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Paper on taxonomy-based transfer learning for Sequence classification of has been accepted for RECOMB 2010
A paper "Leveraging Sequence Classification by Taxonomy-based Multitask Learning" by Christian Widmer, Jose Leiva, Yasemin Altun, and Gunnar Rätsch has been accepted for RECOMB 2010
Paper on Genome-wide SNP variation analysis in rice published in PNAS.
A paper "Genome-wide SNP variation reveals relationships among landraces and modern varieties of rice" by Kenneth L. McNally, Kevin L. Childs, Regina Bohnert, Rebecca M. Davidson, Keyan Zhao, Victor J. Ulat, Georg Zeller, Richard M. Clark, Douglas R. Hoen, Thomas E. Bureau, Renee Stokowski, Dennis G. Ballinger, Kelly A. Frazer, David R. Cox, Badri Padhukasahasram, Carlos D. Bustamante, Detlef Weigel, David J. Mackill, Richard M. Bruskiewich, Gunnar Rätsch, C. Robin Buell, Hei Leung, and Jan E. Leach has been published in PNAS.
New release of the spliced-alignment tool QPALMA
QPalma is an alignment tool targeted to align spliced reads produced by Next Generation sequencing platforms such as Illumina Solexa or 454. We have released QPALMA version 0.9.9, which is considerably easier to install and use.
Paper on a novel Support Vector Machine-based Gene Finding System has been accepted for publication in Genome Research
A paper "mGene: Accurate SVM-Based Gene Finding with an Application to Nematode Genomes" by Gabriele Schweikert, Alexander Zien, Georg Zeller, Jonas Behr, Christoph Dieterich, Cheng Soon Ong, Petra Philips, Fabio De Bona, Lisa Hartmann, Anja Bohlen, Nina Krüger, Sören Sonnenburg, Gunnar Rätsch has been accepted for publication in Genome Research.
Web-based Gene finding system mGene.web available and published in Nucleic Acids Research
mGene.web is a web service for the genome-wide prediction of protein coding genes from eukaryotic DNA sequences. Currently it is the only web-based gene finding system for eukaryotic genomes that can be adapted to new genomes. It has been described in a paper "mGene.web: a web service for accurate computational gene finding" by Gabriele Schweikert, Jonas Behr, Alexander Zien, Georg Zeller, Cheng Soon Ong, Sören Sonnenburg, and Gunnar Rätsch that recently been published in Nucleic Acids Research.
Paper on Optimized Cutting Plane Algorithm accepted by Journal of Machine Learning Research
A paper "Optimized Cutting Plane Algorithm for Large-Scale Risk Minimization" by Vojtech Franc and Sören Sonnenburg was accepted for publication in Journal of Machine Learning Research.
The Scientists writes about QPALMA in the current issue
The scientist features an article "Benching Bases" which also writes about using QPALMA for mapping reads from RNA-Seq experiments.
Regina Bohnert was selected for an Anita Borg EMENA 2009 Scholarship
Regina Bohnert was selected for The Google Anita Borg Memorial Scholarship (Europe, the Middle East and North Africa).
Meeting of the Regional Student Group Germany in Stockholm at ISMB
Prior to the 5th ISCB Student Council Symposium and the ISMB 2009 conference in Stockholm, the Regional Student Group Germany, represented by Regina Bohnert and Sebastian J. Schultheiss, invite you to join us for dinner on June 26th, 2009.
Paper on KIRMES and Regulatory Modules Kernel accepted by Bioinformatics
The article "KIRMES: Kernel-based identification of regulatory modules in euchromatic sequences" has been accepted.
Results of the nGASP competition with mGene predictions were published in BMC Bioinformatics
The paper "nGASP - the nematode genome annotation assessment project" by Avril Coghlan, Tristan J Fiedler, Sheldon J McKay, Paul Flicek, Todd W Harris, Darin Blasiar, The nGASP Consortium and Lincoln D Stein has been published in BMC Bioinformatics.
Paper on Domain Adaptation accepted at NIPS'08
A paper "An empirical Analysis of Domain Adaptation Algorithms " by Gabriele Schweikert, Christian Widmer, Bernhard Schölkopf, and Gunnar Rätsch was accepted at NIPS 2008.
Sören Sonnenburg received the Best Student Paper Award at ISMB
Sören Sonnenburg's paper "POIMs: Positional Oligomer Importance Matrices - Understanding Support Vector Machine Based Signal Detectors" was selected for the Best Student Paper Award at this years ISMB conference in Toronto.
Tutorial on Support Vector Machines and Kernels for Computational Biology accepted for PLoS Computational Biology
A paper "Support Vector Machines and Kernels for Computational Biology" by Asa Ben-Hur, Cheng Soon Ong, Sören Sonnenburg and Bernhard Schölkopf, and Gunnar Rätsch Weigel has been accepted for publication in PLoS Computational Biology.
Paper on Arabidopsis genome tiling array resource published in Genome Biology
A paper "At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana" by Sascha Laubinger, Georg Zeller, Stefan Henz, Timo Sachsenberg, Christian Widmer, Naira Naouar, Marnik Vuylsteke, Bernhard Schölkopf, Gunnar Rätsch and Detlef Weigel has been published in Genome Biology.
