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BibTeX records: Søren Brunak
@article{DBLP:journals/midm/MusePHB24, author = {Victorine P. Muse and Davide Placido and Amalie Dahl Haue and S{\o}ren Brunak}, title = {Seasonally adjusted laboratory reference intervals to improve the performance of machine learning models for classification of cardiovascular diseases}, journal = {{BMC} Medical Informatics Decis. Mak.}, volume = {24}, number = {1}, pages = {62}, year = {2024}, url = {https://doi.org/10.1186/s12911-024-02467-6}, doi = {10.1186/S12911-024-02467-6}, timestamp = {Wed, 13 Mar 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/midm/MusePHB24.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/fbinf/HjaltelinCJB23, author = {Jessica Xin Hjaltelin and Hannah Currant and Isabella Friis J{\o}rgensen and S{\o}ren Brunak}, title = {Visualising disease trajectories from population-wide data}, journal = {Frontiers Bioinform.}, volume = {3}, year = {2023}, url = {https://doi.org/10.3389/fbinf.2023.1112113}, doi = {10.3389/FBINF.2023.1112113}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/fbinf/HjaltelinCJB23.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/patterns/MuseABB23, author = {Victorine P. Muse and Alejandro Aguayo{-}Orozco and Sedrah B. Balaganeshan and S{\o}ren Brunak}, title = {Population-wide analysis of hospital laboratory tests to assess seasonal variation and temporal reference interval modification}, journal = {Patterns}, volume = {4}, number = {8}, pages = {100778}, year = {2023}, url = {https://doi.org/10.1016/j.patter.2023.100778}, doi = {10.1016/J.PATTER.2023.100778}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/patterns/MuseABB23.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/LundgaardBSWVCR23, author = {Agnete T. Lundgaard and Fr{\'{e}}d{\'{e}}ric Burdet and Troels Siggaard and David Westergaard and Danai Vagiaki and Lisa Cantwell and Timo R{\"{o}}der and Dorte Vistisen and Thomas Spars{\o} and Giuseppe N. Giordano and Mark Ibberson and Karina Banasik and S{\o}ren Brunak}, title = {{BALDR:} {A} Web-based platform for informed comparison and prioritization of biomarker candidates for type 2 diabetes mellitus}, journal = {PLoS Comput. Biol.}, volume = {19}, number = {8}, year = {2023}, url = {https://doi.org/10.1371/journal.pcbi.1011403}, doi = {10.1371/JOURNAL.PCBI.1011403}, timestamp = {Mon, 05 Feb 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ploscb/LundgaardBSWVCR23.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/npjdm/MortensenB22, author = {Laust Hvas Mortensen and S{\o}ren Brunak}, title = {Reply to: Immortal time bias in the analysis of drug prescription trajectories}, journal = {npj Digit. Medicine}, volume = {5}, year = {2022}, url = {https://doi.org/10.1038/s41746-022-00724-4}, doi = {10.1038/S41746-022-00724-4}, timestamp = {Sat, 13 May 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/npjdm/MortensenB22.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/npjdm/Thorsen-MeyerPK22, author = {Hans{-}Christian Thorsen{-}Meyer and Davide Placido and Benjamin Skov Kaas{-}Hansen and Anna P. Nielsen and Theis Lange and Annelaura B. Nielsen and Palle Toft and Jens Schierbeck and Thomas Str{\o}m and Piotr Chmura and Marc Heimann and Kirstine Belling and Anders Perner and S{\o}ren Brunak}, title = {Discrete-time survival analysis in the critically ill: a deep learning approach using heterogeneous data}, journal = {npj Digit. Medicine}, volume = {5}, year = {2022}, url = {https://doi.org/10.1038/s41746-022-00679-6}, doi = {10.1038/S41746-022-00679-6}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/npjdm/Thorsen-MeyerPK22.