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Chromatin Loop Extrusion and Chromatin Unknotting.

Racko D, Benedetti F, Goundaroulis D, Stasiak A.

Polymers (Basel). 2018 Oct 11;10(10). pii: E1126. doi: 10.3390/polym10101126.


Retrospective study of the course, treatment and long-term follow-up of Kawasaki disease: a single-center experience from Poland.

Stasiak A, Smolewska E.

Rheumatol Int. 2019 Jun;39(6):1069-1076. doi: 10.1007/s00296-019-04286-9. Epub 2019 Mar 22.


Experimental autoimmune myocarditis in rats and therapeutic histamine H1 - H4 receptor inhibition.

Stasiak A, Gola J, Kraszewska K, Mussur M, Kobos J, Mazurek U, Stark H, Fogel WA.

J Physiol Pharmacol. 2018 Dec;69(6). doi: 10.26402/jpp.2018.6.13. Epub 2019 Mar 18.


Design, synthesis, and in vitro and in vivo characterization of 1-{4-[4-(substituted)piperazin-1-yl]butyl}guanidines and their piperidine analogues as histamine H3 receptor antagonists.

Staszewski M, Stasiak A, Karcz T, McNaught Flores D, Fogel WA, Kieć-Kononowicz K, Leurs R, Walczyński K.

Medchemcomm. 2019 Jan 11;10(2):234-251. doi: 10.1039/c8md00527c. eCollection 2019 Feb 1.


KnotProt 2.0: a database of proteins with knots and other entangled structures.

Dabrowski-Tumanski P, Rubach P, Goundaroulis D, Dorier J, Sulkowski P, Millett KC, Rawdon EJ, Stasiak A, Sulkowska JI.

Nucleic Acids Res. 2019 Jan 8;47(D1):D367-D375. doi: 10.1093/nar/gky1140.


Are TADs supercoiled?

Racko D, Benedetti F, Dorier J, Stasiak A.

Nucleic Acids Res. 2019 Jan 25;47(2):521-532. doi: 10.1093/nar/gky1091.


Periodic Motion of Sedimenting Flexible Knots.

Gruziel M, Thyagarajan K, Dietler G, Stasiak A, Ekiel-Jeżewska ML, Szymczak P.

Phys Rev Lett. 2018 Sep 21;121(12):127801. doi: 10.1103/PhysRevLett.121.127801.


Perfidious synaptic transmission in the guinea-pig auditory brainstem.

Stasiak A, Sayles M, Winter IM.

PLoS One. 2018 Oct 4;13(10):e0203712. doi: 10.1371/journal.pone.0203712. eCollection 2018.


Protein Knotting by Active Threading of Nascent Polypeptide Chain Exiting from the Ribosome Exit Channel.

Dabrowski-Tumanski P, Piejko M, Niewieczerzal S, Stasiak A, Sulkowska JI.

J Phys Chem B. 2018 Dec 13;122(49):11616-11625. doi: 10.1021/acs.jpcb.8b07634. Epub 2018 Oct 12.


[Preexcitation Syndromes in Children and Adolescents].

Stasiak A, Niewiadomska-Jarosik K, Kędziora P.

Dev Period Med. 2018;22(2):179-186. Polish.


Clinical course and treatment of children and adolescents with the preexcitation syndrome - own studies.

Stasiak A, Niewiadomska-Jarosik K, Kędziora P.

Dev Period Med. 2018;22(2):113-122.


Two convergent pathways of DNA knotting in replicating DNA molecules as revealed by θ-curve analysis.

O'Donnol D, Stasiak A, Buck D.

Nucleic Acids Res. 2018 Sep 28;46(17):9181-9188. doi: 10.1093/nar/gky559.


Knoto-ID: a tool to study the entanglement of open protein chains using the concept of knotoids.

Dorier J, Goundaroulis D, Benedetti F, Stasiak A.

