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Items: 1 to 50 of 78

1.

An Overview of miRNA and miRNA Target Analysis Tools.

Lukasik A, Zielenkiewicz P.

Methods Mol Biol. 2019;1932:65-87. doi: 10.1007/978-1-4939-9042-9_5. Review.

PMID:
30701492
2.

Host microRNA analysis in cyprinid Herpesvirus-3 (CyHV-3) infected common carp.

Reichert M, Lukasik A, Zielenkiewicz P, Matras M, Maj-Paluch J, Stachnik M, Borzym E.

BMC Genomics. 2019 Jan 16;20(1):46. doi: 10.1186/s12864-018-5266-9.

3.

EU-OPENSCREEN: A Novel Collaborative Approach to Facilitate Chemical Biology.

Brennecke P, Rasina D, Aubi O, Herzog K, Landskron J, Cautain B, Vicente F, Quintana J, Mestres J, Stechmann B, Ellinger B, Brea J, Kolanowski JL, Pilarski R, Orzaez M, Pineda-Lucena A, Laraia L, Nami F, Zielenkiewicz P, Paruch K, Hansen E, von Kries JP, Neuenschwander M, Specker E, Bartunek P, Simova S, Leśnikowski Z, Krauss S, Lehtiö L, Bilitewski U, Brönstrup M, Taskén K, Jirgensons A, Lickert H, Clausen MH, Andersen JH, Vicent MJ, Genilloud O, Martinez A, Nazaré M, Fecke W, Gribbon P.

SLAS Discov. 2019 Mar;24(3):398-413. doi: 10.1177/2472555218816276. Epub 2019 Jan 7.

4.

Novel calcineurin A (PPP3CA) variant associated with epilepsy, constitutive enzyme activation and downregulation of protein expression.

Rydzanicz M, Wachowska M, Cook EC, Lisowski P, Kuźniewska B, Szymańska K, Diecke S, Prigione A, Szczałuba K, Szybińska A, Koppolu A, Murcia Pienkowski V, Kosińska J, Wiweger M, Kostrzewa G, Brzozowska M, Domańska-Pakieła D, Jurkiewicz E, Stawiński P, Gromadka A, Zielenkiewicz P, Demkow U, Dziembowska M, Kuźnicki J, Creamer TP, Płoski R.

Eur J Hum Genet. 2019 Jan;27(1):61-69. doi: 10.1038/s41431-018-0254-8. Epub 2018 Sep 25.

5.

Development and evaluation of a deep learning model for protein-ligand binding affinity prediction.

Stepniewska-Dziubinska MM, Zielenkiewicz P, Siedlecki P.

Bioinformatics. 2018 Nov 1;34(21):3666-3674. doi: 10.1093/bioinformatics/bty374.

6.

Detection of Plant miRNAs Abundance in Human Breast Milk.

Lukasik A, Brzozowska I, Zielenkiewicz U, Zielenkiewicz P.

Int J Mol Sci. 2017 Dec 23;19(1). pii: E37. doi: 10.3390/ijms19010037.

7.

DeCAF-Discrimination, Comparison, Alignment Tool for 2D PHarmacophores.

Stepniewska-Dziubinska MM, Zielenkiewicz P, Siedlecki P.

Molecules. 2017 Jul 6;22(7). pii: E1128. doi: 10.3390/molecules22071128.

8.

Plant MicroRNAs-Novel Players in Natural Medicine?

Lukasik A, Zielenkiewicz P.

Int J Mol Sci. 2016 Dec 22;18(1). pii: E9. doi: 10.3390/ijms18010009. Review.

9.

Mapping Protein-Protein Interactions of the Resistance-Related Bacterial Zeta Toxin-Epsilon Antitoxin Complex (ε₂ζ₂) with High Affinity Peptide Ligands Using Fluorescence Polarization.

Fernández-Bachiller MI, Brzozowska I, Odolczyk N, Zielenkiewicz U, Zielenkiewicz P, Rademann J.

Toxins (Basel). 2016 Jul 16;8(7). pii: E222. doi: 10.3390/toxins8070222.

10.

Rattlesnake Phospholipase A2 Increases CFTR-Chloride Channel Current and Corrects ∆F508CFTR Dysfunction: Impact in Cystic Fibrosis.