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/npjdm/Aguayo-OrozcoHJ21, author = {Alejandro Aguayo{-}Orozco and Amalie Dahl Haue and Isabella Friis J{\o}rgensen and David Westergaard and Pope L. Moseley and Laust Hvas Mortensen and S{\o}ren Brunak}, title = {Optimizing drug selection from a prescription trajectory of one patient}, journal = {npj Digit. Medicine}, volume = {4}, year = {2021}, url = {https://doi.org/10.1038/s41746-021-00522-4}, doi = {10.1038/S41746-021-00522-4}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/npjdm/Aguayo-OrozcoHJ21.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/npjdm/JorgensenB21, author = {Isabella Friis J{\o}rgensen and S{\o}ren Brunak}, title = {Time-ordered comorbidity correlations identify patients at risk of mis- and overdiagnosis}, journal = {npj Digit. Medicine}, volume = {4}, year = {2021}, url = {https://doi.org/10.1038/s41746-021-00382-y}, doi = {10.1038/S41746-021-00382-Y}, timestamp = {Mon, 28 Aug 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/npjdm/JorgensenB21.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jib/BrunakCCGKKMW20, author = {S{\o}ren Brunak and Catherine Bjerre Collin and Katharina Eva {\'{O}} Cathaoir and Martin Golebiewski and Marc Kirschner and Ingrid Kockum and Heike Moser and Dagmar Waltemath}, title = {Towards standardization guidelines for in silico approaches in personalized medicine}, journal = {J. Integr. Bioinform.}, volume = {17}, number = {2-3}, year = {2020}, url = {https://doi.org/10.1515/jib-2020-0006}, doi = {10.1515/JIB-2020-0006}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/jib/BrunakCCGKKMW20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/midm/EskildsenECABBH20, author = {Nadine Kadi Eskildsen and Robert Eriksson and Sten B. Christensen and Tamilla Stine Aghassipour and Mikael Juul Bygs{\o} and S{\o}ren Brunak and Suzanne Lisbet Hansen}, title = {Implementation and comparison of two text mining methods with a standard pharmacovigilance method for signal detection of medication errors}, journal = {{BMC} Medical Informatics Decis. Mak.}, volume = {20}, number = {1}, pages = {94}, year = {2020}, url = {https://doi.org/10.1186/s12911-020-1097-0}, doi = {10.1186/S12911-020-1097-0}, timestamp = {Sun, 06 Sep 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/midm/EskildsenECABBH20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nature/RheinbayNAWSTHH20, author = {Esther Rheinbay and Morten Muhlig Nielsen and Federico Abascal and Jeremiah Wala and Ofer Shapira and Grace Tiao and Henrik Hornsh{\o}j and Julian M. Hess and Randi Istrup Juul and Ziao Lin and Lars Feuerbach and Radhakrishnan Sabarinathan and Tobias Madsen and Jaegil Kim and Loris Mularoni and Shimin Shuai and Andr{\'{e}}s Lanz{\'{o}}s and Carl Herrmann and Yosef E. Maruvka and Ciyue Shen and Samirkumar B. Amin and Pratiti Bandopadhayay and Johanna Bertl and Keith A. Boroevich and John Busanovich and Joana Carlevaro{-}Fita and Dimple Chakravarty and Calvin Wing Yiu Chan and David Craft and Priyanka Dhingra and Klev Diamanti and Nuno A. Fonseca and Abel Gonzalez{-}Perez and Qianyun Guo and Mark P. Hamilton and Nicholas J. Haradhvala and Chen Hong and Keren Isaev and Todd A. Johnson and Malene Juul and Andr{\'{e}} Kahles and Abdullah Kahraman and Youngwook Kim and Jan Komorowski and Kiran Kumar and Sushant Kumar and Donghoon Lee and Kjong{-}Van Lehmann and Yilong Li and Eric Minwei Liu and Lucas Lochovsky and Keunchil Park and Oriol Pich and Nicola D. Roberts and Gordon Saksena and Steven E. Schumacher and Nikos Sidiropoulos and Lina Sieverling and Nasa Sinnott{-}Armstrong and Chip Stewart and David Tamborero and Jose M. C. Tubio and Husen M. Umer and Liis Uusk{\"{u}}la{-}Reimand and Claes Wadelius and Lina Wadi and Xiaotong Yao and Cheng{-}Zhong Zhang and Jing Zhang and James E. Haber and Asger Hobolth and Marcin Imielinski and