Undergraduate Publications

One of the most valuable aspects of a Brandeis education is the opportunity to carry out cutting-edge research in collaboration with faculty, graduate students and postdocs. There are many research opportunities in laboratories in the science departments at Brandeis. Many students begin working in labs as early as their first semester, while others may start as juniors. Often, the research leads up to publication of a Senior Honors Thesis. Since 2003, Brandeis undergraduates have been co-authors on almost 260 peer-reviewed research publications in scientific journals.

 

undergrad-pubs-2003-2016

Names of undergraduate students from Brandeis are indicated below in bold face

2017

  1. Ritter NJ, Anderson NM, Van Hooser SD. Visual stimulus speed does not influence the rapid emergence of direction selectivity in ferret visual cortex. J Neurosci. 2017.
  2. Zhou J, Du X, Wang J, Yamagata N, Xu B. Enzyme-instructed self-assembly of peptides containing phosphoserine to form supramolecular hydrogels as potential soft biomaterials. Frontiers of Chemical Science and Engineering. 2017.
  3. Zhou N, Cao X, Du X, Wang H, Wang M, Liu S, Nguyen K, Schmidt-Rohr K, Xu Q, Liang G, Xu B. Hyper-Crosslinkers Lead to Temperature- and pH-Responsive Polymeric Nanogels with Unusual Volume Change. Angew Chem Int Ed Engl. 2017.
  4. Eapen VV, Waterman DP, Bernard A, Schiffmann N, Sayas E, Kamber R, Lemos B, Memisoglu G, Ang J, Mazella A, Chuartzman SG, Loewith RJ, Schuldiner M, Denic V, Klionsky DJ, Haber JE. A pathway of targeted autophagy is induced by DNA damage in budding yeast. Proc Natl Acad Sci U S A. 2017.
  5. Otopalik AG, Goeritz ML, Sutton AC, Brookings T, Guerini CJ, Marder E. Sloppy morphological tuning in identified neurons of the crustacean stomatogastric ganglion. eLife. 2017;6.
  6. Abruzzi KC, Zadina A, Luo W, Wiyanto E, Rahman R, Guo F, Shafer O, Rosbash M. RNA-seq analysis of Drosophila clock and non-clock neurons reveals neuron-specific cycling and novel candidate neuropeptides. Plos Genet. 2017;13(2):e1006613.
  7. Keller AS, Payne L, Sekuler R. Characterizing the roles of alpha and theta oscillations in multisensory attention. Neuropsychologia. 2017.
  8. Morehouse BR, Kumar RP, Matos JO, Olsen SN, Entova S, Oprian DD. Functional and Structural Characterization of a (+)-Limonene Synthase from Citrus sinensis. Biochemistry. 2017.
  9. Kumar RP, Morehouse BR, Matos JO, Malik K, Lin H, Krauss IJ, Oprian DD. Structural Characterization of Early Michaelis Complexes in the Reaction Catalyzed by (+)-Limonene Synthase from Citrus sinensis Using Fluorinated Substrate Analogues. Biochemistry. 2017.
  10. Wu R, Sanishvili R, Belitsky BR, Juncosa JI, Le HV, Lehrer HJS, Farley M, Silverman RB, Petsko GA, Ringe D, Liu D. PLP and GABA trigger GabR-mediated transcription regulation in Bacillus subtilis via external aldimine formation. Proc Natl Acad Sci U S A. 2017.
  11. Nahmani M, Lanahan C, DeRosier D, Turrigiano GG. High-numerical-aperture cryogenic light microscopy for increased precision of superresolution reconstructions. Proc Natl Acad Sci U S A. 2017.
  12. Da Veiga Beltrame E, Tyrwhitt-Drake J, Roy I, Shalaby R, Suckale J, Pomeranz Krummel D. 3D Printing of Biomolecular Models for Research and Pedagogy. J Vis Exp. 2017(121).
  13. Naffin-Olivos JL, Daab A, White A, Goldfarb NE, Milne AC, Liu D, Baikovitz J, Dunn BM, Rengarajan J, Petsko GA, Ringe D. Structure Determination of Mycobacterium tuberculosis Serine Protease Hip1 (Rv2224c). Biochemistry. 2017.