Bioinformatics. 2018 Oct 1;34(19):3402-3404. doi: 10.1093/bioinformatics/bty365.


Morphometric Evaluation of the Frontal Migraine Trigger Site.

Hsu JJ, Stasiak AM, Ranganathan K, Adelman EE, Janis JE, Cederna PS, Kung TA.

Plast Reconstr Surg. 2018 May;141(5):726e-732e. doi: 10.1097/PRS.0000000000004296.


Dual Coding of Frequency Modulation in the Ventral Cochlear Nucleus.

Paraouty N, Stasiak A, Lorenzi C, Varnet L, Winter IM.

J Neurosci. 2018 Apr 25;38(17):4123-4137. doi: 10.1523/JNEUROSCI.2107-17.2018. Epub 2018 Mar 29.


Non-Imidazole Histamine H₃ Ligands. Part VII. Synthesis, In Vitro and In Vivo Characterization of 5-Substituted-2-thiazol-4-n-propylpiperazines.

Guryn R, Staszewski M, Stasiak A, McNaught Flores D, Fogel WA, Leurs R, Walczyński K.

Molecules. 2018 Feb 3;23(2). pii: E326. doi: 10.3390/molecules23020326.


Transcription-induced supercoiling as the driving force of chromatin loop extrusion during formation of TADs in interphase chromosomes.

Racko D, Benedetti F, Dorier J, Stasiak A.

Nucleic Acids Res. 2018 Feb 28;46(4):1648-1660. doi: 10.1093/nar/gkx1123.


Transcription-induced supercoiling explains formation of self-interacting chromatin domains in S. pombe.

Benedetti F, Racko D, Dorier J, Burnier Y, Stasiak A.

Nucleic Acids Res. 2017 Sep 29;45(17):9850-9859. doi: 10.1093/nar/gkx716.


Topological Models for Open-Knotted Protein Chains Using the Concepts of Knotoids and Bonded Knotoids.

Goundaroulis D, Gügümcü N, Lambropoulou S, Dorier J, Stasiak A, Kauffman L.

Polymers (Basel). 2017 Sep 13;9(9). pii: E444. doi: 10.3390/polym9090444.


Molecular Dynamics Simulation of Supercoiled, Knotted, and Catenated DNA Molecules, Including Modeling of Action of DNA Gyrase.

Racko D, Benedetti F, Dorier J, Burnier Y, Stasiak A.

Methods Mol Biol. 2017;1624:339-372. doi: 10.1007/978-1-4939-7098-8_24.


Studies of global and local entanglements of individual protein chains using the concept of knotoids.

Goundaroulis D, Dorier J, Benedetti F, Stasiak A.

Sci Rep. 2017 Jul 24;7(1):6309. doi: 10.1038/s41598-017-06649-3.


Ciproxifan, a histamine H3 receptor antagonist, reversibly inhibits monoamine oxidase A and B.

Hagenow S, Stasiak A, Ramsay RR, Stark H.

Sci Rep. 2017 Jan 13;7:40541. doi: 10.1038/srep40541.


Monoaminergic and Histaminergic Strategies and Treatments in Brain Diseases.

Di Giovanni G, Svob Strac D, Sole M, Unzeta M, Tipton KF, Mück-Šeler D, Bolea I, Della Corte L, Nikolac Perkovic M, Pivac N, Smolders IJ, Stasiak A, Fogel WA, De Deurwaerdère P.

Front Neurosci. 2016 Nov 24;10:541. eCollection 2016. Review.


In Search of Functional Advantages of Knots in Proteins.

Dabrowski-Tumanski P, Stasiak A, Sulkowska JI.

PLoS One. 2016 Nov 2;11(11):e0165986. doi: 10.1371/journal.pone.0165986. eCollection 2016.


Model of DNA topology simplification has come full (supercoiled) circle after two decades of research: Comment on "Disentangling DNA molecules" by Alexander Vologodskii.