Manolis Kellis and Michael S. Lawrence and Christian von Mering and Hidewaki Nakagawa and Benjamin J. Raphael and Mark A. Rubin and Chris Sander and Lincoln D. Stein and Joshua M. Stuart and Tatsuhiko Tsunoda and David A. Wheeler and Rory Johnson and J{\"{u}}ri Reimand and Mark Gerstein and Ekta Khurana and Peter J. Campbell and N{\'{u}}ria L{\'{o}}pez{-}Bigas and Gary D. Bader and Jonathan Barenboim and Rameen Beroukhim and S{\o}ren Brunak and Ken Chen and Jung Kyoon Choi and Jordi Deu{-}Pons and J. Lynn Fink and Joan Frigola and Carlo Gambacorti Passerini and Dale W. Garsed and Gad Getz and Ivo Glynne Gut and David Haan and Arif Ozgun Harmanci and Mohamed Helmy and Ermin Hodzic and Jos{\'{e}} M. G. Izarzugaza and Jong K. Kim and Jan O. Korbel and Erik Larsson and Shantao Li and Xiaotong Li and Shaoke Lou and Kathleen Marchal and I{\~{n}}igo Martincorena and Alexander Mart{\'{\i}}nez{-}Fundichely and Patrick D. McGillivray and William Meyerson and Ferran Mui{\~{n}}os and Marta Paczkowska and Kiejung Park and Jakob Skou Pedersen and Tirso Pons and Sergio Pulido{-}Tamayo and Iker Reyes{-}Salazar and Matthew A. Reyna and Carlota Rubio{-}Perez and S{\"{u}}leyman Cenk Sahinalp and Leonidas Salichos and Mark Shackleton and Raunak Shrestha and Alfonso Valencia and Miguel Vazquez and Lieven P. C. Verbeke and Jiayin Wang and Jonathan Warrell and Sebastian M. Waszak and Joachim Weischenfeldt and Guanming Wu and Jun Yu and Xuanping Zhang and Yan Zhang and Zhongming Zhao and Lihua Zou and Kadir C. Akdemir and Eva G. Alvarez and Adrian Baez{-}Ortega and Paul C. Boutros and David D. L. Bowtell and Benedikt Brors and Kathleen H. Burns and Kin Chan and Isidro Cort{\'{e}}s{-}Ciriano and Ana Dueso{-}Barroso and Andrew J. Dunford and Paul A. Edwards and Xavier Estivill and Dariush Etemadmoghadam and Milana Frenkel{-}Morgenstern and Dmitry A. Gordenin and Barbara Hutter and David T. W. Jones and Young Seok Ju and Marat D. Kazanov and Leszek J. Klimczak and Youngil Koh and Eunjung Alice Lee and Jake June{-}Koo Lee and Andy G. Lynch and Geoff MacIntyre and Florian Markowetz and Matthew Meyerson and Satoru Miyano and Fabio C. P. Navarro and Stephan Ossowski and Peter J. Park and John V. Pearson and Montserrat Puiggr{\`{o}}s and Karsten Rippe and Steven A. Roberts and Bernardo Rodriguez{-}Martin and Ralph Scully and David Torrents and Izar Villasante and Nicola Waddell and Jeremiah A. Wala and Lixing Yang and Sung{-}Soo Yoon and Jorge Zamora}, title = {Analyses of non-coding somatic drivers in 2,658 cancer whole genomes}, journal = {Nat.}, volume = {578}, number = {7793}, pages = {102--111}, year = {2020}, url = {https://doi.org/10.1038/s41586-020-1965-x}, doi = {10.1038/S41586-020-1965-X}, timestamp = {Thu, 11 May 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nature/RheinbayNAWSTHH20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/GrissaRKBJ20, author = {Dhouha Grissa and Ditlev Nytoft Rasmussen and Aleksander Krag and S{\o}ren Brunak and Lars Juhl Jensen}, title = {Alcoholic liver disease: {A} registry view on comorbidities and disease prediction}, journal = {PLoS Comput. Biol.}, volume = {16}, number = {9}, year = {2020}, url = {https://doi.org/10.1371/journal.pcbi.1008244}, doi = {10.1371/JOURNAL.PCBI.1008244}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ploscb/GrissaRKBJ20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/f-egc/GrissaRKBJ20, author = {Dhouha Grissa and Ditlev Nytoft Rasmussen and Aleksander Krag and S{\o}ren Brunak and Lars Juhl Jensen}, editor = {Antoine Cornu{\'{e}}jols and {\'{E}}tienne Cuvelier}, title = {Using National Electronic Health Care Registries to Analyse and Predict Alcoholic Liver Disease}, booktitle = {Extraction et Gestion des Connaissances, {EGC} 2020, Brussels, Belgium, January 27-31, 2020}, series = {{RNTI}}, volume = {{E-36}}, pages = {389--390}, publisher = {{\'{E}}ditions {RNTI}}, year = {2020}, url = {http://editions-rnti.fr/?inprocid=1002596}, timestamp = {Wed, 07 Dec 2022 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/f-egc/GrissaRKBJ20.