Exact Score Distribution Computation for Similarity Searches in Ontologies. - Marcel H. Schulz; Sebastian Köhler 001; Sebastian Bauer 002; Martin Vingron; Peter N. Robinson (WABI, 2009)

Improving ontologies by automatic reasoning and evaluation of logical definitions. - Sebastian Köhler 001; Sebastian Bauer 002; Chris Mungall; Gabriele Carletti; Cynthia L. Smith; Paul N. Schofield; Georgios V. Gkoutos; Peter N. Robinson (BMC Bioinform., 2011)

Exact score distribution computation for ontological similarity searches. - Marcel H. Schulz; Sebastian Köhler 001; Sebastian Bauer 002; Peter N. Robinson (BMC Bioinform., 2011)

Bayesian ontology querying for accurate and noise-tolerant semantic searches. - Sebastian Bauer 002; Sebastian Köhler 001; Marcel H. Schulz; Peter N. Robinson (Bioinform., 2012)

PhenoDigm: analyzing curated annotations to associate animal models with human diseases. - Damian Smedley; Anika Oellrich; Sebastian Köhler 001; Barbara J. Ruef; Monte Westerfield; Peter N. Robinson; Suzanna Lewis; Christopher J. Mungall (Database J. Biol. Databases Curation, 2013)

Phenotype informatics (Network approaches towards understanding the diseasome) (Phänotyp-Informatik) (Netzwerk-Ansätze zur Analyse genetisch beeinflusster Erkrankungen) - Sebastian Köhler 001 (2013)

Walking the interactome for candidate prioritization in exome sequencing studies of Mendelian diseases. - Damian Smedley; Sebastian Köhler 001; Johanna Christina Czeschik; Joanna S. Amberger; Carol A. Bocchini; Ada Hamosh; Julian Veldboer; Tomasz Zemojtel; Peter N. Robinson (Bioinform., 2014)

The influence of disease categories on gene candidate predictions from model organism phenotypes. - Anika Oellrich; Sebastian Köhler 001; Nicole L. Washington; Chris Mungall; Suzanna Lewis; Melissa A. Haendel; Peter N. Robinson; Damian Smedley (J. Biomed. Semant., 2014)

The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data. - Sebastian Köhler 001; Sandra C. Doelken; Christopher J. Mungall; Sebastian Bauer 002; Helen V. Firth; Isabelle Bailleul-Forestier; Graeme C. M. Black; Danielle L. Brown; Michael Brudno; Jennifer Campbell; David R. FitzPatrick; Janan T. Eppig; et al. (Nucleic Acids Res., 2014)

Prediction of Human Gene - Phenotype Associations by Exploiting the Hierarchical Structure of the Human Phenotype Ontology. - Giorgio Valentini; Sebastian Köhler 001; Matteo Ré; Marco Notaro; Peter N. Robinson (IWBBIO (1), 2015)

A Hierarchical Ensemble Method for DAG-Structured Taxonomies. - Peter N. Robinson; Marco Frasca 001; Sebastian Köhler 001; Marco Notaro; Matteo Re; Giorgio Valentini (MCS, 2015)

Automatic concept recognition using the Human Phenotype Ontology reference and test suite corpora. - Tudor Groza; Sebastian Köhler 001; Sandra C. Doelken; Nigel Collier; Anika Oellrich; Damian Smedley; Francisco M. Couto; Gareth Baynam; Andreas Zankl; Peter N. Robinson (Database J. Biol. Databases Curation, 2015)

Enhancing the Human Phenotype Ontology for Use by the Layperson. - Nicole A. Vasilevsky; Mark Engelstad; Erin Foster; Chris Mungall; Peter N. Robinson; Sebastian Köhler 001; Melissa A. Haendel (ICBO/BioCreative, 2016)

Aligning the Human Phenotype and Mammalian Phenotype Ontology using Dead Simple Ontology Design Patterns. - Nicole A. Vasilevsky; James P. Balhoff; Christopher J. Mungall; David Osumi-Sutherland; Sebastian Köhler 001; Susan M. Bello; Cynthia L. Smith; Peter N. Robinson; Melissa A. Haendel (ICBO, 2017)

