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Joanna I. Sulkowska
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2020 – today
- 2024
- [j24]Bartosz Ambrozy Gren, Maciej Antczak, Tomasz Zok, Joanna I. Sulkowska, Marta Szachniuk:
Knotted artifacts in predicted 3D RNA structures. PLoS Comput. Biol. 20(6): 1011959 (2024) - 2023
- [j23]Adam Stasiulewicz, Anna Lesniak, Magdalena Bujalska-Zadrozny, Tomasz Pawinski, Joanna I. Sulkowska:
Identification of Novel CB2 Ligands through Virtual Screening and In Vitro Evaluation. J. Chem. Inf. Model. 63(3): 1012-1027 (2023) - 2022
- [j22]Mihaly Varadi, Stephen Anyango, David R. Armstrong, John M. Berrisford, Preeti Choudhary, Mandar S. Deshpande, Nurul Nadzirin, Sreenath Nair, Lukás Pravda, Ahsan Tanweer, Bissan Al-Lazikani, Claudia Andreini, Geoffrey J. Barton, David Bednar, Karel Berka, Tom L. Blundell, Kelly Brock, José María Carazo, Jirí Damborský, Alessia David, Sucharita Dey, Roland L. Dunbrack Jr., Juan Fernández-Recio, Franca Fraternali, Toby J. Gibson, Manuela Helmer-Citterich, David Hoksza, Thomas A. Hopf, David Jakubec, Natarajan Kannan, Radoslav Krivák, Manjeet Kumar, Emmanuel D. Levy, Nir London, José Ramón Macías, Mallur Srivatsan Madhusudhan, Debora S. Marks, Lennart Martens, Stuart A McGowan, Jake E. McGreig, Vivek Modi, R. Gonzalo Parra, Gerardo Pepe, Damiano Piovesan, Jaime Prilusky, Valeria Putignano, Leandro G. Radusky, Pathmanaban Ramasamy, Atilio O. Rausch, Nathalie Reuter, Luis A. Rodriguez, Nathan J. Rollins, Antonio Rosato, Pawel Rubach, Luis Serrano, Gulzar Singh, Petr Skoda, Carlos Oscar Sánchez Sorzano, Jan Stourac, Joanna I. Sulkowska, Radka Svobodová Vareková, Natalia Tichshenko, Silvio C. E. Tosatto, Wim F. Vranken, Mark N. Wass, Dandan Xue, Daniel Zaidman, Janet M. Thornton, Michael J. E. Sternberg, Christine A. Orengo, Sameer Velankar:
PDBe-KB: collaboratively defining the biological context of structural data. Nucleic Acids Res. 50(D1): 534-542 (2022) - [j21]Wanda Niemyska, Pawel Rubach, Bartosz Ambrozy Gren, Mai Lan Nguyen, Wojciech Garstka, Fernando Bruno da Silva, Eric J. Rawdon, Joanna I. Sulkowska:
AlphaKnot: server to analyze entanglement in structures predicted by AlphaFold methods. Nucleic Acids Res. 50(W1): 44-50 (2022) - [j20]Agata P. Perlinska, Adam Stasiulewicz, Mai Lan Nguyen, Karolina Swiderska, Mikolaj Zmudzinski, Alicja W. Maksymiuk, Marcin Drag, Joanna I. Sulkowska:
Amino acid variants of SARS-CoV-2 papain-like protease have impact on drug binding. PLoS Comput. Biol. 18(11): 1010667 (2022) - 2021
- [j19]Pawel Dabrowski-Tumanski, Pawel Rubach, Wanda Niemyska, Bartosz Ambrozy Gren, Joanna I. Sulkowska:
Topoly: Python package to analyze topology of polymers. Briefings Bioinform. 22(3) (2021) - [j18]Vasilina Zayats, Agata P. Perlinska, Aleksandra I. Jarmolinska, Borys Jastrzebski, Stanislaw Dunin-Horkawicz, Joanna I. Sulkowska:
Slipknotted and unknotted monovalent cation-proton antiporters evolved from a common ancestor. PLoS Comput. Biol. 17(10) (2021) - 2020
- [j17]Aleksandra I. Jarmolinska, Anna Gambin, Joanna I. Sulkowska:
Knot_pull - python package for biopolymer smoothing and knot detection. Bioinform. 36(3): 953-955 (2020) - [j16]Pawel Rubach, Sebastian Zajac, Borys Jastrzebski, Joanna I. Sulkowska, Piotr Sulkowski:
