Joanna I. Sulkowska

Publication Activity (10 Years)

Years Active: 2009-2023
Publications (10 Years): 18

Top Topics

Quantitative Structure Activity

Drosophila Melanogaster

Protein Sequences

Top Venues

Nucleic Acids Res.

PLoS Comput. Biol.

J. Chem. Inf. Model.

Publications

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) (2023)
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) (2022)
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) (2022)
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) (2022)
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)
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)
Aleksandra I. Jarmolinska, Anna Gambin, Joanna I. Sulkowska
Knot_pull - python package for biopolymer smoothing and knot detection. Bioinform. 36 (3) (2020)
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)
Pawel Rubach, Sebastian Zajac, Borys Jastrzebski, Joanna I. Sulkowska, Piotr Sulkowski
Genus for biomolecules. Nucleic Acids Res. 48 (Database-Issue) (2020)
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) (2019)
Aleksandra M. Gierut, Pawel Dabrowski-Tumanski, Wanda Niemyska, Kenneth C. Millett, Joanna I. Sulkowska
PyLink: a PyMOL plugin to identify links. Bioinform. 35 (17) (2019)
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) (2019)
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) (2018)
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)
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) (2018)
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) (2017)
Aleksandra M. Gierut, Wanda Niemyska, Pawel Dabrowski-Tumanski, Piotr Sulkowski, Joanna I. Sulkowska
PyLasso: a PyMOL plugin to identify lassos. Bioinform. 33 (23) (2017)
Pawel Dabrowski-Tumanski, Wanda Niemyska, Pawel Pasznik, Joanna I. Sulkowska
LassoProt: server to analyze biopolymers with lassos. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
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) (2015)
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)
Mateusz Sikora, Joanna I. Sulkowska, Bartlomiej S. Witkowski, Marek Cieplak
BSDB: the biomolecule stretching database. Nucleic Acids Res. 39 (Database-Issue) (2011)
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)
Mateusz Sikora, Joanna I. Sulkowska, Marek Cieplak
Mechanical Strength of 17 134 Model Proteins and Cysteine Slipknots. PLoS Comput. Biol. 5 (10) (2009)