DNA visual and analytic data mining. - Patrick Hoffman; Georges G. Grinstein; Kenneth A. Marx; Ivo Grosse; Eugene Stanley (IEEE Visualization, 1997)

Applications of Recursive Segmentation to the Analysis of DNA Sequences. - Wentian Li; Pedro Bernaola-Galván; Fatameh Haghighi; Ivo Grosse (Comput. Chem., 2002)

Gene selection criterion for discriminant microarray data analysis based on extreme value distributions. - Wentian Li; Ivo Grosse (RECOMB, 2003)

Comments on "linguistic features in eukaryotic genomes". - Wentian Li; Ivo Grosse (Complex., 2004)

Extreme Value Distribution Based Gene Selection Criteria for Discriminant Microarray Data Analysis Using Logistic Regression. - Wentian Li; Fengzhu Sun; Ivo Grosse (J. Comput. Biol., 2004)

Identification of transcription factor binding sites with variable-order Bayesian networks. - Irad E. Ben-Gal; Ayala Shani; André Gohr; Jan Grau; S. Arviv; Armin Shmilovici; Stefan Posch; Ivo Grosse (Bioinform., 2005)

CR-EST: a resource for crop ESTs. - Christian Künne; Matthias Lange 001; T. Funke; H. Miehe; Thomas Thiel; Ivo Grosse; Uwe Scholz (Nucleic Acids Res., 2005)

Data Structures for Genome Annotation, Alternative Splicing, and Validation. - Sven Mielordt; Ivo Grosse; Jürgen Kleffe (DILS, 2006)

Meta-All: a system for managing metabolic pathway information. - Stephan Weise; Ivo Grosse; Christian Klukas; Dirk Koschützki; Uwe Scholz; Falk Schreiber; Björn H. Junker (BMC Bioinform., 2006)

VOMBAT: prediction of transcription factor binding sites using variable order Bayesian trees. - Jan Grau; Irad E. Ben-Gal; Stefan Posch; Ivo Grosse (Nucleic Acids Res., 2006)

Supervised Posteriors for DNA-motif Classification. - Jan Grau; Jens Keilwagen; Alexander E. Kel; Ivo Grosse; Stefan Posch (German Conference on Bioinformatics, 2007)

On the relevance of model orders to discriminative learning of Markov models. - Jan Grau; Jens Keilwagen; Ivo Grosse; Stefan Posch (LWA, 2007)

Recognition of splice sites using maximum conditional likelihood. - Jens Keilwagen; Jan Grau; Stefan Posch; Ivo Grosse (LWA, 2007)

Recognition of cis-Regulatory Elements with Vombat. - Stefan Posch; Jan Grau; André Gohr; Irad E. Ben-Gal; Alexander E. Kel; Ivo Grosse (J. Bioinform. Comput. Biol., 2007)

Using Data Warehouse Technology in Crop Plant Bioinformatics. - Christian Künne; Ivo Grosse; Inge Matthies; Uwe Scholz; Tatjana Sretenovic-Rajicic; Nils Stein; Andreas Stephanik; Burkhard Steuernagel; Stephan Weise (J. Integr. Bioinform., 2007)

Utilizing Promoter Pair Orientations for HMM-based Analysis of ChIP-chip Data. - Michael Seifert; Jens Keilwagen; Marc Strickert; Ivo Grosse (German Conference on Bioinformatics, 2008)

Array-based Genome Comparison of Arabidopsis Ecotypes using Hidden Markov Models. - Michael Seifert; Ali Banaei; Jens Keilwagen; Michael Florian Mette; Andreas Houben; François Roudier; Vincent Colot; Ivo Grosse; Marc Strickert (BIOSIGNALS, 2009)

Utilizing gene pair orientations for HMM-based analysis of promoter array ChIP-chip data. - Michael Seifert; Jens Keilwagen; Marc Strickert; Ivo Grosse (Bioinform., 2009)