Genus for biomolecules. Nucleic Acids Res. 48(Database-Issue): D1129-D1135 (2020) - [j15]Agata P. Perlinska, Adam Stasiulewicz, Ewa K. Nawrocka, Krzysztof Kazimierczuk, Piotr Setny, Joanna I. Sulkowska:
Restriction of S-adenosylmethionine conformational freedom by knotted protein binding sites. PLoS Comput. Biol. 16(5) (2020)
2010 – 2019
- 2019
- [j14]Aleksandra Maria Gierut, Pawel Dabrowski-Tumanski, Wanda Niemyska, Kenneth C. Millett, Joanna I. Sulkowska:
PyLink: a PyMOL plugin to identify links. Bioinform. 35(17): 3166-3168 (2019) - [j13]Aleksandra I. Jarmolinska, Qin Zhou, Joanna I. Sulkowska, Faruck Morcos:
DCA-MOL: A PyMOL Plugin To Analyze Direct Evolutionary Couplings. J. Chem. Inf. Model. 59(2): 625-629 (2019) - [j12]Pawel Dabrowski-Tumanski, Pawel Rubach, Dimos Goundaroulis, Julien Dorier, Piotr Sulkowski, Kenneth C. Millett, Eric J. Rawdon, Andrzej Stasiak, Joanna I. Sulkowska:
KnotProt 2.0: a database of proteins with knots and other entangled structures. Nucleic Acids Res. 47(Database-Issue): D367-D375 (2019) - 2018
- [j11]Aleksandra I. Jarmolinska, Michal Kadlof, Pawel Dabrowski-Tumanski, Joanna I. Sulkowska:
GapRepairer: a server to model a structural gap and validate it using topological analysis. Bioinform. 34(19): 3300-3307 (2018) - [j10]Joanna I. Sulkowska, Szymon Niewieczerzal, Aleksandra I. Jarmolinska, Jonathan T. Siebert, Peter Virnau, Wanda Niemyska:
KnotGenome: a server to analyze entanglements of chromosomes. Nucleic Acids Res. 46(Webserver-Issue): W17-W24 (2018) - [j9]Yani Zhao, Pawel Dabrowski-Tumanski, Szymon Niewieczerzal, Joanna I. Sulkowska:
The exclusive effects of chaperonin on the behavior of proteins with 52 knot. PLoS Comput. Biol. 14(3) (2018) - 2017
- [j8]Aleksandra Maria Gierut, Wanda Niemyska, Pawel Dabrowski-Tumanski, Piotr Sulkowski, Joanna I. Sulkowska:
PyLasso: a PyMOL plugin to identify lassos. Bioinform. 33(23): 3819-3821 (2017) - [j7]Pawel Dabrowski-Tumanski, Aleksandra I. Jarmolinska, Wanda Niemyska, Eric J. Rawdon, Kenneth C. Millett, Joanna I. Sulkowska:
LinkProt: a database collecting information about biological links. Nucleic Acids Res. 45(Database-Issue): D243-D249 (2017) - 2016
- [j6]Pawel Dabrowski-Tumanski, Wanda Niemyska, Pawel Pasznik, Joanna I. Sulkowska:
LassoProt: server to analyze biopolymers with lassos. Nucleic Acids Res. 44(Webserver-Issue): W383-W389 (2016) - 2015
- [j5]Michal Jamróz, Wanda Niemyska, Eric J. Rawdon, Andrzej Stasiak, Kenneth C. Millett, Piotr Sulkowski, Joanna I. Sulkowska:
KnotProt: a database of proteins with knots and slipknots. Nucleic Acids Res. 43(Database-Issue): 306-314 (2015) - 2014
- [j4]Ellinor Haglund, Joanna I. Sulkowska, Jeffrey K. Noel, Heiko Lammert, José N. Onuchic, Patricia A. Jennings:
Pierced Lasso Bundles Are a New Class of Knot-like Motifs. PLoS Comput. Biol. 10(6) (2014) - 2011
- [j3]Mateusz Sikora, Joanna I. Sulkowska, Bartlomiej S. Witkowski, Marek Cieplak:
BSDB: the biomolecule stretching database. Nucleic Acids Res. 39(Database-Issue): 443-450 (2011) - 2010
- [j2]Daniel Bölinger, Joanna I. Sulkowska, Hsiao-Ping Hsu, Leonid A. Mirny, Mehran Kardar, José N. Onuchic, Peter Virnau:
A Stevedore's Protein Knot. PLoS Comput. Biol. 6(4) (2010)
2000 – 2009
- 2009
- [j1]Mateusz Sikora, Joanna I. Sulkowska, Marek Cieplak:
Mechanical Strength of 17 134 Model Proteins and Cysteine Slipknots. PLoS Comput. Biol. 5(10) (2009)
Coauthor Index
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