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Items: 38

1.

A graph-based approach to diploid genome assembly.

Garg S, Rautiainen M, Novak AM, Garrison E, Durbin R, Marschall T.

Bioinformatics. 2018 Jul 1;34(13):i105-i114. doi: 10.1093/bioinformatics/bty279.

2.

Strand-seq enables reliable separation of long reads by chromosome via expectation maximization.

Ghareghani M, Porubskỳ D, Sanders AD, Meiers S, Eichler EE, Korbel JO, Marschall T.

Bioinformatics. 2018 Jul 1;34(13):i115-i123. doi: 10.1093/bioinformatics/bty290.

3.

Development, validation and application of an ICP-MS/MS method to quantify minerals and (ultra-)trace elements in human serum.

Meyer S, Markova M, Pohl G, Marschall TA, Pivovarova O, Pfeiffer AFH, Schwerdtle T.

J Trace Elem Med Biol. 2018 Sep;49:157-163. doi: 10.1016/j.jtemb.2018.05.012. Epub 2018 May 19.

PMID:
29895367
4.

Selenium species-dependent toxicity, bioavailability and metabolic transformations in Caenorhabditis elegans.

Rohn I, Marschall TA, Kroepfl N, Jensen KB, Aschner M, Tuck S, Kuehnelt D, Schwerdtle T, Bornhorst J.

Metallomics. 2018 Jun 20;10(6):818-827. doi: 10.1039/c8mt00066b.

PMID:
29770420
5.

[Physician assistants in surgery : A young profession through graduates' eyes].

Hoffmann M, Arnegger S, Mend B, Hoffmann R, Marschall T.

Unfallchirurg. 2018 Jun;121(6):502-509. doi: 10.1007/s00113-018-0505-8. German.

PMID:
29721654
6.

Compression-driven jamming of athermal frictionless spherocylinders in two dimensions.

Marschall T, Teitel S.

Phys Rev E. 2018 Jan;97(1-1):012905. doi: 10.1103/PhysRevE.97.012905.

PMID:
29448353
7.

Mapping and phasing of structural variation in patient genomes using nanopore sequencing.

Cretu Stancu M, van Roosmalen MJ, Renkens I, Nieboer MM, Middelkamp S, de Ligt J, Pregno G, Giachino D, Mandrile G, Espejo Valle-Inclan J, Korzelius J, de Bruijn E, Cuppen E, Talkowski ME, Marschall T, de Ridder J, Kloosterman WP.

Nat Commun. 2017 Nov 6;8(1):1326. doi: 10.1038/s41467-017-01343-4.

8.

Dense and accurate whole-chromosome haplotyping of individual genomes.

Porubsky D, Garg S, Sanders AD, Korbel JO, Guryev V, Lansdorp PM, Marschall T.

Nat Commun. 2017 Nov 3;8(1):1293. doi: 10.1038/s41467-017-01389-4.

9.

[First Insights into Scope of Practice and Salary of Physician Assistants, A New Healthcare Profession, in Germany].

Marschall T, Hoffmann M.

Gesundheitswesen. 2019 Jan;81(1):9-16. doi: 10.1055/s-0043-102182. Epub 2017 May 29. German.

PMID:
28561201
10.

PWHATSHAP: efficient haplotyping for future generation sequencing.

Bracciali A, Aldinucci M, Patterson M, Marschall T, Pisanti N, Merelli I, Torquati M.

BMC Bioinformatics. 2016 Sep 22;17(Suppl 11):342. doi: 10.1186/s12859-016-1170-y.

11.

Tracing cytotoxic effects of small organic Se species in human liver cells back to total cellular Se and Se metabolites.

Marschall TA, Kroepfl N, Jensen KB, Bornhorst J, Meermann B, Kuehnelt D, Schwerdtle T.

Metallomics. 2017 Mar 22;9(3):268-277. doi: 10.1039/c6mt00300a.

PMID:
28184394
12.

Genotyping inversions and tandem duplications.

Ebler J, Schönhuth A, Marschall T.

Bioinformatics. 2017 Dec 15;33(24):4015-4023. doi: 10.1093/bioinformatics/btx020.

PMID:
28169394
13.

A high-quality human reference panel reveals the complexity and distribution of genomic structural variants.

Hehir-Kwa JY, Marschall T, Kloosterman WP, Francioli LC, Baaijens JA, Dijkstra LJ, Abdellaoui A, Koval V, Thung DT, Wardenaar R, Renkens I, Coe BP, Deelen P, de Ligt J, Lameijer EW, van Dijk F, Hormozdiari F; Genome of the Netherlands Consortium, Uitterlinden AG, van Duijn CM, Eichler EE, de Bakker PI, Swertz MA, Wijmenga C, van Ommen GB, Slagboom PE, Boomsma DI, Schönhuth A, Ye K, Guryev V.