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/FenoyIJBN19, author = {Emilio Fenoy and Jos{\'{e}} M. G. Izarzugaza and Vanessa Isabell Jurtz and S{\o}ren Brunak and Morten Nielsen}, title = {A generic deep convolutional neural network framework for prediction of receptor-ligand interactions - NetPhosPan: application to kinase phosphorylation prediction}, journal = {Bioinform.}, volume = {35}, number = {7}, pages = {1098--1107}, year = {2019}, url = {https://doi.org/10.1093/bioinformatics/bty715}, doi = {10.1093/BIOINFORMATICS/BTY715}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bioinformatics/FenoyIJBN19.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/Aguayo-OrozcoAS19, author = {Alejandro Aguayo{-}Orozco and Karine Audouze and Troels Siggaard and Robert Barouki and S{\o}ren Brunak and Olivier Taboureau}, title = {sAOP: linking chemical stressors to adverse outcomes pathway networks}, journal = {Bioinform.}, volume = {35}, number = {24}, pages = {5391--5392}, year = {2019}, url = {https://doi.org/10.1093/bioinformatics/btz570}, doi = {10.1093/BIOINFORMATICS/BTZ570}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bioinformatics/Aguayo-OrozcoAS19.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ijmi/LademannLJB19, author = {Martin Lademann and Mette Lademann and Anders Boeck Jensen and S{\o}ren Brunak}, title = {Incorporating symptom data in longitudinal disease trajectories for more detailed patient stratification}, journal = {Int. J. Medical Informatics}, volume = {129}, pages = {107--113}, year = {2019}, url = {https://doi.org/10.1016/j.ijmedinf.2019.06.003}, doi = {10.1016/J.IJMEDINF.2019.06.003}, timestamp = {Sat, 30 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ijmi/LademannLJB19.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcbi/Matey-Hernandez18, author = {Maria Luisa Matey{-}Hernandez and Lasse Maretty and Jacob Malte Jensen and Bent Petersen and Jonas Andreas Sibbesen and Siyang Liu and Palle Villesen and Laurits Skov and Kirstine Belling and Christian Theil Have and Jos{\'{e}} M. G. Izarzugaza and Marie Grosjean and Jette Bork{-}Jensen and Jakob Grove and Thomas D. Als and Shujia Huang and Yuqi Chang and Ruiqi Xu and Weijian Ye and Junhua Rao and Xiaosen Guo and Jihua Sun and Hongzhi Cao and Chen Ye and John van Beusekom and Thomas Espeseth and Esben N. Flindt and Rune M. Friborg and Anders E. Halager and Stephanie Le Hellard and Christina M. Hultman and Francesco Lescai and Shengting Li and Ole Lund and Peter L{\o}ngreen and Thomas Mailund and Ole Mors and Christian N. S. Pedersen and Thomas Sicheritz{-}Pont{\'{e}}n and Patrick F. Sullivan and Ali Syed and David Westergaard and Rachita Yadav and Ning Li and Xun Xu and Torben Hansen and Anders Krogh and Lars Bolund and Thorkild I. A. S{\o}rensen and Oluf Pedersen and Ramneek Gupta and Simon Rasmussen and S{\o}ren Besenbacher and Anders D. B{\o}rglum and Jun Wang and Hans Eiberg and Karsten Kristiansen and Mikkel Heide Schierup and S{\o}ren Brunak}, title = {Benchmarking the {HLA} typing performance of Polysolver and Optitype in 50 Danish parental trios}, journal = {{BMC} Bioinform.