Tomasz Krzysztof Wirecki

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Janusz BujnickiProfessor of Biology, International Institute of Molecular and Cell Biology in WarsawVerified email at genesilico.pl
Adam LiwoUniversity of GdańskVerified email at ug.edu.pl
Cezary CzaplewskiFaculty of Chemistry, University of GdańskVerified email at ug.edu.pl
Pietro BoccalettoIIMCB, Warsaw - Laboratory of Bioinformatics and Protein EngineeringVerified email at genesilico.pl
Adam SieradzanWydział Chemii Uniwersytet GdańskiVerified email at ug.edu.pl
Paweł KrupaInstitute of Physics Polish Academy of SciencesVerified email at etoh.chem.univ.gda.pl
Magdalena A. MozolewskaAssistant Professor Institute of Computer Science Polish Academy of SciencesVerified email at ipipan.waw.pl
Nithin CAssistant Professor (adiunkt), Biological and Chemical Research Centre, Department of ChemistryVerified email at chem.uw.edu.pl
Stanisław OłdziejUniwersytet GdańskiVerified email at ug.edu.pl
Yi HeUniversity of New MexicoVerified email at unm.edu
Paweł PiątkowskiF. Hoffmann-La RocheVerified email at genesilico.pl
Robert L RossUniversity of CincinnatiVerified email at uc.edu
Valerie de Crecy-LagardMicrobiology and Cell Science, University of FloridaVerified email at ufl.edu
Pritha GhoshResearch Scientist, nference® Labs, BangaloreVerified email at nference.net
Rafał ŚlusarzFaculty of Chemistry, University of GdanskVerified email at ug.edu.pl
Mariusz MakowskiFaculty of Chemistry, University of GdanskVerified email at ug.edu.pl
Danny IncarnatoAssistant Professor, University of GroningenVerified email at rug.nl
Filip StefaniakLaboratory of Bioinformatics and Protein Engineering International Institute of Molecular and CellVerified email at iimcb.gov.pl
Michał BonieckiInternational Institute of Molecular and Cell Biology in WarsawVerified email at genesilico.pl
Agnieszka KarczynskaInriaVerified email at inria.fr

Tomasz Krzysztof Wirecki

Postdoctoral Researcher, Institute of Molecular and Cell Biology in Warsaw

Verified email at iimcb.gov.pl - Homepage

RNA


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MODOMICS: a database of RNA modification pathways. 2017 update P Boccaletto, MA Machnicka, E Purta, P Piątkowski, B Bagiński, ... Nucleic acids research 46 (D1), D303-D307, 2018	1172	2018
Genome-wide mapping of SARS-CoV-2 RNA structures identifies therapeutically-relevant elements I Manfredonia, C Nithin, A Ponce-Salvatierra, P Ghosh, TK Wirecki, ... Nucleic Acids Research, 2020	119*	2020
A unified coarse-grained model of biological macromolecules based on mean-field multipole–multipole interactions A Liwo, M Baranowski, C Czaplewski, E Gołaś, Y He, D Jagieła, P Krupa, ... Journal of molecular modeling 20 (8), 1-15, 2014	102	2014
WeFold: a coopetition for protein structure prediction GA Khoury, A Liwo, F Khatib, H Zhou, G Chopra, J Bacardit, LO Bortot, ... Proteins: Structure, Function, and Bioinformatics 82 (9), 1850-1868, 2014	66	2014
Lessons from application of the UNRES force field to predictions of structures of CASP10 targets Y He, MA Mozolewska, P Krupa, AK Sieradzan, TK Wirecki, A Liwo, ... Proceedings of the National Academy of Sciences 110 (37), 14936-14941, 2013	59	2013
A maximum-likelihood approach to force-field calibration B Zaborowski, D Jagieła, C Czaplewski, A Hałabis, A Lewandowska, ... Journal of chemical information and modeling 55 (9), 2050-2070, 2015	25	2015
RNArchitecture: a database and a classification system of RNA families, with a focus on structural information P Boccaletto, M Magnus, C Almeida, A Żyła, A Astha, R Pluta, B Bagiński, ... Nucleic acids research 46 (D1), D202-D205, 2018	23	2018
An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12 C Keasar, LJ McGuffin, B Wallner, G Chopra, B Adhikari, D Bhattacharya, ... Scientific reports 8 (1), 1-18, 2018	19	2018
RNAProbe: a web server for normalization and analysis of RNA structure probing data TK Wirecki, K Merdas, A Bernat, MJ Boniecki, JM Bujnicki, F Stefaniak Nucleic Acids Research 48 (W1), W292-W299, 2020	8	2020
Modeling of Three-Dimensional RNA Structures Using SimRNA TK Wirecki, C Nithin, S Mukherjee, JM Bujnicki, MJ Boniecki Protein Structure Prediction, 103-125, 2020	5	2020
Modeling the Structure, Dynamics, and Transformations of Proteins with the UNRES Force Field AK Sieradzan, C Czaplewski, P Krupa, MA Mozolewska, AS Karczyńska, ... Protein Folding, 399-416, 2022	2	2022
Structure prediction of the druggable fragments in SARS-CoV-2 untranslated regions J Gumna, M Antczak, RW Adamiak, JM Bujnicki, SJ Chen, F Ding, ... bioRxiv, 2021	2	2021
Microscopic Physics-Based Models of Proteins and Nucleic Acids: UNRES and NARES M Baranowski, C Czaplewski, EI Gołaś, Y He, D Jagieła, P Krupa, A Liwo, ... Coarse-Grained Modeling of Biomolecules, 67-120, 2017	1	2017
Computational Modeling Methods for 3D Structure Prediction of Ribozymes P Ghosh, C Nithin, A Joshi, F Stefaniak, TK Wirecki, JM Bujnicki Ribozymes 2, 861-881, 2021		2021
Riboswitch-ligand structure determination using an integrative structural biology approach A Ponce-Salvatierra, R Pluta, E Skowronek, M Orlowska, B Baginski, ... FEBS OPEN BIO 9, 243-243, 2019		2019
Molecular Dynamics and Monte Carlo methods and their extensions for coarse-grained simulations of polypeptide folding T Wirecki Laboratory of Simulation of Polymers, 2016		2016
Coarse-grained approach to protein structure and dynamics HA Scheraga, A Liwo, Y He, C Czaplewski, S Oldziej, M Makowski, ... ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY 246, 2013		2013

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