;18:36-43. [abstract].

  • Halpin JC, Huang B, Sun M, Street TO. Crowding Activates Heat Shock Protein 90. J Biol Chem. 2016;291(12):6447-55. [abstract] [full text in PubMed Central].

  • Harden TT, Wells CD, Friedman LJ, Landick R, Hochschild A, Kondev J, Gelles J. Bacterial RNA polymerase can retain sigma70 throughout transcription. Proc Natl Acad Sci U S A. 2016;113(3):602-7. [abstract] [full text in PubMed Central].

  • Hengen KB, Torrado Pacheco A, McGregor JN, Van Hooser SD, Turrigiano GG. Neuronal Firing Rate Homeostasis Is Inhibited by Sleep and Promoted by Wake. Cell. 2016;165(1):180-91. [abstract] [full text in PubMed Central].

  • Henty-Ridilla JL, Rankova A, Eskin JA, Kenny K, Goode BL. Accelerated actin filament polymerization from microtubule plus ends. Science. 2016;352(6288):1004-9. [abstract].

  • Hoskins AA, Rodgers ML, Friedman LJ, Gelles J, Moore MJ. Single molecule analysis reveals reversible and irreversible steps during spliceosome activation. Elife. 2016;5. [abstract].

  • Jadhav SP, Rothschild G, Roumis DK, Frank LM. Coordinated Excitation and Inhibition of Prefrontal Ensembles during Awake Hippocampal Sharp-Wave Ripple Events. Neuron. 2016;90(1):113-27. [abstract] [full text in PubMed Central].

  • Jain S, Sugawara N, Haber JE. Role of Double-Strand Break End-Tethering during Gene Conversion in Saccharomyces cerevisiae. PLoS Genet. 2016;12(4):e1005976. [abstract] [full text in PubMed Central].

  • Jain S, Sugawara N, Mehta A, Ryu T, Haber JE. Sgs1 and Mph1 Helicases Enforce the Recombination Execution Checkpoint During DNA Double-Strand Break Repair in Saccharomyces cerevisiae. Genetics. 2016;203(2):667-75. [abstract] [full text in PubMed Central].

  • Jasin M, Haber JE. The democratization of gene editing: Insights from site-specific cleavage and double-strand break repair. DNA Repair (Amst). 2016. [abstract].

  • Jonasson EM, Rossio V, Hatakeyama R, Abe M, Ohya Y, Yoshida S. Zds1/Zds2-PP2ACdc55 complex specifies signaling output from Rho1 GTPase. J Cell Biol. 2016;212(1):51-61. [abstract] [full text in PubMed Central].

  • Jungmann R, Avendano MS, Dai M, Woehrstein JB, Agasti SS, Feiger Z, Rodal A, Yin P. Quantitative super-resolution imaging with qPAINT. Nat Methods. 2016;13(5):439-42. [abstract].

  • Krauss IJ. Antibody recognition of HIV and dengue glycoproteins. Glycobiology. 2016. [abstract].

  • Kutter S, Eichner T, Deaconescu AM, Kern D. Regulation of Microtubule Assembly by Tau and not by Pin1. J Mol Biol. 2016;428(9 Pt A):1742-59. [abstract].

  • Last NB, Kolmakova-Partensky L, Shane T, Miller C. Mechanistic signs of double-barreled structure in a fluoride ion channel. Elife. 2016;5. [abstract].

  • Laxmikanthan G, Xu C, Brilot AF, Warren D, Steele L, Seah N, Tong W, Grigorieff N, Landy A, Van Duyne GD. Structure of a Holliday junction complex reveals mechanisms governing a highly regulated DNA transaction. Elife. 2016;5. [abstract] [full text in PubMed Central].

  • Lazaro GR, Hagan MF. Allosteric Control of Icosahedral Capsid Assembly. J Phys Chem B. 2016;120(26):6306-18. [abstract].

  • Lee CS, Wang RW, Chang HH, Capurso D, Segal MR, Haber JE. Chromosome position determines the success of double-strand break repair. Proc Natl Acad Sci U S A. 2016;113(2):E146-54. [abstract] [full text in PubMed Central].

  • Lee YS, Min NE, Wingfield A, Grossman M, Peelle JE. Acoustic richness modulates the neural networks supporting intelligible speech processing. Hear Res. 2016;333:108-17. [abstract] [full text in PubMed Central].

  • Leshikar ED, Cassidy BS, Gutchess AH. Similarity to the self influences cortical recruitment during impression formation. Cogn Affect Behav Neurosci. 2016;16(2):302-14. [abstract] [full text in PubMed Central].

  • Levy-Tzedek S, Maidenbaum S, Amedi A, Lackner J. Aging and Sensory Substitution in a Virtual Navigation Task. PLoS One. 2016;11(3):e0151593. [abstract] [full text in PubMed Central].