}, volume = {19}, number = {1}, pages = {239:1--239:12}, year = {2018}, url = {https://doi.org/10.1186/s12859-018-2239-6}, doi = {10.1186/S12859-018-2239-6}, timestamp = {Mon, 05 Feb 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bmcbi/Matey-Hernandez18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/RussoBVBSCSNBLG18, author = {Francesco Russo and Sebastiano Di Bella and Federica Vannini and Gabriele Berti and Flavia Scoyni and Helen Cook and Alberto Santos and Giovanni Nigita and Vincenzo Bonnici and Alessandro Lagan{\`{a}} and Filippo Geraci and Alfredo Pulvirenti and Rosalba Giugno and Federico De Masi and Kirstine Belling and Lars Juhl Jensen and S{\o}ren Brunak and Marco Pellegrini and Alfredo Ferro}, title = {miRandola 2017: a curated knowledge base of non-invasive biomarkers}, journal = {Nucleic Acids Res.}, volume = {46}, number = {Database-Issue}, pages = {D354--D359}, year = {2018}, url = {https://doi.org/10.1093/nar/gkx854}, doi = {10.1093/NAR/GKX854}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/RussoBVBSCSNBLG18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/WestergaardSTJB18, author = {David Westergaard and Hans Henrik St{\ae}rfeldt and Christian T{\o}nsberg and Lars Juhl Jensen and S{\o}ren Brunak}, title = {A comprehensive and quantitative comparison of text-mining in 15 million full-text articles versus their corresponding abstracts}, journal = {PLoS Comput. Biol.}, volume = {14}, number = {2}, year = {2018}, url = {https://doi.org/10.1371/journal.pcbi.1005962}, doi = {10.1371/JOURNAL.PCBI.1005962}, timestamp = {Mon, 05 Feb 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ploscb/WestergaardSTJB18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/NguyenMBBFGHHJK17, author = {Dac{-}Trung Nguyen and Stephen L. Mathias and Cristian Bologa and S{\o}ren Brunak and Nicolas F. Fernandez and Anna Gaulton and Anne Hersey and Jayme Holmes and Lars Juhl Jensen and Anneli Karlsson and Guixia Liu and Avi Ma'ayan and Geetha Mandava and Subramani Mani and Saurabh Mehta and John P. Overington and Juhee Patel and Andrew D. Rouillard and Stephan C. Sch{\"{u}}rer and Timothy Sheils and Anton Simeonov and Larry A. Sklar and Noel Southall and Oleg Ursu and Dusica Vidovic and Anna Waller and Jeremy J. Yang and Ajit Jadhav and Tudor I. Oprea and Rajarshi Guha}, title = {Pharos: Collating protein information to shed light on the druggable genome}, journal = {Nucleic Acids Res.}, volume = {45}, number = {Database-Issue}, pages = {D995--D1002}, year = {2017}, url = {https://doi.org/10.1093/nar/gkw1072}, doi = {10.1093/NAR/GKW1072}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/NguyenMBBFGHHJK17.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nature/MarettyJPSLVSBH17, author = {Lasse Maretty and Jacob Malte Jensen and Bent Petersen and Jonas Andreas Sibbesen and Siyang Liu and Palle Villesen and Laurits Skov and Kirstine Belling and Christian Theil Have and Jos{\'{e}} M. G. Izarzugaza and Marie Grosjean and Jette Bork{-}Jensen and Jakob Grove and Thomas D. Als and Shujia Huang and Yuqi Chang and Ruiqi Xu and Weijian Ye and Junhua Rao and Xiaosen Guo and Jihua Sun and Hongzhi Cao and Chen Ye and John van Beusekom and Thomas Espeseth and Esben N. Flindt and Rune M. Friborg and Anders E. Halager and Stephanie Le Hellard and Christina M. Hultman and Francesco Lescai and Shengting Li and Ole Lund and Peter L{\o}ngreen and Thomas Mailund and Maria Luisa Matey{-}Hernandez and Ole Mors and Christian N. S. Pedersen and Thomas Sicheritz{-}Pont{\'{e}}n and Patrick F. Sullivan and Ali Syed and David Westergaard and Rachita Yadav and Ning Li and Xun Xu and Torben Hansen and Anders Krogh and Lars Bolund and Thorkild I. A. S{\o}rensen and Oluf Pedersen and Ramneek Gupta and Simon Rasmussen and S{\o}ren Besenbacher and Anders D. B{\o}rglum and Jun Wang and Hans Eiberg and Karsten Kristiansen and S{\o}ren Brunak and Mikkel Heide Schierup}, title = {Sequencing and \emph{de novo} assembly of 150 genomes from Denmark as a population reference}, journal = {Nat.