Predicting miRNA targets utilizing an Extended Profile HMM. - Jan Grau; Daniel Arend; Ivo Grosse; Artemis G. Hatzigeorgiou; Jens Keilwagen; Manolis Maragkakis; Claus Weinholdt; Stefan Posch (GCB, 2010)

Apples and oranges: avoiding different priors in Bayesian DNA sequence analysis. - Jens Keilwagen; Jan Grau; Stefan Posch; Ivo Grosse (BMC Bioinform., 2010)

Unifying generative and discriminative learning principles. - Jens Keilwagen; Jan Grau; Stefan Posch; Marc Strickert; Ivo Grosse (BMC Bioinform., 2010)

miRGen 2.0: a database of microRNA genomic information and regulation. - Panagiotis Alexiou; Thanasis Vergoulis; Martin Gleditzsch; George Prekas; Theodore Dalamagas 001; Molly Megraw; Ivo Grosse; Timos K. Sellis; Artemis G. Hatzigeorgiou (Nucleic Acids Res., 2010)

Exploiting prior knowledge and gene distances in the analysis of tumor expression profiles with extended Hidden Markov Models. - Michael Seifert; Marc Strickert; Alexander Schliep; Ivo Grosse (Bioinform., 2011)

De-Novo Discovery of Differentially Abundant Transcription Factor Binding Sites Including Their Positional Preference. - Jens Keilwagen; Jan Grau; Ivan A. Paponov; Stefan Posch; Marc Strickert; Ivo Grosse (PLoS Comput. Biol., 2011)

Functional microRNA targets in protein coding sequences. - Martin Reczko; Manolis Maragkakis; Panagiotis Alexiou; Ivo Grosse; Artemis G. Hatzigeorgiou (Bioinform., 2012)

Jstacs: A Java Framework for Statistical Analysis and Classification of Biological Sequences. - Jan Grau; Jens Keilwagen; André Gohr; Berit Haldemann; Stefan Posch; Ivo Grosse (J. Mach. Learn. Res., 2012)

Parsimonious Higher-Order Hidden Markov Models for Improved Array-CGH Analysis with Applications to Arabidopsis thaliana. - Michael Seifert; André Gohr; Marc Strickert; Ivo Grosse (PLoS Comput. Biol., 2012)

Extended Sunflower Hidden Markov Models for the recognition of homotypic cis-regulatory modules\

Inhomogeneous Parsimonious Markov Models. - Ralf Eggeling; André Gohr; Pierre-Yves Bourguignon; Edgar Wingender; Ivo Grosse (ECML/PKDD (1), 2013)

Bayesian Conditional Gaussian Network Classifiers with Applications to Mass Spectra Classification. - Victor Bellon; Jesús Cerquides; Ivo Grosse (CoRR, 2013)

Dispom: a Discriminative de-novo Motif Discovery Tool Based on the Jstacs Library. - Jan Grau; Jens Keilwagen; André Gohr; Ivan A. Paponov; Stefan Posch; Michael Seifert; Marc Strickert; Ivo Grosse (J. Bioinform. Comput. Biol., 2013)

Robust learning of inhomogeneous PMMs. - Ralf Eggeling; Teemu Roos; Petri Myllymäki; Ivo Grosse (AISTATS, 2014)

On Optimal Read Trimming in Next Generation Sequencing and Its Complexity. - Ivo Hedtke; Ioana M. Lemnian; Matthias Müller-Hannemann; Ivo Grosse (AlCoB, 2014)

Explorative Analysis of Heterogeneous, Unstructured, and Uncertain Data - A Computer Science Perspective on Biodiversity Research. - Clemens Beckstein; Sebastian Böcker; Martin Bogdan; Helge Bruelheide; H. Martin Bücker; Joachim Denzler; Peter Dittrich; Ivo Grosse; Alexander Hinneburg; Birgitta König-Ries; Felicitas Löffler; Manja Marz; et al. (DATA, 2014)

A general approach for discriminative de novo motif discovery from high-throughput data. - Jan Grau; Stefan Posch; Ivo Grosse; Jens Keilwagen (GCB, 2014)

