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Items: 18


PC-TraFF: identification of potentially collaborating transcription factors using pointwise mutual information.

Meckbach C, Tacke R, Hua X, Waack S, Wingender E, Gültas M.

BMC Bioinformatics. 2015 Dec 1;16:400. doi: 10.1186/s12859-015-0827-2.


Combining features in a graphical model to predict protein binding sites.

Wierschin T, Wang K, Welter M, Waack S, Stanke M.

Proteins. 2015 May;83(5):844-52. doi: 10.1002/prot.24775. Epub 2015 Mar 14.


CRF-based models of protein surfaces improve protein-protein interaction site predictions.

Dong Z, Wang K, Dang TK, Gültas M, Welter M, Wierschin T, Stanke M, Waack S.

BMC Bioinformatics. 2014 Aug 13;15:277. doi: 10.1186/1471-2105-15-277.


Quantum coupled mutation finder: predicting functionally or structurally important sites in proteins using quantum Jensen-Shannon divergence and CUDA programming.

Gültas M, Düzgün G, Herzog S, Jäger SJ, Meckbach C, Wingender E, Waack S.

BMC Bioinformatics. 2014 Apr 3;15:96. doi: 10.1186/1471-2105-15-96.


GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures.

Hammesfahr B, Odronitz F, Mühlhausen S, Waack S, Kollmar M.

BMC Bioinformatics. 2013 Mar 4;14:77. doi: 10.1186/1471-2105-14-77.


Coupled mutation finder: a new entropy-based method quantifying phylogenetic noise for the detection of compensatory mutations.

Gültas M, Haubrock M, Tüysüz N, Waack S.

BMC Bioinformatics. 2012 Sep 11;13:225. doi: 10.1186/1471-2105-13-225.


Cross-species protein sequence and gene structure prediction with fine-tuned Webscipio 2.0 and Scipio.

Hatje K, Keller O, Hammesfahr B, Pillmann H, Waack S, Kollmar M.

BMC Res Notes. 2011 Jul 28;4:265. doi: 10.1186/1756-0500-4-265.


A novel hybrid gene prediction method employing protein multiple sequence alignments.

Keller O, Kollmar M, Stanke M, Waack S.

Bioinformatics. 2011 Mar 15;27(6):757-63. doi: 10.1093/bioinformatics/btr010. Epub 2011 Jan 6.


WebScipio: an online tool for the determination of gene structures using protein sequences.

Odronitz F, Pillmann H, Keller O, Waack S, Kollmar M.

BMC Genomics. 2008 Sep 18;9:422. doi: 10.1186/1471-2164-9-422.


Scipio: using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species.

Keller O, Odronitz F, Stanke M, Kollmar M, Waack S.

BMC Bioinformatics. 2008 Jun 13;9:278. doi: 10.1186/1471-2105-9-278.


AUGUSTUS: ab initio prediction of alternative transcripts.

Stanke M, Keller O, Gunduz I, Hayes A, Waack S, Morgenstern B.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W435-9.


P-value based visualization of codon usage data.

Meinicke P, Brodag T, Fricke WF, Waack S.

Algorithms Mol Biol. 2006 Jun 29;1(1):10.


Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models.

Waack S, Keller O, Asper R, Brodag T, Damm C, Fricke WF, Surovcik K, Meinicke P, Merkl R.

BMC Bioinformatics. 2006 Mar 16;7:142.


Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources.

Stanke M, Schöffmann O, Morgenstern B, Waack S.

BMC Bioinformatics. 2006 Feb 9;7:62.


AUGUSTUS: a web server for gene finding in eukaryotes.

Stanke M, Steinkamp R, Waack S, Morgenstern B.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W309-12.


Gene prediction with a hidden Markov model and a new intron submodel.

Stanke M, Waack S.

Bioinformatics. 2003 Oct;19 Suppl 2:ii215-25.


Lowering extracellular Na+ concentration releases autocrine growth factors from renal epithelial cells.

Walsh-Reitz MM, Gluck SL, Waack S, Toback FG.

Proc Natl Acad Sci U S A. 1986 Jul;83(13):4764-8.


Extracellular potassium modifies the structure of kidney epithelial cells in culture.

Waack S, Walsh-Reitz MM, Toback FG.

Am J Physiol. 1985 Jul;249(1 Pt 1):C105-10.

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