Faure G, Bakouh N, Lourdel S, Odolczyk N, Premchandar A, Servel N, Hatton A, Ostrowski MK, Xu H, Saul FA, Moquereau C, Bitam S, Pranke I, Planelles G, Teulon J, Herrmann H, Roldan A, Zielenkiewicz P, Dadlez M, Lukacs GL, Sermet-Gaudelus I, Ollero M, Corringer PJ, Edelman A.

J Mol Biol. 2016 Jul 17;428(14):2898-915. doi: 10.1016/j.jmb.2016.05.016. Epub 2016 May 27.

PMID:
27241308
11.

Arteriovenous oscillations of the redox potential: Is the redox state influencing blood flow?

Poznanski J, Szczesny P, Pawlinski B, Mazurek T, Zielenkiewicz P, Gajewski Z, Paczek L.

Redox Rep. 2017 Sep;22(5):210-217. doi: 10.1080/13510002.2016.1177933. Epub 2016 May 19.

PMID:
27198857
12.

Tools4miRs - one place to gather all the tools for miRNA analysis.

Lukasik A, Wójcikowski M, Zielenkiewicz P.

Bioinformatics. 2016 Sep 1;32(17):2722-4. doi: 10.1093/bioinformatics/btw189. Epub 2016 Apr 8.

13.

Dominance from the perspective of gene-gene and gene-chemical interactions.

Gladki A, Zielenkiewicz P, Kaczanowski S.

Genetica. 2016 Feb;144(1):23-36. doi: 10.1007/s10709-015-9875-9. Epub 2015 Nov 27.

14.

A Specialized Histone H1 Variant Is Required for Adaptive Responses to Complex Abiotic Stress and Related DNA Methylation in Arabidopsis.

Rutowicz K, Puzio M, Halibart-Puzio J, Lirski M, Kotliński M, Kroteń MA, Knizewski L, Lange B, Muszewska A, Śniegowska-Świerk K, Kościelniak J, Iwanicka-Nowicka R, Buza K, Janowiak F, Żmuda K, Jõesaar I, Laskowska-Kaszub K, Fogtman A, Kollist H, Zielenkiewicz P, Tiuryn J, Siedlecki P, Swiezewski S, Ginalski K, Koblowska M, Archacki R, Wilczynski B, Rapacz M, Jerzmanowski A.

Plant Physiol. 2015 Nov;169(3):2080-101. doi: 10.1104/pp.15.00493. Epub 2015 Sep 8.

15.

Open Drug Discovery Toolkit (ODDT): a new open-source player in the drug discovery field.

Wójcikowski M, Zielenkiewicz P, Siedlecki P.

J Cheminform. 2015 Jun 22;7:26. doi: 10.1186/s13321-015-0078-2. eCollection 2015.

16.

Co-regulation of translation in protein complexes.

Siwiak M, Zielenkiewicz P.

Biol Direct. 2015 Apr 25;10:18. doi: 10.1186/s13062-015-0048-7.

17.

The clinical response to vemurafenib in a patient with a rare BRAFV600DK601del mutation-positive melanoma.

Trudel S, Odolczyk N, Dremaux J, Toffin J, Regnier A, Sevestre H, Zielenkiewicz P, Arnault JP, Gubler B.

BMC Cancer. 2014 Sep 29;14:727. doi: 10.1186/1471-2407-14-727.

18.

In silico identification of plant miRNAs in mammalian breast milk exosomes--a small step forward?

Lukasik A, Zielenkiewicz P.

PLoS One. 2014 Jun 16;9(6):e99963. doi: 10.1371/journal.pone.0099963. eCollection 2014.

19.

Molecular modelling approaches for cystic fibrosis transmembrane conductance regulator studies.

Odolczyk N, Zielenkiewicz P.

Int J Biochem Cell Biol. 2014 Jul;52:39-46. doi: 10.1016/j.biocel.2014.04.004. Epub 2014 Apr 13. Review.

PMID:
24735712
20.

DiSCuS: an open platform for (not only) virtual screening results management.

Wójcikowski M, Zielenkiewicz P, Siedlecki P.