Stasiak A.

Phys Life Rev. 2016 Sep;18:154-157. doi: 10.1016/j.plrev.2016.06.004. Epub 2016 Jun 17. No abstract available.


How topoisomerase IV can efficiently unknot and decatenate negatively supercoiled DNA molecules without causing their torsional relaxation.

Rawdon EJ, Dorier J, Racko D, Millett KC, Stasiak A.

Nucleic Acids Res. 2016 Jun 2;44(10):4528-38. doi: 10.1093/nar/gkw311. Epub 2016 Apr 22.


Neural Segregation of Concurrent Speech: Effects of Background Noise and Reverberation on Auditory Scene Analysis in the Ventral Cochlear Nucleus.

Sayles M, Stasiak A, Winter IM.

Adv Exp Med Biol. 2016;894:389-397. doi: 10.1007/978-3-319-25474-6_41.


Generation of supercoils in nicked and gapped DNA drives DNA unknotting and postreplicative decatenation.

Racko D, Benedetti F, Dorier J, Burnier Y, Stasiak A.

Nucleic Acids Res. 2015 Sep 3;43(15):7229-36. doi: 10.1093/nar/gkv683. Epub 2015 Jul 6.


Presence control of DNA repair controllers.

Stasiak A.

Cell Cycle. 2015;14(14):2199. doi: 10.1080/15384101.2015.1056618. No abstract available.


Subknots in ideal knots, random knots, and knotted proteins.

Rawdon EJ, Millett KC, Stasiak A.

Sci Rep. 2015 Mar 10;5:8928. doi: 10.1038/srep08928.


Effects of physiological self-crowding of DNA on shape and biological properties of DNA molecules with various levels of supercoiling.

Benedetti F, Japaridze A, Dorier J, Racko D, Kwapich R, Burnier Y, Dietler G, Stasiak A.

Nucleic Acids Res. 2015 Feb 27;43(4):2390-9. doi: 10.1093/nar/gkv055. Epub 2015 Feb 4.


Reverberation impairs brainstem temporal representations of voiced vowel sounds: challenging "periodicity-tagged" segregation of competing speech in rooms.

Sayles M, Stasiak A, Winter IM.

Front Syst Neurosci. 2015 Jan 12;8:248. doi: 10.3389/fnsys.2014.00248. eCollection 2014.


Electrophoretic mobility of supercoiled, catenated and knotted DNA molecules.

Cebrián J, Kadomatsu-Hermosa MJ, Castán A, Martínez V, Parra C, Fernández-Nestosa MJ, Schaerer C, Martínez-Robles ML, Hernández P, Krimer DB, Stasiak A, Schvartzman JB.

Nucleic Acids Res. 2015 Feb 27;43(4):e24. doi: 10.1093/nar/gku1255. Epub 2014 Nov 20.


KnotProt: a database of proteins with knots and slipknots.

Jamroz M, Niemyska W, Rawdon EJ, Stasiak A, Millett KC, Sułkowski P, Sulkowska JI.

Nucleic Acids Res. 2015 Jan;43(Database issue):D306-14. doi: 10.1093/nar/gku1059. Epub 2014 Oct 31.


Effects of supercoiling on enhancer-promoter contacts.

Benedetti F, Dorier J, Stasiak A.

Nucleic Acids Res. 2014;42(16):10425-32. doi: 10.1093/nar/gku759. Epub 2014 Aug 14.


Hepatocyte transplants improve liver function and encephalopathy in portacaval shunted rats.

Fogel WA, Stasiak A, Maksymowicz M, Kobos J, Unzeta M, Mussur M.

CNS Neurosci Ther. 2014 Jul;20(7):685-91. doi: 10.1111/cns.12265. Epub 2014 Apr 10.


Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes.

Benedetti F, Dorier J, Burnier Y, Stasiak A.

