Items where Community is "CSHL labs > Koo Lab"

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Paper

Derkarabetian, S., Castillo, S., Koo, P. K., Ovchinnikov, S., Hedin, M. (October 2019) A demonstration of unsupervised machine learning in species delimitation. Mol Phylogenet Evol, 139. p. 106562. ISSN 1055-7903

Dauparas, Justas, Wang, Haobo, Swartz, Avi, Koo, Peter, Nitzan, Mor, Ovchinnikov, Sergey (June 2019) Unified framework for modeling multivariate distributions in biological sequences. arXiv e-prints. (Unpublished)

Koo, Peter K., Ploenzke, Matt (2019) Improving Convolutional Network Interpretability with Exponential Activations. bioRxiv. p. 650804. (Unpublished)

Rey-Suarez, Ivan, Wheatley, Brittany, Koo, Peter, Shu, Zhou, Mochrie, Simon, Song, Wenxia, Shroff, Hari, Upadhyaya, Arpita (2019) N-WASP regulates the mobility of the B cell receptor and co-receptors during signaling activation. bioRxiv. p. 619627. (Unpublished)

Koo, Peter K., Eddy, Sean R. (2019) Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks. bioRxiv. p. 362756. (Unpublished)

Koo, Peter K., Qian, Sharon, Kaplun, Gal, Volf, Verena, Kalimeris, Dimitris (2019) Robust Neural Networks are More Interpretable for Genomics. bioRxiv. p. 657437. (Unpublished)

Koo, P. K., Mochrie, S. G. J. (2018) Applying Perturbation Expectation-Maximization to Protein Trajectories of Rho GTPases. Methods Mol Biol, 1821. pp. 57-70. ISSN 1064-3745

Koo, Peter K., Anand, Praveen, Paul, Steffan B., Eddy, Sean R. (2018) Inferring Sequence-Structure Preferences of RNA-Binding Proteins with Convolutional Residual Networks. bioRxiv. p. 418459. (Unpublished)

Dunn, Timothy W., Koo, Peter K. (2017) Inferring Functional Neural Connectivity with Deep Residual Convolutional Networks. bioRxiv. p. 141010. (Unpublished)

Koo, P. K., Mochrie, S. G. (November 2016) Systems-level approach to uncovering diffusive states and their transitions from single-particle trajectories. Phys Rev E, 94 (5-1). 052412. ISSN 2470-0045

Koo, P. K., Setru, S. U., Mochrie, S. G. (August 2016) Erratum: "Active drift stabilization in three dimensions via image cross-correlation" [Rev. Sci. Instrum. 84, 103705 (2013)]. Rev Sci Instrum, 87 (8). 089901. ISSN 0034-6748

Zhao, Y., Schreiner, S. M., Koo, P. K., Colombi, P., King, M. C., Mochrie, S. G. (July 2016) Improved Determination of Subnuclear Position Enabled by Three-Dimensional Membrane Reconstruction. Biophys J, 111 (1). pp. 19-24. ISSN 0006-3495

Jang, Woo-Sik, Koo, Peter, Bryson, Kyle, Narayanan, Suresh, Sandy, Alec R., Russell, Thomas P., Mochrie, Simon G. (2016) The Static Structure and Dynamics of Cadmium Sulfide Nanoparticles within Poly(styrene-block-isoprene) Diblock Copolymer Melts. Macromolecular Chemistry and Physics, 217 (4). pp. 591-598. ISSN 1022-1352

Koo, P. K., Weitzman, M., Sabanaygam, C. R., van Golen, K. L., Mochrie, S. G. (October 2015) Extracting Diffusive States of Rho GTPase in Live Cells: Towards In Vivo Biochemistry. PLoS Comput Biol, 11 (10). e1004297. ISSN 1553-734x

Ciubotaru, M., Surleac, M. D., Metskas, L. A., Koo, P., Rhoades, E., Petrescu, A. J., Schatz, D. G. (January 2015) The architecture of the 12RSS in V(D)J recombination signal and synaptic complexes. Nucleic Acids Res, 43 (2). pp. 917-31. ISSN 0305-1048

Schreiner, Sarah M., Koo, Peter K., Zhao, Yao, Mochrie, Simon G. J., King, Megan C. (2015) The tethering of chromatin to the nuclear envelope supports nuclear mechanics. Nature Communications, 6. p. 7159.

Jang, Woo-Sik, Koo, Peter, Bryson, Kyle, Narayanan, Suresh, Sandy, Alec, Russell, Thomas P., Mochrie, Simon G. (2014) Dynamics of Cadmium Sulfide Nanoparticles within Polystyrene Melts. Macromolecules, 47 (18). pp. 6483-6490. ISSN 0024-9297

Koo, P. K., Setru, S. U., Mochrie, S. G. (October 2013) Active drift stabilization in three dimensions via image cross-correlation. Rev Sci Instrum, 84 (10). p. 103705. ISSN 0034-6748

Jang, Woo-Sik, Koo, Peter, Sykorsky, Marcin, Narayanan, Suresh, Sandy, Alec, Mochrie, Simon G. J. (2013) The Static and Dynamic Structure Factor of a Diblock Copolymer Melt via Small-Angle X-ray Scattering and X-ray Photon Correlation Spectroscopy. Macromolecules, 46 (21). pp. 8628-8637. ISSN 0024-9297

Nath, A., Trexler, A. J., Koo, P., Miranker, A. D., Atkins, W. M., Rhoades, E. (2010) Single-molecule fluorescence spectroscopy using phospholipid bilayer nanodiscs. Methods Enzymol, 472. pp. 89-117. ISSN 0076-6879

Nath, A., Koo, P. K., Rhoades, E., Atkins, W. M. (November 2008) Allosteric effects on substrate dissociation from cytochrome P450 3A4 in nanodiscs observed by ensemble and single-molecule fluorescence spectroscopy. J Am Chem Soc, 130 (47). pp. 15746-7. ISSN 0002-7863

Conference or Workshop Item

Koo, P. K., Ploenzke, Matt (June 2019) Improving Convolutional Network Interpretability with Exponential Activations. In: ICML Workshop for Computational Biology, Long Beach, CA.

Koo, Peter K., Qian, Sharon, Volf, Verena, Kalimeris, Dimitris (June 2019) Robust Neural Networks are More Interpretable for Genomics. In: ICML Workshop for Computational Biology, Long Beach, CA.

Dauparas, Justas, Wang, Haobo, Swartz, Avi, Koo, Peter K., Nitzan, Mor, Ovchinnikov, Sergey (June 2019) Unified framework for modeling multivariate distributions in biological sequences. In: ICML Workshop for Computational Biology, Long Beach, CA.

This list was generated on Sat Dec 14 21:37:39 2019 EST.
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