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2015 Publications

31 publications listed for 2015

  1. Kain, JS, Zhang, S, Akhund-Zade, J, Samuel, AD, Klein, M, and de, BL. (2015) Variability in thermal and phototactic preferences in Drosophila may reflect an adaptive bet-hedging strategy. Evolution, 69(12):3171-85.
  2. Dengler, V, Foulston, L, DeFrancesco, AS, and Losick, R. (2015) An Electrostatic Net Model for the Role of Extracellular DNA in Biofilm Formation by Staphylococcus aureus. J Bacteriol, 197(24):3779-87.
  3. Ye, Z, Mostajo-Radji, MA, Brown, JR, Rouaux, C, Tomassy, GS, Hensch, TK, and Arlotta, P. (2015) Instructing Perisomatic Inhibition by Direct Lineage Reprogramming of Neocortical Projection Neurons. Neuron, 88(3):475-83.
  4. Brewster, MS, and Gaudet, R. (2015) How the TRPA1 receptor transmits painful stimuli: Inner workings revealed by electron cryomicroscopy. Bioessays, 37(11):1184-92.
  5. Randlett, O, Wee, CL, Naumann, EA, Nnaemeka, O, Schoppik, D, Fitzgerald, JE, Portugues, R, Lacoste, AM, Riegler, C, Engert, F, and Schier, AF. (2015) Whole-brain activity mapping onto a zebrafish brain atlas. Nat Methods, 12(11):1039-46.
  6. Kiani, S, Chavez, A, Tuttle, M, Hall, RN, Chari, R, Ter-Ovanesyan, D, Qian, J, Pruitt, BW, Beal, J, Vora, S, Buchthal, J, Kowal, EJ, Ebrahimkhani, MR, Collins, JJ, Weiss, R, and Church, G. (2015) Cas9 gRNA engineering for genome editing, activation and repression. Nat Methods, 12(11):1051-4.
  7. Pauli, A, Montague, TG, Lennox, KA, Behlke, MA, and Schier, AF. (2015) Antisense Oligonucleotide-Mediated Transcript Knockdown in Zebrafish. PLoS One, 10(10):e0139504.
  8. Hubbard, BP, Badran, AH, Zuris, JA, Guilinger, JP, Davis, KM, Chen, L, Tsai, SQ, Sander, JD, Joung, JK, and Liu, DR. (2015) Continuous directed evolution of DNA-binding proteins to improve TALEN specificity. Nat Methods, 12(10):939-42.
  9. Menegas, W, Bergan, JF, Ogawa, SK, Isogai, Y, Umadevi, K, Osten, P, Uchida, N, and Watabe-Uchida, M. (2015) Dopamine neurons projecting to the posterior striatum form an anatomically distinct subclass. Elife, 4:e10032.
  10. Kuo, SY, Castoreno, AB, Aldrich, LN, Lassen, KG, Goel, G, Dank, V, Kuballa, P, Latorre, I, Conway, KL, Sarkar, S, Maetzel, D, Jaenisch, R, Clemons, PA, Schreiber, SL, Shamji, AF, and Xavier, RJ. (2015) Small-molecule enhancers of autophagy modulate cellular disease phenotypes suggested by human genetics. Proc Natl Acad Sci U S A, 112(31):E4281-7.
  11. Eun, YJ, Kapoor, M, Hussain, S, and Garner, EC. (2015) Bacterial Filament Systems: Toward Understanding Their Emergent Behavior and Cellular Functions. J Biol Chem, 290(28):17181-9.
  12. Perez, JD, Rubinstein, ND, Fernandez, DE, Santoro, SW, Needleman, LA, Ho-Shing, O, Choi, JJ, Zirlinger, M, Chen, SK, Liu, JS, and Dulac, C. (2015) Quantitative and functional interrogation of parent-of-origin allelic expression biases in the brain. Elife, 4:e07860.
  13. Bhullar, BA, Morris, ZS, Sefton, EM, Tok, A, Tokita, M, Namkoong, B, Camacho, J, Burnham, DA, and Abzhanov, A. (2015) A molecular mechanism for the origin of a key evolutionary innovation, the bird beak and palate, revealed by an integrative approach to major transitions in vertebrate history. Evolution, 69(7):1665-77.
  14. Begun, J, Lassen, KG, Jijon, HB, Baxt, LA, Goel, G, Heath, RJ, Ng, A, Tam, JM, Kuo, SY, Villablanca, EJ, Fagbami, L, Oosting, M, Kumar, V, Schenone, M, Carr, SA, Joosten, LA, Vyas, JM, Daly, MJ, Netea, MG, Brown, GD, Wijmenga, C, and Xavier, RJ. (2015) Integrated Genomics of Crohn’s Disease Risk Variant Identifies a Role for CLEC12A in Antibacterial Autophagy. Cell Rep, 11(12):1905-18.
  15. Cardarelli, L, Saak, C, and Gibbs, KA. (2015) Two Proteins Form a Heteromeric Bacterial Self-Recognition Complex in Which Variable Subdomains Determine Allele-Restricted Binding. MBio, 6(3):e00251.
