Publications

2016

- Structural and functional insights into tRNA binding and adenosine N1-methylation by an archaeal Trm10 homologue.
Van Laer B, Roovers M, Wauters L, Kasprzak JM, Dyzma M, Deyaert E, Kumar Singh R, Feller A, Bujnicki JM, Droogmans L, Versées W.
Nucleic Acids Res. 2016 Jan 29;44(2):940-53. doi: 10.1093/nar/gkv1369. Epub 2015 Dec 15
Open Access

- ESCRT proteins restrict constitutive NF-κB signaling by trafficking cytokine receptors.
Mamińska A, Bartosik A, Banach-Orłowska M, Pilecka I, Jastrzębski K, Zdżalik-Bielecka D, Castanon I, Poulain M, Neyen C, Wolińska-Nizioł L, Toruń A, Szymańska E, Kowalczyk A, Piwocka K, Simonsen A, Stenmark H, Fürthauer M, González-Gaitán M, Miaczynska M.
Sci Signal. 2016 Jan 19;9(411):ra8. doi: 10.1126/scisignal.aad0848.
Open Access

- Chatty Mitochondria: Keeping Balance in Cellular Protein Homeostasis.
Topf U, Wrobel L, Chacinska A.
Trends Cell Biol. 2016 Mar 19. pii: S0962-8924(16)00040-4. doi: 10.1016/j.tcb.2016.03.002. [Epub ahead of print]
Open Access

- tRNAmodpred: A computational method for predicting posttranscriptional modifications in tRNAs.
Machnicka MA, Dunin-Horkawicz S, de Crécy-Lagard V, Bujnicki JM.
Methods. 2016 Mar 23. pii: S1046-2023(16)30047-0. doi: 10.1016/j.ymeth.2016.03.013. [Epub ahead of print]
Open Access

- Be Healthy as a Fish Educational Program at the International Institute of Molecular and Cell Biology in Warsaw, Poland.
Goś D, Szymańska E, Białek-Wyrzykowska U, Wiweger M, Kuźnicki J.
Zebrafish. 2016 Mar 30. [Epub ahead of print]
Open Access

- SimRNAweb: a web server for RNA 3D structure modeling with optional restraints.
Magnus M, Boniecki MJ, Dawson W, Bujnicki JM.
Nucleic Acids Res. 2016 Apr 19. pii: gkw279. [Epub ahead of print]
Open Access

- Modeling of Protein-RNA Complex Structures Using Computational Docking Methods.
Madan B, Kasprzak JM, Tuszynska I, Magnus M, Szczepaniak K, Dawson WK, Bujnicki JM.
Methods Mol Biol. 2016;1414:353-72. doi: 10.1007/978-1-4939-3569-7_21.

- Coarse-grained modeling of RNA 3D structure.
Dawson WK, Maciejczyk M, Jankowska EJ, Bujnicki JM.
Methods. 2016 Apr 25. pii: S1046-2023(16)30105-0. doi: 10.1016/j.ymeth.2016.04.026. [Epub ahead of print] Review.
Open Access


2015

- Changing Faces of Transcriptional Regulation Reflected by Zic3.
Winata CL, Kondrychyn I, Korzh V.
Curr Genomics. 2015 Apr;16(2):117-27. doi: 10.2174/1389202916666150205124519.
Open Access

- NPDock: a web server for protein-nucleic acid docking.
Tuszynska I, Magnus M, Jonak K, Dawson W, Bujnicki JM.
Nucleic Acids Res. 2015 Jul 1;43(W1):W425-30. doi: 10.1093/nar/gkv493. Epub 2015 May 14.
Open Access

- Endocytic Adaptor Protein Tollip Inhibits Canonical Wnt Signaling.
Toruń A, Szymańska E, Castanon I, Wolińska-Nizioł L, Bartosik A, Jastrzębski K, Miętkowska M, González-Gaitán M, Miaczynska M.
PLoS One. 2015 Jun 25;10(6):e0130818. doi: 10.1371/journal.pone.0130818. eCollection 2015.
Open Access

- Modeling of ribonucleic acid–ligand interactions
Filip Stefaniak, Ewa I. Chudyk, Michael Bodkin, Wayne K. Dawson, Janusz M. Bujnicki
WIREs Comput Mol Sci 2015, 5:425–439; Advanced Review, Article first published online: 14 SEP 2015, DOI: 10.1002/wcms.1226
Open Access

- Glucocerebrosidase 1 deficient Danio rerio mirror key pathological aspects of human Gaucher disease and provide evidence of early microglial activation preceding alpha-synuclein-independent neuronal cell death.
Keatinge M, Bui H, Menke A, Chen YC, Sokol AM, Bai Q, Ellett F, Da Costa M, Burke D, Gegg M, Trollope L, Payne T, McTighe A, Mortiboys H, de Jager S, Nuthall H, Kuo MS, Fleming A, Schapira AH, Renshaw SA, Highley JR, Chacinska A, Panula P, Burton EA, O’Neill MJ, Bandmann O.
Hum Mol Genet. 2015 Dec 1;24(23):6640-52. doi: 10.1093/hmg/ddv369. Epub 2015 Sep 16
Open Access

- Computational modeling of RNA 3D structures and interactions.
Dawson WK, Bujnicki JM.
Curr Opin Struct Biol. 2015 Dec 12;37:22-28. doi: 10.1016/j.sbi.2015.11.007. [Epub ahead of print] Review.
Open Access

- DANIO-CODE: Toward an Encyclopedia of DNA Elements in Zebrafish.
Tan H, Onichtchouk D, Winata C.
Zebrafish. 2016 Feb;13(1):54-60. doi: 10.1089/zeb.2015.1179. Epub 2015 Dec 15.
Open Access

- SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction.
Boniecki MJ, Lach G, Dawson WK, Tomala K, Lukasz P, Soltysinski T, Rother KM, Bujnicki JM.
Nucleic Acids Res. 2015 Dec 19. pii: gkv1479. [Epub ahead of print]
Open Access


2014

- A discrete pathway for the transfer of intermembrane space proteins across the outer membrane of mitochondria Gornicka A, Bragoszewski P, Chroscicki P, Wenz LS, Schulz C, Rehling P, Chacinska A.
Mol Biol Cell. 2014 Dec 15;25(25):3999-4009. doi: 10.1091/mbc.E14-06-1155. Epub 2014 Oct 15.
Open Access

- Computational modeling of RNA 3D structures, with the aid of experimental restraints.
Magnus M, Matelska D, Lach G, Chojnowski G, Boniecki MJ, Purta E, Dawson W, Dunin-Horkawicz S, Bujnicki JM.
RNA Biol. 2014;11(5):522-36. Epub 2014 Apr 23. Review.
Open Access

- Mitochondrial protein translocases for survival and wellbeing.
Sokol AM, Sztolsztener ME, Wasilewski M, Heinz E, Chacinska A.
FEBS Lett. 2014 Aug 1;588(15):2484-2495. doi: 10.1016/j.febslet.2014.05.028. Epub 2014 May 24.
Open Access

 

2013

- Effects of membrane trafficking on signaling by receptor tyrosine kinases.
Miaczynska M.
Cold Spring Harb Perspect Biol. 2013 Nov 1;5(11):a009035. doi: 10.1101/cshperspect.a009035
Open Access

YouTube