  • Li JX, Maier JX, Reid EE, Katz DB. Sensory Cortical Activity Is Related to the Selection of a Rhythmic Motor Action Pattern. J Neurosci. 2016;36(20):5596-607. [abstract] [full text in PubMed Central].

  • Lisman J. Low-Frequency Brain Oscillations in Schizophrenia. JAMA Psychiatry. 2016;73(3):298-9. [abstract].

  • Loveland AB, Bah E, Madireddy R, Zhang Y, Brilot AF, Grigorieff N, Korostelev AA. Ribosome*RelA structures reveal the mechanism of stringent response activation. Elife. 2016;5. [abstract].

  • Marder E. The rites of spring, Take 2. Elife. 2016;5. [abstract] [full text in PubMed Central].

  • Marder E, Gutierrez G, Nusbaum MP. Complicating connectomes: Electrical coupling creates parallel pathways and degenerate circuit mechanisms. Dev Neurobiol. 2016. [abstract].

  • McMahon AC, Rahman R, Jin H, Shen JL, Fieldsend A, Luo W, Rosbash M. TRIBE: Hijacking an RNA-Editing Enzyme to Identify Cell-Specific Targets of RNA-Binding Proteins. Cell. 2016;165(3):742-53. [abstract].

  • Mensink RP, Sanders TA, Baer DJ, Hayes KC, Howles PN, Marangoni A. The Increasing Use of Interesterified Lipids in the Food Supply and Their Effects on Health Parameters. Adv Nutr. 2016;7(4):719-29. [abstract].

  • Miller P. Itinerancy between attractor states in neural systems. Curr Opin Neurobiol. 2016;40:14-22. [abstract].

  • Miller P. Dynamical systems, attractors, and neural circuits. F1000Res. 2016;5. [abstract] [full text in PubMed Central].

  • Mohapatra L, Goode BL, Jelenkovic P, Phillips R, Kondev J. Design Principles of Length Control of Cytoskeletal Structures. Annu Rev Biophys. 2016;45:85-116. [abstract].

  • Nakajima Y, Haber JE. Chromosomes at loose ends. Nat Cell Biol. 2016;18(3):257-9. [abstract].

  • Neal SJ, Park J, DiTirro D, Yoon J, Shibuya M, Choi W, Schroeder FC, Butcher RA, Kim K, Sengupta P. A Forward Genetic Screen for Molecules Involved in Pheromone-Induced Dauer Formation in Caenorhabditis elegans. G3 (Bethesda). 2016;6(5):1475-87. [abstract] [full text in PubMed Central].

  • Ni L, Klein M, Svec KV, Budelli G, Chang EC, Ferrer AJ, Benton R, Samuel AD, Garrity PA. The Ionotropic Receptors IR21a and IR25a mediate cool sensing in Drosophila. Elife. 2016;5. [abstract] [full text in PubMed Central].

  • O'Hare JK, Ade KK, Sukharnikova T, Van Hooser SD, Palmeri ML, Yin HH, Calakos N. Pathway-Specific Striatal Substrates for Habitual Behavior. Neuron. 2016;89(3):472-9. [abstract] [full text in PubMed Central].

  • Paige LE, Cassidy BS, Schacter DL, Gutchess AH. Age differences in hippocampal activation during gist-based false recognition. Neurobiol Aging. 2016;46:76-83. [abstract].

  • Parisky KM, Agosto Rivera JL, Donelson NC, Kotecha S, Griffith LC. Reorganization of Sleep by Temperature in Drosophila Requires Light, the Homeostat, and the Circadian Clock. Curr Biol. 2016;26(7):882-92. [abstract].

  • Peelle JE, Wingfield A. The Neural Consequences of Age-Related Hearing Loss. Trends Neurosci. 2016;39(7):486-97. [abstract] [full text in PubMed Central].

  • Perkett MR, Mirijanian DT, Hagan MF. The allosteric switching mechanism in bacteriophage MS2. J Chem Phys. 2016;145(3):035101. [abstract].

  • Perlmutter JD, Mohajerani F, Hagan MF. Many-molecule encapsulation by an icosahedral shell. Elife. 2016;5. [abstract].

  • Rice LM, Reis AH, Jr., Wangh LJ. Virtual Barcoding using LATE-PCR and Lights-On/Lights-Off probes: identification of nematode species in a closed-tube reaction. Mitochondrial DNA. 2016;27(2):1358-63. [abstract].

  • Rosa NM, Deason RG, Budson AE, Gutchess AH. Source Memory for Self and Other in Patients With Mild Cognitive Impairment due to Alzheimer's Disease. J Gerontol B Psychol Sci Soc Sci. 2016;71(1):59-65. [abstract] [full text in PubMed Central].