Nat Commun. 2016 Oct 6;7:12989. doi: 10.1038/ncomms12989.

14.

Detecting horizontal gene transfer by mapping sequencing reads across species boundaries.

Trappe K, Marschall T, Renard BY.

Bioinformatics. 2016 Sep 1;32(17):i595-i604. doi: 10.1093/bioinformatics/btw423.

PMID:
27587679
15.

Differing cytotoxicity and bioavailability of selenite, methylselenocysteine, selenomethionine, selenosugar 1 and trimethylselenonium ion and their underlying metabolic transformations in human cells.

Marschall TA, Bornhorst J, Kuehnelt D, Schwerdtle T.

Mol Nutr Food Res. 2016 Dec;60(12):2622-2632. doi: 10.1002/mnfr.201600422. Epub 2016 Sep 12.

PMID:
27466966
16.

Read-based phasing of related individuals.

Garg S, Martin M, Marschall T.

Bioinformatics. 2016 Jun 15;32(12):i234-i242. doi: 10.1093/bioinformatics/btw276.

17.

Repeat- and error-aware comparison of deletions.

Wittler R, Marschall T, Schönhuth A, Mäkinen V.

Bioinformatics. 2015 Sep 15;31(18):2947-54. doi: 10.1093/bioinformatics/btv304. Epub 2015 May 15.

PMID:
25979471
18.

SV-AUTOPILOT: optimized, automated construction of structural variation discovery and benchmarking pipelines.

Leung WY, Marschall T, Paudel Y, Falquet L, Mei H, Schönhuth A, Maoz Moss TY.

BMC Genomics. 2015 Mar 25;16:238. doi: 10.1186/s12864-015-1376-9.

19.

Characteristics of de novo structural changes in the human genome.

Kloosterman WP, Francioli LC, Hormozdiari F, Marschall T, Hehir-Kwa JY, Abdellaoui A, Lameijer EW, Moed MH, Koval V, Renkens I, van Roosmalen MJ, Arp P, Karssen LC, Coe BP, Handsaker RE, Suchiman ED, Cuppen E, Thung DT, McVey M, Wendl MC; Genome of Netherlands Consortium, Uitterlinden A, van Duijn CM, Swertz MA, Wijmenga C, van Ommen GB, Slagboom PE, Boomsma DI, Schönhuth A, Eichler EE, de Bakker PI, Ye K, Guryev V.

Genome Res. 2015 Jun;25(6):792-801. doi: 10.1101/gr.185041.114. Epub 2015 Apr 16.

20.

WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads.

Patterson M, Marschall T, Pisanti N, van Iersel L, Stougie L, Klau GW, Schönhuth A.

J Comput Biol. 2015 Jun;22(6):498-509. doi: 10.1089/cmb.2014.0157. Epub 2015 Feb 6.

21.

Viral quasispecies assembly via maximal clique enumeration.

Töpfer A, Marschall T, Bull RA, Luciani F, Schönhuth A, Beerenwinkel N.

PLoS Comput Biol. 2014 Mar 27;10(3):e1003515. doi: 10.1371/journal.pcbi.1003515. eCollection 2014 Mar.

22.

Mapping proteins in the presence of paralogs using units of coevolution.

El-Kebir M, Marschall T, Wohlers I, Patterson M, Heringa J, Schönhuth A, Klau GW.

BMC Bioinformatics. 2013;14 Suppl 15:S18. doi: 10.1186/1471-2105-14-S15-S18. Epub 2013 Oct 15.

23.

Arsenolipids show different profiles in muscle tissues of four commercial fish species.

Amayo KO, Raab A, Krupp EM, Marschall T, Horsfall M Jr, Feldmann J.

J Trace Elem Med Biol. 2014 Apr;28(2):131-7. doi: 10.1016/j.jtemb.2013.11.004. Epub 2013 Nov 23.

PMID:
24332310
24.

MATE-CLEVER: Mendelian-inheritance-aware discovery and genotyping of midsize and long indels.

Marschall T, Hajirasouliha I, Schönhuth A.

Bioinformatics. 2013 Dec 15;29(24):3143-50. doi: 10.1093/bioinformatics/btt556. Epub 2013 Sep 25.

25.

Discovering motifs that induce sequencing errors.

Allhoff M, Schönhuth A, Martin M, Costa IG, Rahmann S, Marschall T.

BMC Bioinformatics. 2013;14 Suppl 5:S1. doi: 10.1186/1471-2105-14-S5-S1. Epub 2013 Apr 10.

26.