The Human Phenotype Ontology in 2017. - Sebastian Köhler 001; Nicole A. Vasilevsky; Mark Engelstad; Erin Foster; Julie A. McMurry; Ségolène Aymé; Gareth Baynam; Susan M. Bello; Cornelius F. Boerkoel; Kym M. Boycott; Michael Brudno; Orion J. Buske; et al. (Nucleic Acids Res., 2017)

The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species. - Christopher J. Mungall; Julie A. McMurry; Sebastian Köhler 001; James P. Balhoff; Charles D. Borromeo; Matthew H. Brush; Seth Carbon; Tom Conlin; Nathan A. Dunn; Mark Engelstad; Erin Foster; Jean-Philippe F. Gourdine; et al. (Nucleic Acids Res., 2017)

Improved ontology-based similarity calculations using a study-wise annotation model. - Sebastian Köhler 001 (Database J. Biol. Databases Curation, 2018)

An ontology-based method for assessing batch effect adjustment approaches in heterogeneous datasets. - Florian Schmidt 003; Markus List; Engin Cukuroglu; Sebastian Köhler 001; Jonathan Göke; Marcel H. Schulz (Bioinform., 2018)

Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery. - Jean-Philippe F. Gourdine; Matthew H. Brush; Nicole A. Vasilevsky; Kent A. Shefchek; Sebastian Köhler 001; Nicolas Matentzoglu; Monica C. Munoz-Torres; Julie A. McMurry; Xingmin Aaron Zhang; Peter N. Robinson; Melissa A. Haendel (Database J. Biol. Databases Curation, 2019)

Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources. - Sebastian Köhler 001; Leigh Carmody; Nicole A. Vasilevsky; Julius O. B. Jacobsen; Daniel Danis; Jean-Philippe F. Gourdine; Michael A. Gargano; Nomi L. Harris; Nicolas Matentzoglu; Julie A. McMurry; David Osumi-Sutherland; Valentina Cipriani; et al. (Nucleic Acids Res., 2019)

RegulationSpotter: annotation and interpretation of extratranscriptic DNA variants. - Jana Marie Schwarz; Daniela Hombach; Sebastian Köhler 001; David N. Cooper; Markus Schuelke; Dominik Seelow (Nucleic Acids Res., 2019)

Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery. - Xingmin Aaron Zhang; Amy Yates; Nicole A. Vasilevsky; Jean-Philippe F. Gourdine; Tiffany J. Callahan; Leigh C. Carmody; Daniel Danis; Marcin P. Joachimiak; Vida Ravanmehr; Emily R. Pfaff; James Champion; Kimberly Robasky; et al. (npj Digit. Medicine, 2019)

The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species. - Kent A. Shefchek; Nomi L. Harris; Michael A. Gargano; Nicolas Matentzoglu; Deepak R. Unni; Matthew H. Brush; Dan Keith; Tom Conlin; Nicole A. Vasilevsky; Xingmin Aaron Zhang; James P. Balhoff; Larry Babb; et al. (Nucleic Acids Res., 2020)

The Human Phenotype Ontology in 2021. - Sebastian Köhler 001; Michael A. Gargano; Nicolas Matentzoglu; Leigh Carmody; David Lewis-Smith; Nicole A. Vasilevsky; Daniel Danis; Ganna Balagura; Gareth Baynam; Amy M. Brower; Tiffany J. Callahan; Christopher G. Chute; et al. (Nucleic Acids Res., 2021)

A Simple Standard for Sharing Ontological Mappings (SSSOM). - Nicolas Matentzoglu; James P. Balhoff; Susan M. Bello; Chris Bizon; Matthew H. Brush; Tiffany J. Callahan; Christopher G. Chute; William D. Duncan; Chris T. A. Evelo; Davera Gabriel; John B. Graybeal; Alasdair J. G. Gray; et al. (Database J. Biol. Databases Curation, 2022)