  • Roy A, Osik JJ, Ritter NJ, Wang S, Shaw JT, Fiser J, Van Hooser SD. Optogenetic spatial and temporal control of cortical circuits on a columnar scale. J Neurophysiol. 2016;115(2):1043-62. [abstract] [full text in PubMed Central].

  • Sadacca BF, Mukherjee N, Vladusich T, Li JX, Katz DB, Miller P. The Behavioral Relevance of Cortical Neural Ensemble Responses Emerges Suddenly. J Neurosci. 2016;36(3):655-69. [abstract] [full text in PubMed Central].

  • Shima Y, Sugino K, Hempel CM, Shima M, Taneja P, Bullis JB, Mehta S, Lois C, Nelson SB. A Mammalian enhancer trap resource for discovering and manipulating neuronal cell types. Elife. 2016;5. [abstract] [full text in PubMed Central].

  • Sims JR, Ow MC, Nishiguchi MA, Kim K, Sengupta P, Hall SE. Developmental programming modulates olfactory behavior in C. elegans via endogenous RNAi pathways. Elife. 2016;5. [abstract].

  • Steindel PA, Chen EH, Wirth JD, Theobald DL. Gradual neofunctionalization in the convergent evolution of trichomonad lactate and malate dehydrogenases. Protein Sci. 2016. [abstract].

  • Taher M, Nakao S, Zandi S, Melhorn MI, Hayes KC, Hafezi-Moghadam A. Phenotypic transformation of intimal and adventitial lymphatics in atherosclerosis: a regulatory role for soluble VEGF receptor 2. FASEB J. 2016. [abstract].

  • Takeishi A, Yu YV, Hapiak VM, Bell HW, O'Leary T, Sengupta P. Receptor-type Guanylyl Cyclases Confer Thermosensory Responses in C. elegans. Neuron. 2016;90(2):235-44. [abstract] [full text in PubMed Central].

  • Theobald DL. Presenilin adopts the ClC channel fold. Protein Sci. 2016;25(7):1363-5. [abstract] [full text in PubMed Central].

  • Tsabar M, Haase J, Harrison B, Snider CE, Eldridge B, Kaminsky L, Hine RM, Haber JE, Bloom K. A Cohesin-Based Partitioning Mechanism Revealed upon Transcriptional Inactivation of Centromere. PLoS Genet. 2016;12(4):e1006021. [abstract] [full text in PubMed Central].

  • Tsabar M, Waterman DP, Aguilar F, Katsnelson L, Eapen VV, Memisoglu G, Haber JE. Asf1 facilitates dephosphorylation of Rad53 after DNA double-strand break repair. Genes Dev. 2016;30(10):1211-24. [abstract] [full text in PubMed Central].

  • Tsai MF, Phillips CB, Ranaghan M, Tsai CW, Wu Y, Willliams C, Miller C. Dual functions of a small regulatory subunit in the mitochondrial calcium uniporter complex. Elife. 2016;5. [abstract] [full text in PubMed Central].

  • Vienne J, Spann R, Guo F, Rosbash M. Age-Related Reduction of Recovery Sleep and Arousal Threshold in. Sleep. 2016. [abstract].

  • Vimal VP, Lackner JR, DiZio P. Learning dynamic control of body roll orientation. Exp Brain Res. 2016;234(2):483-92. [abstract] [full text in PubMed Central].

  • Wang H, Feng Z, Xu B. D-amino acid-containing supramolecular nanofibers for potential cancer therapeutics. Adv Drug Deliv Rev. 2016. [abstract].

  • Xie S, Pelcovits RA, Hagan MF. Probing a self-assembled fd virus membrane with a microtubule. Phys Rev E. 2016;93(6-1):062608. [abstract].

  • Yimit A, Kim T, Anand RP, Meister S, Ou J, Haber JE, Zhang Z, Brown GW. MTE1 Functions with MPH1 in Double-Strand Break Repair. Genetics. 2016;203(1):147-57. [abstract] [full text in PubMed Central].

  • Zhou J, Du X, Xu B. Regulating the Rate of Molecular Self-Assembly for Targeting Cancer Cells. Angew Chem Int Ed Engl. 2016;55(19):5770-5. [abstract].

  • Zhou J, Du X, Yamagata N, Xu B. Enzyme-Instructed Self-Assembly of Small d-Peptides as a Multiple-Step Process for Selectively Killing Cancer Cells. J Am Chem Soc. 2016;138(11):3813-23. [abstract] [full text in PubMed Central].

  • Zhou R, Kuang Y, Zhou J, Du X, Li J, Shi J, Haburcak R, Xu B. Nanonets Collect Cancer Secretome from Pericellular Space. PLoS One. 2016;11(4):e0154126. [abstract] [full text in PubMed Central].

 
 
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