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Robust inference of groups in gene expression time-courses using mixtures of HMMs.
Schliep A, Steinhoff C, Schönhuth A. Schliep A, et al. Among authors: schonhuth a. Bioinformatics. 2004 Aug 4;20 Suppl 1:i283-9. doi: 10.1093/bioinformatics/bth937. Bioinformatics. 2004. PMID: 15262810
Analyzing gene expression time-courses.
Schliep A, Costa IG, Steinhoff C, Schönhuth A. Schliep A, et al. Among authors: schonhuth a. IEEE/ACM Trans Comput Biol Bioinform. 2005 Jul-Sep;2(3):179-93. doi: 10.1109/TCBB.2005.31. IEEE/ACM Trans Comput Biol Bioinform. 2005. PMID: 17044182
Constrained mixture estimation for analysis and robust classification of clinical time series.
Costa IG, Schönhuth A, Hafemeister C, Schliep A. Costa IG, et al. Among authors: schonhuth a. Bioinformatics. 2009 Jun 15;25(12):i6-14. doi: 10.1093/bioinformatics/btp222. Bioinformatics. 2009. PMID: 19478017 Free PMC article.
Genotyping inversions and tandem duplications.
Ebler J, Schönhuth A, Marschall T. Ebler J, et al. Among authors: schonhuth a. Bioinformatics. 2017 Dec 15;33(24):4015-4023. doi: 10.1093/bioinformatics/btx020. Bioinformatics. 2017. PMID: 28169394
Repeat- and error-aware comparison of deletions.
Wittler R, Marschall T, Schönhuth A, Mäkinen V. Wittler R, et al. Among authors: schonhuth a. Bioinformatics. 2015 Sep 15;31(18):2947-54. doi: 10.1093/bioinformatics/btv304. Epub 2015 May 15. Bioinformatics. 2015. PMID: 25979471
CLEVER: clique-enumerating variant finder.
Marschall T, Costa IG, Canzar S, Bauer M, Klau GW, Schliep A, Schönhuth A. Marschall T, et al. Among authors: schonhuth a. Bioinformatics. 2012 Nov 15;28(22):2875-82. doi: 10.1093/bioinformatics/bts566. Epub 2012 Oct 11. Bioinformatics. 2012. PMID: 23060616
Mirroring co-evolving trees in the light of their topologies.
Hajirasouliha I, Schönhuth A, de Juan D, Valencia A, Sahinalp SC. Hajirasouliha I, et al. Among authors: schonhuth a. Bioinformatics. 2012 May 1;28(9):1202-8. doi: 10.1093/bioinformatics/bts109. Epub 2012 Mar 6. Bioinformatics. 2012. PMID: 22399677
Classifying short gene expression time-courses with Bayesian estimation of piecewise constant functions.
Hafemeister C, Costa IG, Schönhuth A, Schliep A. Hafemeister C, et al. Among authors: schonhuth a. Bioinformatics. 2011 Apr 1;27(7):946-52. doi: 10.1093/bioinformatics/btr037. Epub 2011 Jan 25. Bioinformatics. 2011. PMID: 21266444
A fractional programming approach to efficient DNA melting temperature calculation.
Leber M, Kaderali L, Schönhuth A, Schrader R. Leber M, et al. Among authors: schonhuth a. Bioinformatics. 2005 May 15;21(10):2375-82. doi: 10.1093/bioinformatics/bti379. Epub 2005 Mar 15. Bioinformatics. 2005. PMID: 15769839
The Graphical Query Language: a tool for analysis of gene expression time-courses.
Costa IG, Schönhuth A, Schliep A. Costa IG, et al. Among authors: schonhuth a. Bioinformatics. 2005 May 15;21(10):2544-5. doi: 10.1093/bioinformatics/bti311. Epub 2005 Feb 8. Bioinformatics. 2005. PMID: 15701683
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