}, volume = {548}, number = {7665}, pages = {87--91}, year = {2017}, url = {https://doi.org/10.1038/nature23264}, doi = {10.1038/NATURE23264}, timestamp = {Mon, 05 Feb 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/nature/MarettyJPSLVSBH17.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/psb/BeckWGB17, author = {Mette Beck and David Westergaard and Leif Groop and S{\o}ren Brunak}, editor = {Russ B. Altman and A. Keith Dunker and Lawrence Hunter and Marylyn D. Ritchie and Teri E. Klein}, title = {Temporal Order of Disease Pairs Affects Subsequent Disease Trajectories: The Case of Diabetes and Sleep Apnea}, booktitle = {Biocomputing 2017: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2017}, pages = {380--389}, year = {2017}, url = {http://psb.stanford.edu/psb-online/proceedings/psb17/beck\_m.pdf}, timestamp = {Thu, 12 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/psb/BeckWGB17.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/biodb/KringelumKBLOT16, author = {Jens Kringelum and Sonny Kim Kj{\ae}rulff and S{\o}ren Brunak and Ole Lund and Tudor I. Oprea and Olivier Taboureau}, title = {ChemProt-3.0: a global chemical biology diseases mapping}, journal = {Database J. Biol. Databases Curation}, volume = {2016}, year = {2016}, url = {https://doi.org/10.1093/database/bav123}, doi = {10.1093/DATABASE/BAV123}, timestamp = {Tue, 21 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/biodb/KringelumKBLOT16.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/IsonRMKRCABBBBB16, author = {Jon C. Ison and Kristoffer Rapacki and Herv{\'{e}} M{\'{e}}nager and Mat{\'{u}}s Kalas and Emil Rydza and Piotr Chmura and Christian Anthon and Niall Beard and Karel Berka and Dan M. Bolser and Tim Booth and Anthony Bretaudeau and Jan Brezovsky and Rita Casadio and Gianni Cesareni and Frederik Coppens and Michael Cornell and Gianmauro Cuccuru and Kristian Davidsen and Gianluca Della Vedova and Tunca Dogan and Olivia Doppelt{-}Azeroual and Laura Emery and Elisabeth Gasteiger and Thomas Gatter and Tatyana Goldberg and Marie Grosjean and Bj{\"{o}}rn A. Gr{\"{u}}ning and Manuela Helmer{-}Citterich and Hans Ienasescu and Vassilios Ioannidis and Martin Closter Jespersen and Rafael C. Jim{\'{e}}nez and Nick S. Juty and Peter Juvan and Maximilian Koch and Camille Laibe and Jing{-}Woei Li and Luana Licata and Fabien Mareuil and Ivan Micetic and Rune M{\o}llegaard Friborg and S{\'{e}}bastien Moretti and Chris Morris and Steffen M{\"{o}}ller and Aleksandra Nenadic and Hedi Peterson and Giuseppe Profiti and Peter M. Rice and Paolo Romano and Paola Roncaglia and Rabie Saidi and Andrea Schafferhans and Veit Schw{\"{a}}mmle and Callum Smith and Maria Maddalena Sperotto and Heinz Stockinger and Radka Svobodov{\'{a}} Varekov{\'{a}} and Silvio C. E. Tosatto and Victor de la Torre and Paolo Uva and Allegra Via and Guy Yachdav and Federico Zambelli and Gert Vriend and Burkhard Rost and Helen E. Parkinson and Peter L{\o}ngreen and S{\o}ren Brunak}, title = {Tools and data services registry: a community effort to document bioinformatics resources}, journal = {Nucleic Acids Res.}, volume = {44}, number = {Database-Issue}, pages = {38--47}, year = {2016}, url = {https://doi.org/10.1093/nar/gkv1116}, doi = {10.1093/NAR/GKV1116}, timestamp = {Thu, 25 May 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/IsonRMKRCABBBBB16.