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2009
Kuipers RKP, Joosten H-J, Verwiel E, Paans S, Akerboom J, van der Oost J, Leferink NGH, van Berkel WJH, Vriend G, Schaap PJ.  2009.  Correlated mutation analyses on super-family alignments reveal functionally important residues.. Proteins. 76(3):608-16.
Jin FJ, Bharioke A, Zhang JY, Kuhlmann TK, Georgiou JG, Lommel SL, Siminovitch KS.  2009.  A critical role for N-WASp in cell migration during central nervous system development.. International Journal of Developmental Neuroscience. 26:413.
Rebeiz M, Ramos-Womack M, Jeong S, Andolfatto P, Werner T, True J, Stern DL, Carroll SB.  2009.  Evolution of the tan locus contributed to pigment loss in Drosophila santomea: a response to Matute et al.. Cell. 139(6):1189-96.
Tian L, S Hires A, Mao T, Huber D, M Chiappe E, Chalasani SH, Petreanu L, Akerboom J, McKinney SA, Schreiter ER et al..  2009.  Imaging neural activity in worms, flies and mice with improved GCaMP calcium indicators.. Nature Methods. 6(12):875-81.
Jain V.  2009.  Machine learning of image analysis with convolutional networks and topological constraints..
DeBartolo J, Colubri A, Jha AK, Fitzgerald JE, Freed KF, Sosnick TR.  2009.  Mimicking the folding pathway to improve homology-free protein structure prediction.. Proceedings of the National Academy of Sciences of the United States of America. 106(10):3734-9.
Johnson EL, Fetter RD, Davis GW.  2009.  Negative regulation of active zone assembly by a newly identified SR protein kinase.. PLoS Biology. 7(9):e1000193.
Masse NY, Turner GC, Jeffers GSXE.  2009.  Olfactory information processing in Drosophila.. Current Biology : CB. 19(16):R700-13.
Joseph RM, Devineni AV, King IFG, Heberlein U.  2009.  Oviposition preference for and positional avoidance of acetic acid provide a model for competing behavioral drives in Drosophila.. Proceedings of the National Academy of Sciences of the United States of America. 106(27):11352-7.
Bohland JW, Wu C, Barbas H, Bokil H, Bota M, Breiter HC, Cline HT, Doyle JC, Freed PJ, Greenspan RJ et al..  2009.  A proposal for a coordinated effort for the determination of brainwide neuroanatomical connectivity in model organisms at a mesoscopic scale.. PLoS Computational Biology. 5(3):e1000334.
Bohland JW, Wu C, Barbas H, Bokil H, Bota M, Breiter HC, Cline HT, Doyle JC, Freed PJ, Greenspan RJ et al..  2009.  A proposal for a coordinated effort for the determination of brainwide neuroanatomical connectivity in model organisms at a mesoscopic scale.. PLoS Computational Biology. 5(3):e1000334.
Jones TA, Otto W, Marz M, Eddy SR, Stadler PF.  2009.  A survey of nematode SmY RNAs.. RNA Biology. 6(1):5-8.
2010
Ji N, Milkie DE, Betzig E.  2010.  Adaptive optics via pupil segmentation for high-resolution imaging in biological tissues.. Nature Methods. 7:141-7.
Ji N, Milkie DE, Betzig E.  2010.  Adaptive optics via pupil segmentation for high-resolution imaging in biological tissues. (With commentary). Nature Methods. 7:141-7.
Jenett A, Wolff T, Nern A., Pfeiffer BD, Ngo T., Murphy C., Long F., Peng H., Rubin GM.  2010.  Anatomic analysis of Gal4 expression patterns of the Rubin line collection: the central complex.. Journal of Neurogenetics. 24:71-2.
Jaensch S, Decker M, Hyman AA, Myers EW.  2010.  Automated tracking and analysis of centrosomes in early Caenorhabditis elegans embryos.. Bioinformatics. 26(12):i13-20.
Jain V, Bollmann B, Richardson M, Berger DR, Helmstaedter MN, Briggman KL, Denk W, Bowden JB, Mendenhall JM, Abraham WC et al..  2010.  Boundary learning by optimization with topological constraints.. IEEE Conference on Computer Vision and Pattern Recognition.
Yu JY, Kanai MI, Demir E, Jefferis GSXE, Dickson BJ.  2010.  Cellular organization of the neural circuit that drives Drosophila courtship behavior.. Current Biology. 20(18):1602-14.
Hantman AW, Jessell TM.  2010.  Clarke’s column neurons as the focus of a corticospinal corollary circuit.. Nature Neuroscience. 13(10):1233-9.
Shigenobu S, Bickel RD, Brisson JA, Butts T, Chang C-C, Christiaens O, Davis GK, Duncan EJ, Ferrier DEK, Iga M et al..  2010.  Comprehensive survey of developmental genes in the pea aphid, Acyrthosiphon pisum: frequent lineage-specific duplications and losses of developmental genes.. Insect Molecular Biology. 19 Suppl 2:47-62.
Turaga SC, Murray JF, Jain V, Roth F, Helmstaedter M, Briggman K, Denk W, Seung HSebastian.  2010.  Convolutional networks can learn to generate affinity graphs for image segmentation.. Neural Computation. 22(2):511-38.
Pereanu W, Kumar A, Jennett A, Reichert H, Hartenstein V.  2010.  Development-based compartmentalization of the Drosophila central brain.. J Comp Neurol. 518(15):2996-3023.
Goldner LS, Jofre AM, Tang J.  2010.  Droplet confinement and fluorescence measurement of single molecules.. Methods in Enzymology. 472:61-88.
L Johnson S, Eddy SR, Portugaly E.  2010.  Hidden Markov model speed heuristic and iterative HMM search procedure.. BMC Bioinformatics. 11:431.
Xiang Y, Yuan Q, Vogt N, Looger LL, Jan LYeh, Jan YNung.  2010.  Light-avoidance-mediating photoreceptors tile the Drosophila larval body wall.. Nature. 468(7326):921-6.