A deep learning model for predicting optimal distance range in crosslinking mass spectrometry data von Cohen, Shon, Schneidman‐Duhovny, Dina

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Potent neutralizing nanobodies resist convergent circulating variants of SARS-CoV-2 by targeting diverse and conserved epitopes von Sun, Dapeng, Sang, Zhe, Kim, Yong Joon, Xiang, Yufei, Cohen, Tomer, Belford, Anna K., Huet, Alexis, Conway, James F., Sun, Ji, Taylor, Derek J., Schneidman-Duhovny, Dina, Zhang, Cheng, Huang, Wei, Shi, Yi

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Polypolish: Short-read polishing of long-read bacterial genome assemblies von Wick, Ryan R, Holt, Kathryn E

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An integrated suite of fast docking algorithms von Mashiach, Efrat, Schneidman-Duhovny, Dina, Peri, Aviyah, Shavit, Yoli, Nussinov, Ruth, Wolfson, Haim J.

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De novo STXBP1 mutation in a child with developmental delay and spasticity reveals a major structural alteration in the interface with syntaxin 1A von Banne, Ehud, Falik‐Zaccai, Tzipora, Brielle, Esther, Kalfon, Limor, Ladany, Hagay, Klinger, Danielle, Schneidman‐Duhovny, Dina, Linial, Michal

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ProMod3-A versatile homology modelling toolbox von Studer, Gabriel, Tauriello, Gerardo, Bienert, Stefan, Biasini, Marco, Johner, Niklaus, Schwede, Torsten

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The SARS-CoV-2 Exerts a Distinctive Strategy for Interacting with the ACE2 Human Receptor von Brielle, Esther S, Schneidman-Duhovny, Dina, Linial, Michal

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Versatile and multivalent nanobodies efficiently neutralize SARS-CoV-2 von Xiang, Yufei, Nambulli, Sham, Xiao, Zhengyun, Liu, Heng, Sang, Zhe, Duprex, W Paul, Schneidman-Duhovny, Dina, Zhang, Cheng, Shi, Yi

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Two-dimensional video-based analysis of human gait using pose estimation von Stenum, Jan, Rossi, Cristina, Roemmich, Ryan T

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NanoNet: Rapid and accurate end-to-end nanobody modeling by deep learning von Cohen, Tomer, Halfon, Matan, Schneidman-Duhovny, Dina

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Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex von Schulze-Gahmen, Ursula, Echeverria, Ignacia, Stjepanovic, Goran, Bai, Yun, Lu, Huasong, Schneidman-Duhovny, Dina, Doudna, Jennifer A, Zhou, Qiang, Sali, Andrej, Hurley, James H

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Integrative Structure Modeling: Overview and Assessment von Braitbard, Merav, Schneidman-Duhovny, Dina, Kalisman, Nir

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Accurate SAXS Profile Computation and its Assessment by Contrast Variation Experiments von Schneidman-Duhovny, Dina, Hammel, Michal, Tainer, John A., Sali, Andrej

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A spectrum of free software tools for processing the VCF variant call format: vcflib, bio-vcf, cyvcf2, hts-nim and slivar von Garrison, Erik, Kronenberg, Zev N, Dawson, Eric T, Pedersen, Brent S, Prins, Pjotr

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Uncertainty in integrative structural modeling von Schneidman-Duhovny, Dina, Pellarin, Riccardo, Sali, Andrej

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DeepDrug3D: Classification of ligand-binding pockets in proteins with a convolutional neural network von Pu, Limeng, Govindaraj, Rajiv Gandhi, Lemoine, Jeffrey Mitchell, Wu, Hsiao-Chun, Brylinski, Michal

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PEtab-Interoperable specification of parameter estimation problems in systems biology von Schmiester, Leonard, Schälte, Yannik, Bergmann, Frank T, Camba, Tacio, Dudkin, Erika, Egert, Janine, Fröhlich, Fabian, Fuhrmann, Lara, Hauber, Adrian L, Kemmer, Svenja, Lakrisenko, Polina, Loos, Carolin, Merkt, Simon, Müller, Wolfgang, Pathirana, Dilan, Raimúndez, Elba, Refisch, Lukas, Rosenblatt, Marcus, Stapor, Paul L, Städter, Philipp, Wang, Dantong, Wieland, Franz-Georg, Banga, Julio R, Timmer, Jens, Villaverde, Alejandro F, Sahle, Sven, Kreutz, Clemens, Hasenauer, Jan, Weindl, Daniel

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OrganoID: A versatile deep learning platform for tracking and analysis of single-organoid dynamics von Matthews, Jonathan M, Schuster, Brooke, Kashaf, Sara Saheb, Liu, Ping, Ben-Yishay, Rakefet, Ishay-Ronen, Dana, Izumchenko, Evgeny, Shen, Le, Weber, Christopher R, Bielski, Margaret, Kupfer, Sonia S, Bilgic, Mustafa, Rzhetsky, Andrey, Tay, Savaş

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Putting the pieces together: integrative modeling platform software for structure determination of macromolecular assemblies von Russel, Daniel, Lasker, Keren, Webb, Ben, Velázquez-Muriel, Javier, Tjioe, Elina, Schneidman-Duhovny, Dina, Peterson, Bret, Sali, Andrej

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CRIMSON: An open-source software framework for cardiovascular integrated modelling and simulation von Arthurs, Christopher J, Khlebnikov, Rostislav, Melville, Alex, Marčan, Marija, Gomez, Alberto, Dillon-Murphy, Desmond, Cuomo, Federica, Silva Vieira, Miguel, Schollenberger, Jonas, Lynch, Sabrina R, Tossas-Betancourt, Christopher, Iyer, Kritika, Hopper, Sara, Livingston, Elizabeth, Youssefi, Pouya, Noorani, Alia, Ben Ahmed, Sabrina, Nauta, Foeke J H, van Bakel, Theodorus M J, Ahmed, Yunus, van Bakel, Petrus A J, Mynard, Jonathan, Di Achille, Paolo, Gharahi, Hamid, Lau, Kevin D, Filonova, Vasilina, Aguirre, Miquel, Nama, Nitesh, Xiao, Nan, Baek, Seungik, Garikipati, Krishna, Sahni, Onkar, Nordsletten, David, Figueroa, C Alberto

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