Bayesian Prediction of DNA Binding Sites Using Parsimonious Markov Models. - Ralf Eggeling (Informatiktage, 2011)

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)

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

Learning inhomogeneous parsimonious Markov models with application to DNA sequence analysis - Ralf Eggeling (2014)

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

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

Pruning Rules for Learning Parsimonious Context Trees. - Ralf Eggeling; Mikko Koivisto (UAI, 2016)

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

Intersection-Validation: A Method for Evaluating Structure Learning without Ground Truth. - Jussi Viinikka; Ralf Eggeling; Mikko Koivisto (AISTATS, 2018)

Finding Optimal Bayesian Networks with Local Structure. - Topi Talvitie; Ralf Eggeling; Mikko Koivisto (PGM, 2018)

On Structure Priors for Learning Bayesian Networks. - Ralf Eggeling; Jussi Viinikka; Aleksis Vuoksenmaa; Mikko Koivisto (AISTATS, 2019)

Weighted elastic net for unsupervised domain adaptation with application to age prediction from DNA methylation data. - Lisa Handl; Adrin Jalali; Michael Scherer; Ralf Eggeling; Nico Pfeifer (Bioinform., 2019)

Learning Bayesian networks with local structure, mixed variables, and exact algorithms. - Topi Talvitie; Ralf Eggeling; Mikko Koivisto (Int. J. Approx. Reason., 2019)

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

Transfer Learning for T-Cell Response Prediction. - Josua Stadelmaier; Brandon Malone; Ralf Eggeling (CoRR, 2024)