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Improving ancient DNA genome assembly.

Seitz A, Nieselt K.

PeerJ. 2017 Apr 5;5:e3126. doi: 10.7717/peerj.3126. eCollection 2017.


Expression of Desmoglein 2, Desmocollin 3 and Plakophilin 2 in Placenta and Bone Marrow-Derived Mesenchymal Stromal Cells.

Hart ML, Rusch E, Kaupp M, Nieselt K, Aicher WK.

Stem Cell Rev. 2017 Apr;13(2):258-266. doi: 10.1007/s12015-016-9710-4.


Fast and simple protein-alignment-guided assembly of orthologous gene families from microbiome sequencing reads.

Huson DH, Tappu R, Bazinet AL, Xie C, Cummings MP, Nieselt K, Williams R.

Microbiome. 2017 Jan 25;5(1):11. doi: 10.1186/s40168-017-0233-2.


Origin of modern syphilis and emergence of a pandemic Treponema pallidum cluster.

Arora N, Schuenemann VJ, Jäger G, Peltzer A, Seitz A, Herbig A, Strouhal M, Grillová L, Sánchez-Busó L, Kühnert D, Bos KI, Davis LR, Mikalová L, Bruisten S, Komericki P, French P, Grant PR, Pando MA, Vaulet LG, Fermepin MR, Martinez A, Centurion Lara A, Giacani L, Norris SJ, Šmajs D, Bosshard PP, González-Candelas F, Nieselt K, Krause J, Bagheri HC.

Nat Microbiol. 2016 Dec 5;2:16245. doi: 10.1038/nmicrobiol.2016.245.


EAGER: efficient ancient genome reconstruction.

Peltzer A, Jäger G, Herbig A, Seitz A, Kniep C, Krause J, Nieselt K.

Genome Biol. 2016 Mar 31;17:60. doi: 10.1186/s13059-016-0918-z.


Bone marrow-derived mesenchymal stromal cells differ in their attachment to fibronectin-derived peptides from term placenta-derived mesenchymal stromal cells.

Maerz JK, Roncoroni LP, Goldeck D, Abruzzese T, Kalbacher H, Rolauffs B, DeZwart P, Nieselt K, Hart ML, Klein G, Aicher WK.

Stem Cell Res Ther. 2016 Feb 11;7:29. doi: 10.1186/s13287-015-0243-6.


Highlights from the 5th Symposium on Biological Data Visualization: Part 2.

Aerts J, Marai GE, Nieselt K, Nielsen C, Streit M, Weiskopf D.

BMC Proc. 2015 Aug 13;9(Suppl 6 Proceedings of the 5th Symposium on Biological Data):S1. doi: 10.1186/1753-6561-9-S6-S1. eCollection 2015. No abstract available.


Highlights from the 5th Symposium on Biological Data Visualization: Part 1.

Aerts J, Marai GE, Nieselt K, Nielsen C, Streit M, Weiskopf D.

BMC Bioinformatics. 2015;16 Suppl 11:S1. doi: 10.1186/1471-2105-16-S11-S1. Epub 2015 Aug 13. No abstract available.


Pan-Tetris: an interactive visualisation for Pan-genomes.

Hennig A, Bernhardt J, Nieselt K.

BMC Bioinformatics. 2015;16 Suppl 11:S3. doi: 10.1186/1471-2105-16-S11-S3. Epub 2015 Aug 13.


A novel point mutation promotes growth phase-dependent daptomycin tolerance in Staphylococcus aureus.

Mechler L, Herbig A, Paprotka K, Fraunholz M, Nieselt K, Bertram R.

Antimicrob Agents Chemother. 2015 Sep;59(9):5366-76. doi: 10.1128/AAC.00643-15. Epub 2015 Jun 22.


Differential RNA-seq (dRNA-seq) for annotation of transcriptional start sites and small RNAs in Helicobacter pylori.

Bischler T, Tan HS, Nieselt K, Sharma CM.

Methods. 2015 Sep 15;86:89-101. doi: 10.1016/j.ymeth.2015.06.012. Epub 2015 Jun 16.


Insight into the evolution and origin of leprosy bacilli from the genome sequence of Mycobacterium lepromatosis.

Singh P, Benjak A, Schuenemann VJ, Herbig A, Avanzi C, Busso P, Nieselt K, Krause J, Vera-Cabrera L, Cole ST.

Proc Natl Acad Sci U S A. 2015 Apr 7;112(14):4459-64. doi: 10.1073/pnas.1421504112. Epub 2015 Mar 23.


Emergence of coding and its specificity as a physico-informatic problem.

Wills PR, Nieselt K, McCaskill JS.

Orig Life Evol Biosph. 2015 Jun;45(1-2):249-55. doi: 10.1007/s11084-015-9434-5.


A whole-genome microarray study of Arabidopsis thaliana semisolid callus cultures exposed to microgravity and nonmicrogravity related spaceflight conditions for 5 days on board of Shenzhou 8.

Fengler S, Spirer I, Neef M, Ecke M, Nieselt K, Hampp R.

Biomed Res Int. 2015;2015:547495. doi: 10.1155/2015/547495. Epub 2015 Jan 13.


Parallel detection of ancient pathogens via array-based DNA capture.

Bos KI, Jäger G, Schuenemann VJ, Vågene ÅJ, Spyrou MA, Herbig A, Nieselt K, Krause J.

Philos Trans R Soc Lond B Biol Sci. 2015 Jan 19;370(1660):20130375. doi: 10.1098/rstb.2013.0375.


Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli.

Thomason MK, Bischler T, Eisenbart SK, Förstner KU, Zhang A, Herbig A, Nieselt K, Sharma CM, Storz G.

J Bacteriol. 2015 Jan 1;197(1):18-28. doi: 10.1128/JB.02096-14. Epub 2014 Sep 29.


Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis.

Bos KI, Harkins KM, Herbig A, Coscolla M, Weber N, Comas I, Forrest SA, Bryant JM, Harris SR, Schuenemann VJ, Campbell TJ, Majander K, Wilbur AK, Guichon RA, Wolfe Steadman DL, Cook DC, Niemann S, Behr MA, Zumarraga M, Bastida R, Huson D, Nieselt K, Young D, Parkhill J, Buikstra JE, Gagneux S, Stone AC, Krause J.

Nature. 2014 Oct 23;514(7523):494-7. doi: 10.1038/nature13591. Epub 2014 Aug 20.


inPHAP: interactive visualization of genotype and phased haplotype data.

Jäger G, Peltzer A, Nieselt K.

BMC Bioinformatics. 2014 Jul 10;15:200. doi: 10.1186/1471-2105-15-200.


Metabolic and transcriptional activities of Staphylococcus aureus challenged with high-doses of daptomycin.

Lechner S, Prax M, Lange B, Huber C, Eisenreich W, Herbig A, Nieselt K, Bertram R.

Int J Med Microbiol. 2014 Nov;304(8):931-40. doi: 10.1016/j.ijmm.2014.05.008. Epub 2014 May 28.


Altering gene expression by aminocoumarins: the role of DNA supercoiling in Staphylococcus aureus.

Schröder W, Bernhardt J, Marincola G, Klein-Hitpass L, Herbig A, Krupp G, Nieselt K, Wolz C.

BMC Genomics. 2014 Apr 16;15:291. doi: 10.1186/1471-2164-15-291.

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