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nature/MalaspinasWMSLA16, author = {Anna{-}Sapfo Malaspinas and Michael C. Westaway and Craig Muller and Vitor C. Sousa and Oscar Lao and Isabel Alves and Anders Bergstr{\"{o}}m and Georgios Athanasiadis and Jade Yu Cheng and Jacob E. Crawford and Tim H. Heupink and Enrico Macholdt and Stephan Peischl and Simon Rasmussen and Stephan Schiffels and Sankar Subramanian and Joanne L. Wright and Anders Albrechtsen and Chiara Barbieri and Isabelle Dupanloup and Anders Eriksson and Ashot Margaryan and Ida Moltke and Irina Pugach and Thorfinn Sand Korneliussen and Ivan P. Levkivskyi and Jos{\'{e}} V{\'{\i}}ctor Moreno{-}Mayar and Shengyu Ni and Fernando Racimo and Martin Sikora and Yali Xue and Farhang A. Aghakhanian and Nicolas Brucato and S{\o}ren Brunak and Paula F. Campos and Warren Clark and Sturla Ellingv{\aa}g and Gudjugudju Fourmile and Pascale Gerbault and Darren Injie and George Koki and Matthew Leavesley and Betty Logan and Aubrey Lynch and Elizabeth A. Matisoo{-}Smith and Peter J. McAllister and Alexander J. Mentzer and Mait Metspalu and Andrea B. Migliano and Les Murgha and Maude E. Phipps and William Pomat and Doc Reynolds and Francois{-}Xavier Ricaut and Peter Siba and Mark G. Thomas and Thomas Wales and Colleen Ma'run Wall and Stephen J. Oppenheimer and Chris Tyler{-}Smith and Richard Durbin and Joe Dortch and Andrea Manica and Mikkel H. Schierup and Robert A. Foley and Marta Miraz{\'{o}}n Lahr and Claire Bowern and Jeffrey D. Wall and Thomas Mailund and Mark Stoneking and Rasmus Nielsen and Manjinder S. Sandhu and Laurent Excoffier and David M. Lambert and Eske Willerslev}, title = {A genomic history of Aboriginal Australia}, journal = {Nat.}, volume = {538}, number = {7624}, pages = {207--214}, year = {2016}, url = {https://doi.org/10.1038/nature18299}, doi = {10.1038/NATURE18299}, timestamp = {Fri, 09 Apr 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nature/MalaspinasWMSLA16.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nature/ForslundHNFCSPV15, author = {Kristoffer Forslund and Falk Hildebrand and Trine Rask Nielsen and Gwen Falony and Emmanuelle Le Chatelier and Shinichi Sunagawa and Edi Prifti and Sara Vieira{-}Silva and Valborg Gudmundsdottir and Helle Krogh Pedersen and Manimozhiyan Arumugam and Karsten Kristiansen and Anita Yvonne Voigt and Henrik Vestergaard and Rajna Hercog and Paul I. Costea and Jens Roat Kultima and Junhua Li and Torben J{\o}rgensen and Florence Levenez and Jo{\"{e}}l Dore and Henrik Bj{\o}rn Nielsen and S{\o}ren Brunak and Jeroen Raes and Torben Hansen and Jun Wang and S. Dusko Ehrlich and Peer Bork and Oluf Pedersen}, title = {Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota}, journal = {Nat.}, volume = {528}, number = {7582}, pages = {262--266}, year = {2015}, url = {https://doi.org/10.1038/nature15766}, doi = {10.1038/NATURE15766}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nature/ForslundHNFCSPV15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/amia/WeegarKSBD15, author = {Rebecka Weegar and Maria Kvist and Karin Sundstr{\"{o}}m and S{\o}ren Brunak and Hercules Dalianis}, title = {Finding Cervical Cancer Symptoms in Swedish Clinical Text using a Machine Learning Approach and NegEx}, booktitle = {{AMIA} 2015, American Medical Informatics Association Annual Symposium, San Francisco, CA, USA, November 14-18, 2015}, publisher = {{AMIA}}, year = {2015}, url = {https://knowledge.amia.org/59310-amia-1.2741865/t004-1.2745466/f004-1.2745467/2225624-1.2745498/2245432-1.2745495}, timestamp = {Wed, 04 Aug 2021 11:13:07 +0200}, biburl = {https://dblp.org/rec/conf/amia/WeegarKSBD15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/psb/BrunakVMRRS15, author = {S{\o}ren Brunak and Francisco M. de la Vega and Adam A. Margolin and Benjamin J. Raphael and Gunnar R{\"{a}}tsch and Joshua M. Stuart}, editor = {Russ B. Altman and A. Keith Dunker and Lawrence Hunter and Teri E. Klein and Marylyn D. Ritchie}, title = {Session Introduction}, booktitle = {Biocomputing 2015: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 4-8, 2015}, pages = {8--9}, year = {2015}, url = {http://psb.stanford.edu/psb-online/proceedings/psb15/intro-panomics.pdf}, timestamp = {Thu, 12 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/psb/BrunakVMRRS15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bib/KouskoumvekakiSB14, author = {Irene Kouskoumvekaki and Nour Shublaq and S{\o}ren Brunak}, title = {Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics}, journal = {Briefings Bioinform.