Oqtans: a Galaxy-integrated workflow for quantitative transcriptome analysis from NGS Data. - Sebastian J. Schultheiß; Géraldine Jean; Jonas Behr; Regina Bohnert; Philipp Drewe; Nico Görnitz; André Kahles; Pramod Mudrakarta; Vipin T. Sreedharan; Georg Zeller; Gunnar Rätsch (BMC Bioinform., 2011)

MITIE: Simultaneous RNA-Seq-based transcript identification and quantification in multiple samples. - Jonas Behr; André Kahles; Yi Zhong; Vipin T. Sreedharan; Philipp Drewe; Gunnar Rätsch (Bioinform., 2013)

Oqtans: the RNA-seq workbench in the cloud for complete and reproducible quantitative transcriptome analysis. - Vipin T. Sreedharan; Sebastian J. Schultheiß; Géraldine Jean; André Kahles; Regina Bohnert; Philipp Drewe; Pramod Mudrakarta; Nico Görnitz; Georg Zeller; Gunnar Rätsch (Bioinform., 2014)

Oqtans: a multifunctional workbench for RNA-seq data analysis. - Vipin T. Sreedharan; Sebastian J. Schultheiß; Géraldine Jean; André Kahles; Regina Bohnert; Philipp Drewe; Pramod Mudrakarta; Nico Görnitz; Georg Zeller; Gunnar Rätsch (BMC Bioinform., 2014)

Framework for Multi-task Multiple Kernel Learning and Applications in Genome Analysis. - Christian Widmer; Marius Kloft; Vipin T. Sreedharan; Gunnar Rätsch (CoRR, 2015)

RiboDiff: detecting changes of mRNA translation efficiency from ribosome footprints. - Yi Zhong; Theofanis Karaletsos; Philipp Drewe; Vipin T. Sreedharan; David Kuo; Kamini Singh; Hans-Guido Wendel; Gunnar Rätsch (Bioinform., 2017)