J Chem Inf Model. 2014 Jan 27;54(1):347-54. doi: 10.1021/ci400587f. Epub 2014 Jan 3.

PMID:
24364790
21.

High-throughput sequencing identification of novel and conserved miRNAs in the Brassica oleracea leaves.

Lukasik A, Pietrykowska H, Paczek L, Szweykowska-Kulinska Z, Zielenkiewicz P.

BMC Genomics. 2013 Nov 19;14:801. doi: 10.1186/1471-2164-14-801.

22.

Hypophosphatemia and sudden infant death syndrome (SIDS)--is ATP the link?

Szczesny P, Poznanski J, Paczek L, Zielenkiewicz P.

Ups J Med Sci. 2014 Mar;119(1):55-6. doi: 10.3109/03009734.2013.849317. Epub 2013 Oct 23. No abstract available.

23.

Transimulation - protein biosynthesis web service.

Siwiak M, Zielenkiewicz P.

PLoS One. 2013 Sep 5;8(9):e73943. doi: 10.1371/journal.pone.0073943. eCollection 2013.

24.

Discovery of novel potent ΔF508-CFTR correctors that target the nucleotide binding domain.

Odolczyk N, Fritsch J, Norez C, Servel N, da Cunha MF, Bitam S, Kupniewska A, Wiszniewski L, Colas J, Tarnowski K, Tondelier D, Roldan A, Saussereau EL, Melin-Heschel P, Wieczorek G, Lukacs GL, Dadlez M, Faure G, Herrmann H, Ollero M, Becq F, Zielenkiewicz P, Edelman A.

EMBO Mol Med. 2013 Oct;5(10):1484-501. doi: 10.1002/emmm.201302699. Epub 2013 Aug 27.

25.

Urine proteomes of healthy aging humans reveal extracellular matrix (ECM) alterations and immune system dysfunction.

Bakun M, Senatorski G, Rubel T, Lukasik A, Zielenkiewicz P, Dadlez M, Paczek L.

Age (Dordr). 2014 Feb;36(1):299-311. doi: 10.1007/s11357-013-9562-7. Epub 2013 Aug 6.

27.

The quantum casimir effect may be a universal force organizing the bilayer structure of the cell membrane.

Pawlowski PH, Zielenkiewicz P.

J Membr Biol. 2013 May;246(5):383-9. doi: 10.1007/s00232-013-9544-9. Epub 2013 Apr 24.

28.

A kinetic model of the evolution of a protein interaction network.

Pawlowski PH, Kaczanowski S, Zielenkiewicz P.

BMC Genomics. 2013 Mar 14;14:172. doi: 10.1186/1471-2164-14-172.

29.

The evolutionary rate of antibacterial drug targets.

Gladki A, Kaczanowski S, Szczesny P, Zielenkiewicz P.

BMC Bioinformatics. 2013 Feb 1;14:36. doi: 10.1186/1471-2105-14-36.

30.

Proteins contribute insignificantly to the intrinsic buffering capacity of yeast cytoplasm.

Poznanski J, Szczesny P, Ruszczyńska K, Zielenkiewicz P, Paczek L.

Biochem Biophys Res Commun. 2013 Jan 11;430(2):741-4. doi: 10.1016/j.bbrc.2012.11.079. Epub 2012 Dec 1.

PMID:
23206695
31.

Structural models of CFTR-AMPK and CFTR-PKA interactions: R-domain flexibility is a key factor in CFTR regulation.

Siwiak M, Edelman A, Zielenkiewicz P.

J Mol Model. 2012 Jan;18(1):83-90. doi: 10.1007/s00894-011-1029-0. Epub 2011 Apr 1.

32.

A comprehensive, quantitative, and genome-wide model of translation.

Siwiak M, Zielenkiewicz P.

PLoS Comput Biol. 2010 Jul 29;6(7):e1000865. doi: 10.1371/journal.pcbi.1000865.

33.
34.

The High Throughput Sequence Annotation Service (HT-SAS) - the shortcut from sequence to true Medline words.

Kaczanowski S, Siedlecki P, Zielenkiewicz P.

BMC Bioinformatics. 2009 May 16;10:148. doi: 10.1186/1471-2105-10-148.

