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Michael Sammeth
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Status:
Post-doc

Location:
Barcelona (Catalunya)

Research Interests:
Alignment, Multiple Alignments, Repeats, Tandem Repeats, Splicing, Alternative Splicing, Splice Graphs, Short Read Sequencing, New Sequencing Technologies, Next Generation Sequencing, Protein Domains, Protein Interaction Networks, Vizualization, Algorithms, Phylogeny, Metrics

Homepage:
http://www.sammeth.net

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Reconstruction of Alternative Splice Variants...

Added: Feb 23, 2009

Views: 1397

A General Definition and Nomenclature for...

Added: Aug 12, 2008

Views: 7602

 

 

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Publications in PubMed

1. Sammeth M, Foissac S, Guigó R. A general definition and nomenclature for alternative splicing events. PLoS computational biology 2008 4(8). DOI:10.1371/journal.pcbi.1000147.
2. Mellmann A, Weniger T, Berssenbrügge C, Rothgänger J, Sammeth M, Stoye J, Harmsen D. Based Upon Repeat Pattern (BURP): an algorithm to characterize the long-term evolution of Staphylococcus aureus populations based on spa polymorphisms. BMC microbiology 2007 7. DOI:10.1186/1471-2180-7-98.
3. Foissac S, Sammeth M. ASTALAVISTA: dynamic and flexible analysis of alternative splicing events in custom gene datasets. Nucleic acids research 2007 35. DOI:10.1093/nar/gkm311.
4. Sammeth M, Stoye J. Comparing tandem repeats with duplications and excisions of variable degree. IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM 3(4). DOI:10.1109/TCBB.2006.46.
5. Sammeth M, Heringa J. Global multiple-sequence alignment with repeats. Proteins 2006 64(1). DOI:10.1002/prot.20957.
6. Sammeth M, Griebel T, Tille F, Stoye J. Panta rhei (QAlign2): an open graphical environment for sequence analysis. Bioinformatics (Oxford, England) 2006 22(7). DOI:10.1093/bioinformatics/btl007.
7. Harmsen D, Dostal S, Roth A, Niemann S, Rothgänger J, Sammeth M, Albert J, Frosch M, Richter E. RIDOM: comprehensive and public sequence database for identification of Mycobacterium species. BMC infectious diseases 2003 3. DOI:10.1186/1471-2334-3-26.
8. Sammeth M, Morgenstern B, Stoye J. Divide-and-conquer multiple alignment with segment-based constraints. Bioinformatics (Oxford, England) 2003 19 Suppl 2. DOI:10.1186/1471-2334-3-26.
9. Sammeth M, Rothgänger J, Esser W, Albert J, Stoye J, Harmsen D. QAlign: quality-based multiple alignments with dynamic phylogenetic analysis. Bioinformatics (Oxford, England) 2003 19(12). DOI:10.1186/1471-2334-3-26.
10. Tilgner H, Nikolaou C, Althammer S, Sammeth M, Beato M, Valcárcel J, Guigó R. Nucleosome positioning as a determinant of exon recognition. Nature structuralmolecular biology 2009 16(9). DOI:10.1038/nsmb.1658.
11. Sammeth M. Complete alternative splicing events are bubbles in splicing graphs. Journal of computational biology : a journal of computational molecular cell biology 2009 16(8). DOI:10.1089/cmb.2009.0108.
12. Horner DS, Pavesi G, Castrignanò T, De Meo PD, Liuni S, Sammeth M, Picardi E, Pesole G. Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing. Briefings in bioinformatics 2009. DOI:10.1093/bib/bbp046.

 

Publications

Michael Sammeth, Gabriel Valiente, Roderic Guigó: Bubbles: Alternative Splicing Events of Arbitrary Dimension in Splicing Graphs. RECOMB 2008: 372-395

Michael Sammeth, Thomas Weniger, Dag Harmsen, Jens Stoye: Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI). WABI 2005: 276-290

 

History of Education and Employment

Biology
Bioinformatics
Computational Biology

 

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