  16. Vincent, BJ, Scholes, C, Staller, MV, Wunderlich, Z, Estrada, J, Park, J, Bragdon, MD, Lopez, F, Biette, KM, and DePace, AH. (2015) Yearly planning meetings: individualized development plans aren’t just more paperwork. Mol Cell, 58(5):718-21.
  17. Lacoste, AM, Schoppik, D, Robson, DN, Haesemeyer, M, Portugues, R, Li, JM, Randlett, O, Wee, CL, Engert, F, and Schier, AF. (2015) A convergent and essential interneuron pathway for Mauthner-cell-mediated escapes. Curr Biol, 25(11):1526-34.
  18. Kang, H, McElroy, KA, Jung, YL, Alekseyenko, AA, Zee, BM, Park, PJ, and Kuroda, MI. (2015) Sex comb on midleg (Scm) is a functional link between PcG-repressive complexes in Drosophila. Genes Dev, 29(11):1136-50.
  19. Ayroles, JF, Buchanan, SM, O’Leary, C, Skutt-Kakaria, K, Grenier, JK, Clark, AG, Hartl, DL, and de, BL. (2015) Behavioral idiosyncrasy reveals genetic control of phenotypic variability. Proc Natl Acad Sci U S A, 112(21):6706-11.
  20. Aldrich, LN, Kuo, SY, Castoreno, AB, Goel, G, Kuballa, P, Rees, MG, Seashore-Ludlow, BA, Cheah, JH, Latorre, IJ, Schreiber, SL, Shamji, AF, and Xavier, RJ. (2015) Discovery of a Small-Molecule Probe for V-ATPase Function. J Am Chem Soc, 137(16):5563-8.
  21. Dubrulle, J, Jordan, BM, Akhmetova, L, Farrell, JA, Kim, SH, Solnica-Krezel, L, and Schier, AF. (2015) Response to Nodal morphogen gradient is determined by the kinetics of target gene induction. Elife, 4.
  22. Chavez, A, Scheiman, J, Vora, S, Pruitt, BW, Tuttle, M, P, E, Lin, S, Kiani, S, Guzman, CD, Wiegand, DJ, Ter-Ovanesyan, D, Braff, JL, Davidsohn, N, Housden, BE, Perrimon, N, Weiss, R, Aach, J, Collins, JJ, and Church, GM. (2015) Highly efficient Cas9-mediated transcriptional programming. Nat Methods, 12(4):326-8.
  23. Sysoeva, TA, Bane, LB, Xiao, DY, Bose, B, Chilton, SS, Gaudet, R, and Burton, BM. (2015) Structural characterization of the late competence protein ComFB from Bacillus subtilis. Biosci Rep, 35(2).
  24. Cohen, JY, Amoroso, MW, and Uchida, N. (2015) Serotonergic neurons signal reward and punishment on multiple timescales. Elife, 4.
  25. Ceccaldi, R, Liu, JC, Amunugama, R, Hajdu, I, Primack, B, Petalcorin, MI, O’Connor, KW, Konstantinopoulos, PA, Elledge, SJ, Boulton, SJ, Yusufzai, T, and D’Andrea, AD. (2015) Homologous-recombination-deficient tumours are dependent on Pol-mediated repair. Nature, 518(7538):258-62.
  26. Konermann, S, Brigham, MD, Trevino, AE, Joung, J, Abudayyeh, OO, Barcena, C, Hsu, PD, Habib, N, Gootenberg, JS, Nishimasu, H, Nureki, O, and Zhang, F. (2015) Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex. Nature, 517(7536):583-8.
  27. Rogers, KW, Blssle, A, Schier, AF, and Mller, P. (2015) Measuring protein stability in living zebrafish embryos using fluorescence decay after photoconversion (FDAP). J Vis Exp, (95):52266.
  28. Alekseyenko, AA, McElroy, KA, Kang, H, Zee, BM, Kharchenko, PV, and Kuroda, MI. (2015) BioTAP-XL: Cross-linking/Tandem Affinity Purification to Study DNA Targets, RNA, and Protein Components of Chromatin-Associated Complexes. Curr Protoc Mol Biol, 109:21.30.1-32.
  29. Liu, JC, Ferreira, CG, and Yusufzai, T. (2015) Human CHD2 is a chromatin assembly ATPase regulated by its chromo- and DNA-binding domains. J Biol Chem, 290(1):25-34.
  30. Ashrafi, G, and Schwarz, TL. (2015) PINK1- and PARK2-mediated local mitophagy in distal neuronal axons. Autophagy, 11(1):187-9.
  31. Zuris, JA, Thompson, DB, Shu, Y, Guilinger, JP, Bessen, JL, Hu, JH, Maeder, ML, Joung, JK, Chen, ZY, and Liu, DR. (2015) Cationic lipid-mediated delivery of proteins enables efficient protein-based genome editing in vitro and in vivo. Nat Biotechnol, 33(1):73-80.