Applying Large-Scale Distributed Computing to Structural Bioinformatics - Bridging Legacy HPC Clusters With Big Data Technologies Using kafka-slurm-agent.

Pawel Rubach Applying Large-Scale Distributed Computing to Structural Bioinformatics - Bridging Legacy HPC Clusters With Big Data Technologies Using kafka-slurm-agent. 2025 March abs/2503.14806 CoRR https://doi.org/10.48550/arXiv.2503.14806 db/journals/corr/corr2503.html#abs-2503-14806 streams/journals/corr

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 0001 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. 534-542 2022 50 Nucleic Acids Res. D1 https://doi.org/10.1093/nar/gkab988 https://www.wikidata.org/entity/Q112710343 db/journals/nar/nar50.html#VaradiAABCDNNPT22

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. 44-50 2022 50 Nucleic Acids Res. W1 https://doi.org/10.1093/nar/gkac388 db/journals/nar/nar50.html#NiemyskaRGNGSRS22

Pawel Dabrowski-Tumanski Pawel Rubach Wanda Niemyska Bartosz Ambrozy Gren Joanna I. Sulkowska Topoly: Python package to analyze topology of polymers. 2021 22 Briefings Bioinform. 3 https://doi.org/10.1093/bib/bbaa196 https://www.wikidata.org/entity/Q99553490 db/journals/bib/bib22.html#Dabrowski-Tumanski21

Pawel Rubach Sebastian Zajac Borys Jastrzebski Joanna I. Sulkowska Piotr Sulkowski Genus for biomolecules. D1129-D1135 2020 48 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkz845 https://www.wikidata.org/entity/Q90477222 db/journals/nar/nar48.html#RubachZJSS20

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. D367-D375 2019 47 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gky1140 https://www.wikidata.org/entity/Q59726295 db/journals/nar/nar47.html#Dabrowski-Tumanski19