Nucleic Acids Res. 2014 Mar;42(5):2848-55. doi: 10.1093/nar/gkt1353. Epub 2013 Dec 23.


Heart remodeling induced by adjuvant trastuzumab-containing chemotherapy for breast cancer overexpressing human epidermal growth factor receptor type 2: a prospective study.

Piotrowski G, Gawor R, Bourge RC, Stasiak A, Potemski P, Gawor Z, Nanda NC, Banach M.

Pharmacol Res. 2013 Dec;78:41-8. doi: 10.1016/j.phrs.2013.10.001. Epub 2013 Oct 27.


Modelling of crowded polymers elucidate effects of double-strand breaks in topological domains of bacterial chromosomes.

Dorier J, Stasiak A.

Nucleic Acids Res. 2013 Aug;41(14):6808-15. doi: 10.1093/nar/gkt480. Epub 2013 Jun 5.


Can comodulation masking release occur when frequency changes could promote perceptual segregation of the on-frequency and flanking bands?

Verhey JL, Epp B, Stasiak A, Winter IM.

Adv Exp Med Biol. 2013;787:475-82. doi: 10.1007/978-1-4614-1590-9_52.


Effects of novel monoamine oxidases and cholinesterases targeting compounds on brain neurotransmitters and behavior in rat model of vascular dementia.

Stasiak A, Mussur M, Unzeta M, Samadi A, Marco-Contelles JL, Fogel WA.

Curr Pharm Des. 2014;20(2):161-71.


Knot localization in proteins.

Rawdon EJ, Millett KC, Sułkowska JI, Stasiak A.

Biochem Soc Trans. 2013 Apr;41(2):538-41. doi: 10.1042/BST20120329. Review.


Identifying knots in proteins.

Millett KC, Rawdon EJ, Stasiak A, Sułkowska JI.

Biochem Soc Trans. 2013 Apr;41(2):533-7. doi: 10.1042/BST20120339. Review.


Topological aspects of DNA function and protein folding.

Stasiak A, Bates AD, Buck DE, Harris SA, Sumners de W.

Biochem Soc Trans. 2013 Apr;41(2):491-3. doi: 10.1042/BST20130006.


Cognitive performance as a zeitgeber: cognitive oscillators and cholinergic modulation of the SCN entrain circadian rhythms.

Gritton HJ, Stasiak AM, Sarter M, Lee TM.

PLoS One. 2013;8(2):e56206. doi: 10.1371/journal.pone.0056206. Epub 2013 Feb 18.


Sedimentation of macroscopic rigid knots and its relation to gel electrophoretic mobility of DNA knots.

Weber C, Carlen M, Dietler G, Rawdon EJ, Stasiak A.

Sci Rep. 2013;3:1091. doi: 10.1038/srep01091. Epub 2013 Jan 21.


Probing Rad51-DNA interactions by changing DNA twist.

Atwell S, Disseau L, Stasiak AZ, Stasiak A, Renodon-Cornière A, Takahashi M, Viovy JL, Cappello G.

Nucleic Acids Res. 2012 Dec;40(22):11769-76. doi: 10.1093/nar/gks1131. Epub 2012 Nov 24.


Saccharomyces cerevisiae Dmc1 and Rad51 proteins preferentially function with Tid1 and Rad54 proteins, respectively, to promote DNA strand invasion during genetic recombination.

Nimonkar AV, Dombrowski CC, Siino JS, Stasiak AZ, Stasiak A, Kowalczykowski SC.

J Biol Chem. 2012 Aug 17;287(34):28727-37. doi: 10.1074/jbc.M112.373290. Epub 2012 Jun 29.


Conservation of complex knotting and slipknotting patterns in proteins.

Sułkowska JI, Rawdon EJ, Millett KC, Onuchic JN, Stasiak A.

Proc Natl Acad Sci U S A. 2012 Jun 26;109(26):E1715-23. doi: 10.1073/pnas.1205918109. Epub 2012 Jun 8.

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