Complex formation with nucleic acids and aptamers alters the antigenic properties of platelet factor 4.

Jaax ME, Krauel K, Marschall T, Brandt S, Gansler J, Fürll B, Appel B, Fischer S, Block S, Helm CA, Müller S, Preissner KT, Greinacher A.

Blood. 2013 Jul 11;122(2):272-81. doi: 10.1182/blood-2013-01-478966. Epub 2013 May 14.

27.

Molecular mechanisms of Mn induced neurotoxicity: RONS generation, genotoxicity, and DNA-damage response.

Bornhorst J, Meyer S, Weber T, Böker C, Marschall T, Mangerich A, Beneke S, Bürkle A, Schwerdtle T.

Mol Nutr Food Res. 2013 Jul;57(7):1255-69. doi: 10.1002/mnfr.201200758. Epub 2013 Mar 14.

PMID:
23495240
28.

Identifying transcriptional miRNA biomarkers by integrating high-throughput sequencing and real-time PCR data.

Rahmann S, Martin M, Schulte JH, Köster J, Marschall T, Schramm A.

Methods. 2013 Jan;59(1):154-63. doi: 10.1016/j.ymeth.2012.10.005. Epub 2012 Oct 23.

PMID:
23098880
29.

CLEVER: clique-enumerating variant finder.

Marschall T, Costa IG, Canzar S, Bauer M, Klau GW, Schliep A, Schönhuth A.

Bioinformatics. 2012 Nov 15;28(22):2875-82. doi: 10.1093/bioinformatics/bts566. Epub 2012 Oct 11.

PMID:
23060616
30.

Exon-level expression analyses identify MYCN and NTRK1 as major determinants of alternative exon usage and robustly predict primary neuroblastoma outcome.

Schramm A, Schowe B, Fielitz K, Heilmann M, Martin M, Marschall T, Köster J, Vandesompele J, Vermeulen J, de Preter K, Koster J, Versteeg R, Noguera R, Speleman F, Rahmann S, Eggert A, Morik K, Schulte JH.

Br J Cancer. 2012 Oct 9;107(8):1409-17. doi: 10.1038/bjc.2012.391.

31.

Next-generation RNA sequencing reveals differential expression of MYCN target genes and suggests the mTOR pathway as a promising therapy target in MYCN-amplified neuroblastoma.

Schramm A, Köster J, Marschall T, Martin M, Schwermer M, Fielitz K, Büchel G, Barann M, Esser D, Rosenstiel P, Rahmann S, Eggert A, Schulte JH.

Int J Cancer. 2013 Feb 1;132(3):E106-15. doi: 10.1002/ijc.27787. Epub 2012 Sep 26.

32.

Probabilistic arithmetic automata and their applications.

Marschall T, Herms I, Kaltenbach HM, Rahmann S.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Nov-Dec;9(6):1737-50.

PMID:
22868683
33.

Kinetic characterization of hairpin ribozyme variants.

Appel B, Marschall T, Strahl A, Müller S.

Methods Mol Biol. 2012;848:41-59. doi: 10.1007/978-1-61779-545-9_4.

PMID:
22315062
34.

Deep sequencing reveals differential expression of microRNAs in favorable versus unfavorable neuroblastoma.

Schulte JH, Marschall T, Martin M, Rosenstiel P, Mestdagh P, Schlierf S, Thor T, Vandesompele J, Eggert A, Schreiber S, Rahmann S, Schramm A.

Nucleic Acids Res. 2010 Sep;38(17):5919-28. doi: 10.1093/nar/gkq342. Epub 2010 May 13.

35.

Efficient exact motif discovery.

Marschall T, Rahmann S.

Bioinformatics. 2009 Jun 15;25(12):i356-64. doi: 10.1093/bioinformatics/btp188.

36.

[Medical care of patients with chronic hepatitis B].

Marschall T, Prüfer-Krämer L, Krämer A.

MMW Fortschr Med. 2008 Sep 18;150 Suppl 3:105-11. German. No abstract available.

PMID:
19025208
37.

High impact of migration on the prevalence of chronic hepatitis B in the Netherlands.

Marschall T, Kretzschmar M, Mangen MJ, Schalm S.

Eur J Gastroenterol Hepatol. 2008 Dec;20(12):1214-25. doi: 10.1097/MEG.0b013e32830e289e.

PMID:
18946359
38.

[Does migration from high and intermediate endemic regions increase the prevalence of hepatitis B infection in Germany?].

Marschall T, Krämer A, Prüfer-Krämer L, Mikolajczyk R, Kretzschmar M.

Dtsch Med Wochenschr. 2005 Dec 2;130(48):2753-8. German.

PMID:
16307403

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