2016

  1. Puvenna V, Engeler M, Banjara M, Brennan C, Schreiber P, Dadas A, Bahrami A, Solanki J, Bandyopadhyay A, Morris JK, Bernick C, Ghosh C, Bazarian JJ, Janigro D. Is phosphorylated tau unique to chronic traumatic encephalopathy? Phosphorylated tau in epileptic brain and chronic traumatic encephalopathy. Brain Res. 2016;1630:225-40.
  2. 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:jn 00311 2015.
  3. 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.
  4. Steindel PA, Chen EH, Wirth JD, Theobald DL. Gradual neofunctionalization in the convergent evolution of trichomonad lactate and malate dehydrogenases. Protein Sci. 2016.
  5. 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.
  6. Arora GK, Tran SL, Rizzo N, Jain A, Welte MA. Temporal control of bidirectional lipid-droplet motion depends on the ratio of kinesin-1 and its cofactor Halo. Journal of Cell Science. 2016.
  7. 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. Scientific reports. 2016;6:22035.
  8. Wang AL, Gold JM, Tompkins N, Heymann M, Harrington KI, Fraden S. Configurable NOR gate arrays from Belousov-Zhabotinsky micro-droplets. The European Physical Journal Special Topics. 2016;225(1):211-27.
  9. 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. Current Biology. 2016.
  10. 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.
  11. 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.
  12. 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.. [science blog]
  13. 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.
  14. Deshpande AR, Wagenpfeil K, Pochapsky TC, Petsko GA, Ringe D. Metal-Dependent Function of a Mammalian Acireductone Dioxygenase. Biochemistry. 2016;55(9):1398-407.
  15. 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.
  16. 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.
  17. 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.
  18. Greenwald E, Yuki K. A translational consideration of intercellular adhesion molecule-1 biology in the perioperative setting. Transl Perioper Pain Med. 2016;1(2):17-23.
  19. Ekesan S, Lin DY, Herzfeld J. Magnetism and Bond Order in Diatomic Molecules Described by Semi-Classical Electrons. J Phys Chem B. 2016.
  20. 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.
  21. 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. Frontiers in Psychology. 2016; 7:7892016.
  22. Gaskins DK, Pruc EE, Epstein IR, Dolnik M. Multifold Increases in Turing Pattern Wavelength in the Chlorine Dioxide-Iodine-Malonic Acid Reaction-Diffusion System. Physical Review Letters. 2016;117(5).
  23. Sands M, Garbacz A, Isaacowitz DM. Just Change the Channel? Studying Effects of Age on Emotion Regulation Using a TV Watching Paradigm. Social Psychological and Personality Science. 2016.
  24. Guo F, Yu J, Jung HJ, Abruzzi KC, Luo W, Griffith LC, Rosbash M. Circadian neuron feedback controls the Drosophila sleep-activity profile. Nature. 2016
  25. Wang W, Nguyen LT, Burlak C, Chegini F, Guo F, Chataway T, Ju S, Fisher OS, Miller DW, Datta D, Wu F, Wu CX, Landeru A, Wells JA, Cookson MR, Boxer MB, Thomas CJ, Gai WP, Ringe D, Petsko GA, Hoang QQ. Caspase-1 causes truncation and aggregation of the Parkinson’s disease-associated protein α-synuclein. Proc Natl Acad Sci U S A. 2016.
  26. Deshpande M, Feiger Z, Shilton AK, Luo CC, Silverman E, Rodal AA. Role of BMP receptor traffic in synaptic growth defects in an ALS model. Mol Biol Cell. 2016.
  27. Wang H, Feng Z, Wu D, Fritzsching KJ, Rigney M, Zhou J, Jiang Y, Schmidt-Rohr K, Xu B. Enzyme-Regulated Supramolecular Assemblies of Cholesterol Conjugates against Drug-Resistant Ovarian Cancer Cells. J Am Chem Soc. 2016.
  28. Steinmetz CC, Tatavarty V, Sugino K, Shima Y, Joseph A, Lin H, Rutlin M, Lambo M, Hempel CM, Okaty BW, Paradis S, Nelson SB, Turrigiano G. Upregulation of μ3A Drives Homeostatic Plasticity by Rerouting AMPAR into the Recycling Endosomal Pathway. Cell reports. 2016.
  29. Stanishneva-Konovalova TB, Kelley CF, Eskin TL, Messelaar EM, Wasserman SA, Sokolova OS, Rodal AA. Coordinated autoinhibition of F-BAR domain membrane binding and WASp activation by Nervous Wreck. Proc Natl Acad Sci U S A. 2016.
  30. Levitan D, Fortis-Santiago Y, Figueroa JA, Reid EE, Yoshida T, Barry NC, Russo A, Katz DB. Memory Retrieval Has a Dynamic Influence on the Maintenance Mechanisms That Are Sensitive to zeta-Inhibitory Peptide (ZIP). J Neurosci. 2016;36(41):10654-62.
  31. Sirianni NM, Yuan H, Rice JE, Kaufman RS, Deng J, Fulton C, Wangh LJ. Closed-Tube Barcoding. Genome. 2016:1-13.
  32. Haburcak R, Shi J, Du X, Yuan D, Xu B. Ligand-Receptor Interaction Modulates the Energy Landscape of Enzyme-Instructed Self-Assembly of Small Molecules. J Am Chem Soc. 2016.
  33. Alioto SL, Garabedian MV, Bellavance DR, Goode BL. Tropomyosin and Profilin Cooperate to Promote Formin-Mediated Actin Nucleation and Drive Yeast Actin Cable Assembly. Curr Biol. 2016.
  34. O’Toole SM, Ferrer MM, Mekonnen J, Zhang H, Shima Y, Ladle DR, Nelson SB. Dicer maintains the identity and function of proprioceptive sensory neurons. J Neurophysiol. 2016:jn 00763 2016.
  35. Li J, Du X, Hashim S, Shy A, Xu B. Aromatic-Aromatic Interactions Enable alpha-Helix to beta-Sheet Transition of Peptides to Form Supramolecular Hydrogels. J Am Chem Soc. 2016.
  36. Toombs JA, Sytnikova YA, Chirn GW, Ang I, Lau NC, Blower MD. Xenopus Piwi proteins interact with a broad proportion of the oocyte transcriptome. RNA. 2016.
  37. Mehta A, Beach A, Haber JE. Homology Requirements and Competition between Gene Conversion and Break-Induced Replication during Double-Strand Break Repair. Mol Cell. 2016.