Molecular mechanism of biased signaling at the kappa opioid receptor von El Daibani, Amal, Paggi, Joseph M., Kim, Kuglae, Laloudakis, Yianni D., Popov, Petr, Bernhard, Sarah M., Krumm, Brian E., Olsen, Reid H. J., Diberto, Jeffrey, Carroll, F. Ivy, Katritch, Vsevolod, Wünsch, Bernhard, Dror, Ron O., Che, Tao

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Crystal structure of the natural anion-conducting channelrhodopsin GtACR1 von Kim, Yoon Seok, Kato, Hideaki E., Yamashita, Keitaro, Ito, Shota, Inoue, Keiichi, Ramakrishnan, Charu, Fenno, Lief E., Evans, Kathryn E., Paggi, Joseph M., Dror, Ron O., Kandori, Hideki, Kobilka, Brian K., Deisseroth, Karl

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Structural and functional characterization of G protein-coupled receptors with deep mutational scanning von Jones, Eric M, Lubock, Nathan B, Venkatakrishnan, A J, Wang, Jeffrey, Tseng, Alex M, Paggi, Joseph M, Latorraca, Naomi R, Cancilla, Daniel, Satyadi, Megan, Davis, Jessica E, Babu, M Madan, Dror, Ron O, Kosuri, Sriram

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Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype von Kim, Daehwan, Paggi, Joseph M., Park, Chanhee, Bennett, Christopher, Salzberg, Steven L.

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A non-canonical mechanism of GPCR activation von Powers, Alexander S., Khan, Aasma, Paggi, Joseph M., Latorraca, Naomi R., Souza, Sarah, Di Salvo, Jerry, Lu, Jun, Soisson, Stephen M., Johnston, Jennifer M., Weinglass, Adam B., Dror, Ron O.

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Structural mechanisms of selectivity and gating in anion channelrhodopsins von Kato, Hideaki E., Kim, Yoon Seok, Paggi, Joseph M., Evans, Kathryn E., Allen, William E., Richardson, Claire, Inoue, Keiichi, Ito, Shota, Ramakrishnan, Charu, Fenno, Lief E., Yamashita, Keitaro, Hilger, Daniel, Lee, Soo Yeun, Berndt, Andre, Shen, Kang, Kandori, Hideki, Dror, Ron O., Kobilka, Brian K., Deisseroth, Karl

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Numerous recursive sites contribute to accuracy of splicing in long introns in flies von Pai, Athma A, Paggi, Joseph M, Yan, Paul, Adelman, Karen, Burge, Christopher B

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Geometric Deep Learning for Structure-Based Ligand Design von Powers, Alexander S., Yu, Helen H., Suriana, Patricia, Koodli, Rohan V., Lu, Tianyu, Paggi, Joseph M., Dror, Ron O.

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A sequence-based, deep learning model accurately predicts RNA splicing branchpoints von Paggi, Joseph M, Bejerano, Gill

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The Art and Science of Molecular Docking von Paggi, Joseph M, Pandit, Ayush, Dror, Ron O

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Structure of the µ-opioid receptor–Gi protein complex von Koehl, Antoine, Hu, Hongli, Maeda, Shoji, Zhang, Yan, Qu, Qianhui, Paggi, Joseph M., Latorraca, Naomi R., Hilger, Daniel, Dawson, Roger, Matile, Hugues, Schertler, Gebhard F. X., Granier, Sebastien, Weis, William I., Dror, Ron O., Manglik, Aashish, Skiniotis, Georgios, Kobilka, Brian K.