Explaining gene responses by linear modeling. - Yvonne Poeschl; Ivo Grosse; Andreas Gogol-Döring (GCB, 2014)

DRUMS: Disk Repository with Update Management and Select option for high throughput sequencing data. - Martin Nettling; Nils Thieme; Andreas Both 001; Ivo Grosse (BMC Bioinform., 2014)

Exact algorithms and heuristics for the Quadratic Traveling Salesman Problem with an application in bioinformatics. - Anja Fischer; Frank Fischer 002; Gerold Jäger; Jens Keilwagen; Paul Molitor; Ivo Grosse (Discret. Appl. Math., 2014)

Dealing with small data: On the generalization of context trees. - Ralf Eggeling; Mikko Koivisto; Ivo Grosse (ICML, 2015)

PRROC: computing and visualizing precision-recall and receiver operating characteristic curves in R. - Jan Grau; Ivo Grosse; Jens Keilwagen (Bioinform., 2015)

Inferring intra-motif dependencies of DNA binding sites from ChIP-seq data. - Ralf Eggeling; Teemu Roos; Petri Myllymäki; Ivo Grosse (BMC Bioinform., 2015)

BiNChE: A web tool and library for chemical enrichment analysis based on the ChEBI ontology. - Pablo A. Moreno; Stephan Beisken; Bhavana Harsha; Venkatesh Muthukrishnan; Ilinca Tudose; Adriano Dekker; Stefanie Dornfeldt; Franziska Taruttis; Ivo Grosse; Janna Hastings; Steffen Neumann; Christoph Steinbeck (BMC Bioinform., 2015)

DiffLogo: a comparative visualization of sequence motifs. - Martin Nettling; Hendrik Treutler; Jan Grau; Jens Keilwagen; Stefan Posch; Ivo Grosse (BMC Bioinform., 2015)

Computational Recognition of RNA Splice Sites by Exact Algorithms for the Quadratic Traveling Salesman Problem. - Anja Fischer; Frank Fischer 002; Gerold Jäger; Jens Keilwagen; Paul Molitor; Ivo Grosse (Comput., 2015)

Bioinformatics challenges of next generation sequencing. - Ivo Grosse; Katrin Hoffmann (it Inf. Technol., 2016)

InMoDe: tools for learning and visualizing intra-motif dependencies of DNA binding sites. - Ralf Eggeling; Ivo Grosse; Jan Grau (Bioinform., 2017)

Unrealistic phylogenetic trees may improve phylogenetic footprinting. - Martin Nettling; Hendrik Treutler; Jesús Cerquides; Ivo Grosse (Bioinform., 2017)

Combining phylogenetic footprinting with motif models incorporating intra-motif dependencies. - Martin Nettling; Hendrik Treutler; Jesús Cerquides; Ivo Grosse (BMC Bioinform., 2017)

myTAI: evolutionary transcriptomics with R. - Hajk-Georg Drost; Alexander Gabel; Jialin Liu; Marcel Quint; Ivo Grosse (Bioinform., 2018)

Optimal Block-Based Trimming for Next Generation Sequencing. - Ivo Hedtke; Ioana M. Lemnian; Ivo Grosse; Matthias Müller-Hannemann (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

Prediction of regulatory targets of alternative isoforms of the epidermal growth factor receptor in a glioblastoma cell line. - Claus Weinholdt; Henri Wichmann; Johanna Kotrba; David H. Ardell; Matthias Kappler; Alexander W. Eckert; Dirk Vordermark; Ivo Grosse (BMC Bioinform., 2019)

Algorithms for learning parsimonious context trees. - Ralf Eggeling; Ivo Grosse; Mikko Koivisto (Mach. Learn., 2019)

tSFM 1.0: tRNA Structure-Function Mapper. - Travis J. Lawrence; Fatemeh Hadi-Nezhad; Ivo Grosse; David H. Ardell (Bioinform., 2021)