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Items: 30

1.

Dicer cleaves 5'-extended microRNA precursors originating from RNA polymerase II transcription start sites.

Sheng P, Fields C, Aadland K, Wei T, Kolaczkowski O, Gu T, Kolaczkowski B, Xie M.

Nucleic Acids Res. 2018 Jun 20;46(11):5737-5752. doi: 10.1093/nar/gky306.

2.

Increased Affinity for RNA Targets Evolved Early in Animal and Plant Dicer Lineages through Different Structural Mechanisms.

Jia H, Kolaczkowski O, Rolland J, Kolaczkowski B.

Mol Biol Evol. 2017 Dec 1;34(12):3047-3063. doi: 10.1093/molbev/msx187.

3.

Improving the accuracy of high-throughput protein-protein affinity prediction may require better training data.

Dias R, Kolaczkowski B.

BMC Bioinformatics. 2017 Mar 23;18(Suppl 5):102. doi: 10.1186/s12859-017-1533-z.

4.

Convergence of Domain Architecture, Structure, and Ligand Affinity in Animal and Plant RNA-Binding Proteins.

Dias R, Manny A, Kolaczkowski O, Kolaczkowski B.

Mol Biol Evol. 2017 Jun 1;34(6):1429-1444. doi: 10.1093/molbev/msx090.

5.

Comparison of traditional field retting and Phlebia radiata Cel 26 retting of hemp fibres for fibre-reinforced composites.

Liu M, Ale MT, Kołaczkowski B, Fernando D, Daniel G, Meyer AS, Thygesen A.

AMB Express. 2017 Dec;7(1):58. doi: 10.1186/s13568-017-0355-8. Epub 2017 Mar 9.

6.
7.

Functional Annotations of Paralogs: A Blessing and a Curse.

Zallot R, Harrison KJ, Kolaczkowski B, de Crécy-Lagard V.

Life (Basel). 2016 Sep 8;6(3). pii: E39. doi: 10.3390/life6030039.

8.

Corrigendum: Integrating DNA Methylation and Gene Expression Data in the Development of the Soybean-Bradyrhizobium N2-Fixing Symbiosis.

Davis-Richardson AG, Russell JT, Dias R, McKinlay AJ, Canepa R, Fagen JR, Rusoff KT, Drew JC, Kolaczkowski B, Emerich DW, Triplett EW.

Front Microbiol. 2016 Jun 15;7:952. doi: 10.3389/fmicb.2016.00952. eCollection 2016.

9.

Integrating DNA Methylation and Gene Expression Data in the Development of the Soybean-Bradyrhizobium N2-Fixing Symbiosis.

Davis-Richardson AG, Russell JT, Dias R, McKinlay AJ, Canepa R, Fagen JR, Rusoff KT, Drew JC, Kolaczkowski B, Emerich DW, Triplett EW.

Front Microbiol. 2016 Apr 22;7:518. doi: 10.3389/fmicb.2016.00518. eCollection 2016. Erratum in: Front Microbiol. 2016;7:952.

10.

Genomic Targets and Features of BarA-UvrY (-SirA) Signal Transduction Systems.

Zere TR, Vakulskas CA, Leng Y, Pannuri A, Potts AH, Dias R, Tang D, Kolaczkowski B, Georgellis D, Ahmer BM, Romeo T.

PLoS One. 2015 Dec 16;10(12):e0145035. doi: 10.1371/journal.pone.0145035. eCollection 2015.

11.

Evolution of a Novel Antiviral Immune-Signaling Interaction by Partial-Gene Duplication.

Korithoski B, Kolaczkowski O, Mukherjee K, Kola R, Earl C, Kolaczkowski B.

PLoS One. 2015 Sep 10;10(9):e0137276. doi: 10.1371/journal.pone.0137276. eCollection 2015.

12.

Bacteroides dorei dominates gut microbiome prior to autoimmunity in Finnish children at high risk for type 1 diabetes.

Davis-Richardson AG, Ardissone AN, Dias R, Simell V, Leonard MT, Kemppainen KM, Drew JC, Schatz D, Atkinson MA, Kolaczkowski B, Ilonen J, Knip M, Toppari J, Nurminen N, Hyöty H, Veijola R, Simell T, Mykkänen J, Simell O, Triplett EW.

Front Microbiol. 2014 Dec 10;5:678. doi: 10.3389/fmicb.2014.00678. eCollection 2014.

13.

Adaptive expansion of the maize maternally expressed gene (Meg) family involves changes in expression patterns and protein secondary structures of its members.

Xiong Y, Mei W, Kim ED, Mukherjee K, Hassanein H, Barbazuk WB, Sung S, Kolaczkowski B, Kang BH.

BMC Plant Biol. 2014 Aug 1;14:204. doi: 10.1186/s12870-014-0204-8.

14.

Parallel geographic variation in Drosophila melanogaster.

Reinhardt JA, Kolaczkowski B, Jones CD, Begun DJ, Kern AD.

Genetics. 2014 May;197(1):361-73. doi: 10.1534/genetics.114.161463. Epub 2014 Mar 7.

15.