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Insights into distinct signaling profiles of the µOR activated by diverse agonists von Qu, Qianhui, Huang, Weijiao, Aydin, Deniz, Paggi, Joseph M., Seven, Alpay B., Wang, Haoqing, Chakraborty, Soumen, Che, Tao, DiBerto, Jeffrey F., Robertson, Michael J., Inoue, Asuka, Suomivuori, Carl-Mikael, Roth, Bryan L., Majumdar, Susruta, Dror, Ron O., Kobilka, Brian K., Skiniotis, Georgios

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S-CAP extends pathogenicity prediction to genetic variants that affect RNA splicing von Jagadeesh, Karthik A., Paggi, Joseph M., Ye, James S., Stenson, Peter D., Cooper, David N., Bernstein, Jonathan A., Bejerano, Gill

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Structural basis for channel conduction in the pump-like channelrhodopsin ChRmine von Kishi, Koichiro E., Kim, Yoon Seok, Fukuda, Masahiro, Inoue, Masatoshi, Kusakizako, Tsukasa, Wang, Peter Y., Ramakrishnan, Charu, Byrne, Eamon F.X., Thadhani, Elina, Paggi, Joseph M., Matsui, Toshiki E., Yamashita, Keitaro, Nagata, Takashi, Konno, Masae, Quirin, Sean, Lo, Maisie, Benster, Tyler, Uemura, Tomoko, Liu, Kehong, Shibata, Mikihiro, Nomura, Norimichi, Iwata, So, Nureki, Osamu, Dror, Ron O., Inoue, Keiichi, Deisseroth, Karl, Kato, Hideaki E.

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Leveraging nonstructural data to predict structures and affinities of protein–ligand complexes von Paggi, Joseph M., Belk, Julia A., Hollingsworth, Scott A., Villanueva, Nicolas, Powers, Alexander S., Clark, Mary J., Chemparathy, Augustine G., Tynan, Jonathan E., Lau, Thomas K., Sunahara, Roger K., Dror, Ron O.

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Structural basis for ion selectivity in potassium-selective channelrhodopsins von Tajima, Seiya, Kim, Yoon Seok, Fukuda, Masahiro, Jo, YoungJu, Wang, Peter Y., Paggi, Joseph M., Inoue, Masatoshi, Byrne, Eamon F.X., Kishi, Koichiro E., Nakamura, Seiwa, Ramakrishnan, Charu, Takaramoto, Shunki, Nagata, Takashi, Konno, Masae, Sugiura, Masahiro, Katayama, Kota, Matsui, Toshiki E., Yamashita, Keitaro, Kim, Suhyang, Ikeda, Hisako, Kim, Jaeah, Kandori, Hideki, Dror, Ron O., Inoue, Keiichi, Deisseroth, Karl, Kato, Hideaki E.

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Identification of new branch points and unconventional introns in Saccharomyces cerevisiae von Gould, Genevieve M, Paggi, Joseph M, Guo, Yuchun, Phizicky, David V, Zinshteyn, Boris, Wang, Eric T, Gilbert, Wendy V, Gifford, David K, Burge, Christopher B

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Insights into distinct signaling profiles of the μOR activated by diverse agonists von Qu, Qianhui, Huang, Weijiao, Aydin, Deniz, Paggi, Joseph M., Seven, Alpay B., Wang, Haoqing, Chakraborty, Soumen, Che, Tao, DiBerto, Jeffrey F., Robertson, Michael J., Inoue, Asuka, Suomivuori, Carl-Mikael, Roth, Bryan L., Majumdar, Susruta, Dror, Ron O., Kobilka, Brian K., Skiniotis, Georgios

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Structure of the [micro]-opioid receptor-G.sub.i protein complex von Koehl, Antoine, Hu, Hongli, Maeda, Shoji, Zhang, Yan, Qu, Qianhui, Paggi, Joseph M, Latorraca, Naomi R

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Structure of the µ-opioid receptor-G^sub i^ protein complex von Koehl, Antoine, Hu, Hongli, Maeda, Shoji, Zhang, Yan, Qu, Qianhui, Paggi, Joseph M, Latorraca, Naomi R, Hilger, Daniel, Dawson, Roger, Matile, Hugues, Schertler, Gebhard F X, Granier, Sebastien, Weis, William I, Dror, Ron O, Manglik, Aashish, Skiniotis, Georgios, Kobilka, Brian K

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