| The tethering of chromatin to the nuclear envelope supports nuclear mechanics SM Schreiner, PK Koo, Y Zhao, SGJ Mochrie, MC King Nature Communications 6 (1), 1-13, 2015 | 198 | 2015 |
| Representation learning of genomic sequence motifs with convolutional neural networks PK Koo, SR Eddy PLoS computational biology 15 (12), e1007560, 2019 | 86 | 2019 |
| A demonstration of unsupervised machine learning in species delimitation S Derkarabetian, S Castillo, PK Koo, S Ovchinnikov, M Hedin Molecular Phylogenetics and Evolution 139, 106562, 2019 | 77 | 2019 |
| Single-molecule fluorescence spectroscopy using phospholipid bilayer nanodiscs A Nath, AJ Trexler, P Koo, AD Miranker, WM Atkins, E Rhoades Methods in Enzymology 472, 89-117, 2010 | 63 | 2010 |
| Deep learning for inferring transcription factor binding sites PK Koo, M Ploenzke Current Opinion in Systems Biology 19, 16-23, 2020 | 60 | 2020 |
| Improving representations of genomic sequence motifs in convolutional networks with exponential activations PK Koo, M Ploenzke Nature Machine Intelligence 3, 258–266, 2021 | 59* | 2021 |
| Global importance analysis: An interpretability method to quantify importance of genomic features in deep neural networks PK Koo, A Majdandzic, M Ploenzke, P Anand, S Paul PLoS Computational Biology 17 (5), e1008925, 2021 | 50* | 2021 |
| Allosteric effects on substrate dissociation from cytochrome P450 3A4 in nanodiscs observed by ensemble and single-molecule fluorescence spectroscopy A Nath, PK Koo, E Rhoades, WM Atkins Journal of the American Chemical Society 130 (47), 15746-15747, 2008 | 45 | 2008 |
| ZBED2 is an antagonist of interferon regulatory factor 1 and modifies cell identity in pancreatic cancer TDD Somerville, Y Xu, XS Wu, D Maia-Silva, SK Hur, LMN de Almeida, ... Proceedings of the National Academy of Sciences 117 (21), 11471-11482, 2020 | 36 | 2020 |
| Systems-level approach to uncovering diffusive states and their transitions from single-particle trajectories PK Koo, SGJ Mochrie Physical Review E 94 (5), 052412, 2016 | 34 | 2016 |
| Extracting diffusive states of Rho GTPase in live cells: towards in vivo biochemistry PK Koo, M Weitzman, CR Sabanaygam, KL van Golen, SGJ Mochrie PLoS Computational Biology 11 (10), e1004297, 2015 | 34 | 2015 |
| WASP family proteins regulate the mobility of the B cell receptor during signaling activation I Rey-Suarez, BA Wheatley, P Koo, A Bhanja, Z Shu, S Mochrie, W Song, ... Nature Communications 11, 2020 | 31 | 2020 |
| Inferring sequence-structure preferences of rna-binding proteins with convolutional residual networks PK Koo, P Anand, SB Paul, SR Eddy bioRxiv, 418459, 2018 | 31* | 2018 |
| Interpreting Potts and Transformer Protein Models Through the Lens of Simplified Attention N Bhattacharya, N Thomas, R Rao, J Dauparas, PK Koo, D Baker, ... PACIFIC SYMPOSIUM ON BIOCOMPUTING 2022, 34-45, 2022 | 27* | 2022 |
| Dynamics of cadmium sulfide nanoparticles within polystyrene melts WS Jang, P Koo, K Bryson, S Narayanan, A Sandy, TP Russell, ... Macromolecules 47 (18), 6483-6490, 2014 | 25 | 2014 |
| End-to-end learning of multiple sequence alignments with differentiable Smith-Waterman S Petti, N Bhattacharya, R Rao, J Dauparas, N Thomas, J Zhou, AM Rush, ... Bioinformatics 39 (1), 2021 | 17 | 2021 |
| Evaluating deep learning for predicting epigenomic profiles S Toneyan, Z Tang, PK Koo Nature machine intelligence 4 (12), 1088-1100, 2022 | 16 | 2022 |
| Robust Neural Networks are More Interpretable for Genomics PK Koo, S Qian, G Kaplun, V Volf, D Kalimeris bioRxiv, 657437, 2019 | 15* | 2019 |
| The architecture of the 12RSS in V (D) J recombination signal and synaptic complexes M Ciubotaru, MD Surleac, LA Metskas, P Koo, E Rhoades, AJ Petrescu, ... Nucleic Acids Research 43 (2), 917-931, 2015 | 15 | 2015 |
| High magnetic field effect on texture and grain growth of GNO silicon steel CMB Bacaltchuk, GA Castello Branco, H Garmestani, C Iskandar, P Koo, ... Materialwissenschaft und Werkstofftechnik: Entwicklung, Fertigung, Prüfung …, 2005 | 13 | 2005 |