35.

Influence of macromolecular crowding on protein-protein association rates--a Brownian dynamics study.

Wieczorek G, Zielenkiewicz P.

Biophys J. 2008 Dec;95(11):5030-6. doi: 10.1529/biophysj.108.136291. Epub 2008 Aug 29.

36.

Theoretical model of thalassemic erythrocyte shape transformation.

Pawlowski PH, Burzyńska B, Zielenkiewicz P.

J Theor Biol. 2008 Oct 7;254(3):575-9. doi: 10.1016/j.jtbi.2008.06.029. Epub 2008 Jul 3.

PMID:
18652835
37.

e-LiSe--an online tool for finding needles in the '(Medline) haystack'.

Gladki A, Siedlecki P, Kaczanowski S, Zielenkiewicz P.

Bioinformatics. 2008 Apr 15;24(8):1115-7. doi: 10.1093/bioinformatics/btn086. Epub 2008 Mar 5.

PMID:
18321884
38.

DeltaF508 mutation increases conformational flexibility of CFTR protein.

Wieczorek G, Zielenkiewicz P.

J Cyst Fibros. 2008 Jul;7(4):295-300. doi: 10.1016/j.jcf.2007.11.008. Epub 2008 Jan 29.

39.

Overrepresentation of interactions between homologous proteins in interactomes.

Orlowski J, Kaczanowski S, Zielenkiewicz P.

FEBS Lett. 2007 Jan 9;581(1):52-6. Epub 2006 Dec 8.

40.

Lattice simulations of protein crystal formation.

Kierzek AM, Pokarowski P, Zielenkiewicz P.

Biophys Chem. 1999 Mar 29;77(2-3):123-37.

PMID:
17027470
41.

Nicotiana tabacum osmotic stress-activated kinase is regulated by phosphorylation on Ser-154 and Ser-158 in the kinase activation loop.

Burza AM, Pekala I, Sikora J, Siedlecki P, Małagocki P, Bucholc M, Koper L, Zielenkiewicz P, Dadlez M, Dobrowolska G.

J Biol Chem. 2006 Nov 10;281(45):34299-311. Epub 2006 Sep 15.

42.

Theoretical model of reticulocyte to erythrocyte shape transformation.

Pawlowski PH, Burzyńska B, Zielenkiewicz P.

J Theor Biol. 2006 Nov 7;243(1):24-38. Epub 2006 Jun 20.

PMID:
16876199
43.

Mammalian DNA methyltransferases.

Siedlecki P, Zielenkiewicz P.

Acta Biochim Pol. 2006;53(2):245-56. Epub 2006 Apr 3. Review.

44.

Discovery of two novel, small-molecule inhibitors of DNA methylation.

Siedlecki P, Garcia Boy R, Musch T, Brueckner B, Suhai S, Lyko F, Zielenkiewicz P.

J Med Chem. 2006 Jan 26;49(2):678-83.

PMID:
16420053
45.

Epigenetic reactivation of tumor suppressor genes by a novel small-molecule inhibitor of human DNA methyltransferases.

Brueckner B, Garcia Boy R, Siedlecki P, Musch T, Kliem HC, Zielenkiewicz P, Suhai S, Wiessler M, Lyko F.

Cancer Res. 2005 Jul 15;65(14):6305-11.

46.

MOFOID--not only the protein modeling server.

Szczesny P, Wieczorek G, Zielenkiewicz P.

Acta Biochim Pol. 2005;52(1):267-9.

48.

Biochemical kinetics in changing volumes.

Pawłowski PH, Zielenkiewicz P.

Acta Biochim Pol. 2004;51(1):231-43.

49.

Comparison of two different lysozyme types under native and crystallization conditions using two-dimensional NMR and dynamic light scattering.

Poznański J, Georgalis Y, Wehr L, Saenger W, Zielenkiewicz P.

Biophys Chem. 2003 Jul 1;104(3):605-16.

PMID:
12914906
50.

A TIP on malaria (genomics).

Kaczanowski S, Zielenkiewicz P.

Nat Biotechnol. 2003 Jul;21(7):733. No abstract available.

PMID:
12833085

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