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Items: 15

1.

Correction to: Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase.

Matelska D, Shabalin IG, Jabłońska J, Domagalski MJ, Kutner J, Ginalski K, Minor W.

BMC Psychiatry. 2019 Jul 16;19(1):221. doi: 10.1186/s12888-019-2207-3.

2.

Key Concepts and Challenges in Archaeal Transcription.

Blombach F, Matelska D, Fouqueau T, Cackett G, Werner F.

J Mol Biol. 2019 Jun 28. pii: S0022-2836(19)30409-7. doi: 10.1016/j.jmb.2019.06.020. [Epub ahead of print] Review.

PMID:
31260691
3.

Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase.

Matelska D, Shabalin IG, Jabłońska J, Domagalski MJ, Kutner J, Ginalski K, Minor W.

BMC Evol Biol. 2018 Dec 22;18(1):199. doi: 10.1186/s12862-018-1309-8. Erratum in: BMC Psychiatry. 2019 Jul 16;19(1):221.

4.

Comparative genomic analysis of Staphylococcus lugdunensis shows a closed pan-genome and multiple barriers to horizontal gene transfer.

Argemi X, Matelska D, Ginalski K, Riegel P, Hansmann Y, Bloom J, Pestel-Caron M, Dahyot S, Lebeurre J, Prévost G.

BMC Genomics. 2018 Aug 20;19(1):621. doi: 10.1186/s12864-018-4978-1.

5.

Structural, Biochemical, and Evolutionary Characterizations of Glyoxylate/Hydroxypyruvate Reductases Show Their Division into Two Distinct Subfamilies.

Kutner J, Shabalin IG, Matelska D, Handing KB, Gasiorowska O, Sroka P, Gorna MW, Ginalski K, Wozniak K, Minor W.

Biochemistry. 2018 Feb 13;57(6):963-977. doi: 10.1021/acs.biochem.7b01137. Epub 2018 Jan 26.

6.

Systematic classification of the His-Me finger superfamily.

Jablonska J, Matelska D, Steczkiewicz K, Ginalski K.

Nucleic Acids Res. 2017 Nov 16;45(20):11479-11494. doi: 10.1093/nar/gkx924.

7.

SupeRNAlign: a new tool for flexible superposition of homologous RNA structures and inference of accurate structure-based sequence alignments.

Piatkowski P, Jablonska J, Zyla A, Niedzialek D, Matelska D, Jankowska E, Walen T, Dawson WK, Bujnicki JM.

Nucleic Acids Res. 2017 Sep 19;45(16):e150. doi: 10.1093/nar/gkx631.

8.

Comprehensive classification of the PIN domain-like superfamily.

Matelska D, Steczkiewicz K, Ginalski K.

Nucleic Acids Res. 2017 Jul 7;45(12):6995-7020. doi: 10.1093/nar/gkx494.

9.

Genome-wide survey of codons under diversifying selection in a highly recombining bacterial species, Helicobacter pylori.

Yahara K, Furuta Y, Morimoto S, Kikutake C, Komukai S, Matelska D, Dunin-Horkawicz S, Bujnicki JM, Uchiyama I, Kobayashi I.

DNA Res. 2016 Apr;23(2):135-43.

10.

Loss of Conserved Noncoding RNAs in Genomes of Bacterial Endosymbionts.

Matelska D, Kurkowska M, Purta E, Bujnicki JM, Dunin-Horkawicz S.

Genome Biol Evol. 2016 Jan 18;8(2):426-38. doi: 10.1093/gbe/evw007.

11.

RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures.

Miao Z, Adamiak RW, Blanchet MF, Boniecki M, Bujnicki JM, Chen SJ, Cheng C, Chojnowski G, Chou FC, Cordero P, Cruz JA, Ferré-D'Amaré AR, Das R, Ding F, Dokholyan NV, Dunin-Horkawicz S, Kladwang W, Krokhotin A, Lach G, Magnus M, Major F, Mann TH, Masquida B, Matelska D, Meyer M, Peselis A, Popenda M, Purzycka KJ, Serganov A, Stasiewicz J, Szachniuk M, Tandon A, Tian S, Wang J, Xiao Y, Xu X, Zhang J, Zhao P, Zok T, Westhof E.

RNA. 2015 Jun;21(6):1066-84. doi: 10.1261/rna.049502.114. Epub 2015 Apr 16.

12.

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.

13.

An RNAi screen identifies KIF15 as a novel regulator of the endocytic trafficking of integrin.

Eskova A, Knapp B, Matelska D, Reusing S, Arjonen A, Lisauskas T, Pepperkok R, Russell R, Eils R, Ivaska J, Kaderali L, Erfle H, Starkuviene V.

J Cell Sci. 2014 Jun 1;127(Pt 11):2433-47. doi: 10.1242/jcs.137281. Epub 2014 Mar 21.

14.

Computational modeling of protein-RNA complex structures.

Tuszynska I, Matelska D, Magnus M, Chojnowski G, Kasprzak JM, Kozlowski LP, Dunin-Horkawicz S, Bujnicki JM.

Methods. 2014 Feb;65(3):310-9. doi: 10.1016/j.ymeth.2013.09.014. Epub 2013 Sep 29. Review.

PMID:
24083976
15.

S6:S18 ribosomal protein complex interacts with a structural motif present in its own mRNA.

Matelska D, Purta E, Panek S, Boniecki MJ, Bujnicki JM, Dunin-Horkawicz S.

RNA. 2013 Oct;19(10):1341-8. doi: 10.1261/rna.038794.113. Epub 2013 Aug 26.

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