Compromised gut microbiota networks in children with anti-islet cell autoimmunity.

Endesfelder D, zu Castell W, Ardissone A, Davis-Richardson AG, Achenbach P, Hagen M, Pflueger M, Gano KA, Fagen JR, Drew JC, Brown CT, Kolaczkowski B, Atkinson M, Schatz D, Bonifacio E, Triplett EW, Ziegler AG.

Diabetes. 2014 Jun;63(6):2006-14. doi: 10.2337/db13-1676. Epub 2014 Mar 7.

16.

Ancient origins of vertebrate-specific innate antiviral immunity.

Mukherjee K, Korithoski B, Kolaczkowski B.

Mol Biol Evol. 2014 Jan;31(1):140-53. doi: 10.1093/molbev/mst184. Epub 2013 Oct 8.

17.

Evolution of animal and plant dicers: early parallel duplications and recurrent adaptation of antiviral RNA binding in plants.

Mukherjee K, Campos H, Kolaczkowski B.

Mol Biol Evol. 2013 Mar;30(3):627-41. doi: 10.1093/molbev/mss263. Epub 2012 Nov 22.

18.

Genomic variation in natural populations of Drosophila melanogaster.

Langley CH, Stevens K, Cardeno C, Lee YC, Schrider DR, Pool JE, Langley SA, Suarez C, Corbett-Detig RB, Kolaczkowski B, Fang S, Nista PM, Holloway AK, Kern AD, Dewey CN, Song YS, Hahn MW, Begun DJ.

Genetics. 2012 Oct;192(2):533-98. doi: 10.1534/genetics.112.142018. Epub 2012 Jun 5.

19.

Genomic differentiation between temperate and tropical Australian populations of Drosophila melanogaster.

Kolaczkowski B, Kern AD, Holloway AK, Begun DJ.

Genetics. 2011 Jan;187(1):245-60. doi: 10.1534/genetics.110.123059. Epub 2010 Nov 8.

20.

Recurrent adaptation in RNA interference genes across the Drosophila phylogeny.

Kolaczkowski B, Hupalo DN, Kern AD.

Mol Biol Evol. 2011 Feb;28(2):1033-42. doi: 10.1093/molbev/msq284. Epub 2010 Oct 22.

PMID:
20971974
21.

Robustness of ancestral sequence reconstruction to phylogenetic uncertainty.

Hanson-Smith V, Kolaczkowski B, Thornton JW.

Mol Biol Evol. 2010 Sep;27(9):1988-99. doi: 10.1093/molbev/msq081. Epub 2010 Apr 5.

22.

Long-branch attraction bias and inconsistency in Bayesian phylogenetics.

Kolaczkowski B, Thornton JW.

PLoS One. 2009 Dec 9;4(12):e7891. doi: 10.1371/journal.pone.0007891. Erratum in: PLoS One. 2010;5(3). doi: 10.1371/annotation/93635f70-47d7-4876-84f5-dd568434c9ae. PLoS One. 2010;5(6). doi: 10.1371/annotation/1cd49dad-a033-4832-b2a9-610dc84e2662. PLoS One. 2010;5(3). doi: 10.1371/annotation/fb21ff39-0500-49c9-9ab3-21d924c6299d.

23.

INTREPID: a web server for prediction of functionally important residues by evolutionary analysis.

Sankararaman S, Kolaczkowski B, Sjölander K.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W390-5. doi: 10.1093/nar/gkp339. Epub 2009 May 13.

24.

A mixed branch length model of heterotachy improves phylogenetic accuracy.

Kolaczkowski B, Thornton JW.

Mol Biol Evol. 2008 Jun;25(6):1054-66. doi: 10.1093/molbev/msn042. Epub 2008 Mar 3.

25.

Effects of branch length uncertainty on Bayesian posterior probabilities for phylogenetic hypotheses.

Kolaczkowski B, Thornton JW.

Mol Biol Evol. 2007 Sep;24(9):2108-18. Epub 2007 Jul 17.

PMID:
17636043
26.

Is there a star tree paradox?

Kolaczkowski B, Thornton JW.

Mol Biol Evol. 2006 Oct;23(10):1819-23. Epub 2006 Jul 12.

PMID:
16837562
27.

No magic pill for phylogenetic error.

Thornton JW, Kolaczkowski B.

Trends Genet. 2005 Jun;21(6):310-1. No abstract available.

PMID:
15922825
28.

Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous.

Kolaczkowski B, Thornton JW.

Nature. 2004 Oct 21;431(7011):980-4.

PMID:
15496922
29.

[Thermometry of the rewarming skin of the hands in generalized scleroderma].

Kolaczkowski B.

Wiad Lek. 1968 Feb;21(4):319-22. Polish. No abstract available.

PMID:
5669386
30.

[A CASE OF TOXIC EXFOLIATION OF NECROTIC EPIDERMIS FOLLOWING RETASULFIN THERAPY].

LADA-JAGAS R, KOLACZKOWSKI B.

Pol Tyg Lek. 1965 Jan 11;20:65-7. Polish. No abstract available.

PMID:
14331133

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