}, volume = {15}, number = {6}, pages = {942--952}, year = {2014}, url = {https://doi.org/10.1093/bib/bbt055}, doi = {10.1093/BIB/BBT055}, timestamp = {Thu, 04 Jun 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bib/KouskoumvekakiSB14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jbi/Krysiak-BaltynPAJAB14, author = {Konrad Krysiak{-}Baltyn and Thomas Nordahl Petersen and Karine Audouze and Niels J{\o}rgensen and Lars {\"{A}}ngquist and S{\o}ren Brunak}, title = {Compass: {A} hybrid method for clinical and biobank data mining}, journal = {J. Biomed. Informatics}, volume = {47}, pages = {160--170}, year = {2014}, url = {https://doi.org/10.1016/j.jbi.2013.10.007}, doi = {10.1016/J.JBI.2013.10.007}, timestamp = {Tue, 16 Feb 2021 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/jbi/Krysiak-BaltynPAJAB14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nature/ArumugamRPPYMFT14, author = {Manimozhiyan Arumugam and Jeroen Raes and Eric Pelletier and Denis Le Paslier and Takuji Yamada and Daniel R. Mende and Gabriel R. Fernandes and Julien Tap and Thomas Br{\"{u}}ls and Jean{-}Michel Batto and Marcelo Bertalan and Natalia Borruel and Francesc Casellas and Leyden Fern{\'{a}}ndez and Laurent Gautier and Torben Hansen and Masahira Hattori and Tetsuya Hayashi and Michiel Kleerebezem and Ken Kurokawa and Marion Leclerc and Florence Levenez and Chaysavanh Manichanh and Henrik Bj{\o}rn Nielsen and Trine Rask Nielsen and Nicolas Pons and Julie Poulain and Junjie Qin and Thomas Sicheritz{-}Pont{\'{e}}n and Sebastian Tims and David Torrents and Edgardo Ugarte and Erwin G. Zoetendal and Jun Wang and Francisco Guarner and Oluf Pedersen and Willem M. de Vos and S{\o}ren Brunak and Jo{\"{e}}l Dore and MetaHIT consortium and Jean Weissenbach and S. Dusko Ehrlich and Peer Bork}, title = {Addendum: Enterotypes of the human gut microbiome}, journal = {Nat.}, volume = {506}, number = {7489}, pages = {516}, year = {2014}, url = {https://doi.org/10.1038/nature13075}, doi = {10.1038/NATURE13075}, timestamp = {Mon, 05 Feb 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/nature/ArumugamRPPYMFT14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/acl-louhi/ThomasJWB14, author = {Cecilia Engel Thomas and Peter Bj{\o}dstrup Jensen and Thomas Werge and S{\o}ren Brunak}, editor = {Sumithra Velupillai and Martin Duneld and Maria Kvist and Hercules Dalianis and Maria Skeppstedt and Aron Henriksson}, title = {Negation scope and spelling variation for text-mining of Danish electronic patient records}, booktitle = {Proceedings of the 5th International Workshop on Health Text Mining and Information Analysis, Louhi@EACL 2014, Gothenburg, Sweden, April 27, 2014}, pages = {64--68}, publisher = {Association for Computational Linguistics}, year = {2014}, url = {https://doi.org/10.3115/v1/W14-1109}, doi = {10.3115/V1/W14-1109}, timestamp = {Fri, 06 Aug 2021 00:41:34 +0200}, biburl = {https://dblp.org/rec/conf/acl-louhi/ThomasJWB14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/psb/BrunakVRS14, author = {S{\o}ren Brunak and Francisco M. de la Vega and Gunnar R{\"{a}}tsch and Joshua M. Stuart}, editor = {Russ B. Altman and A. Keith Dunker and Lawrence Hunter and Teri E. Klein and Marylyn D. Ritchie}, title = {Session Introduction}, booktitle = {Biocomputing 2014: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2014}, pages = {1--2}, year = {2014}, url = {http://psb.stanford.edu/psb-online/proceedings/psb14/intro-cp.pdf}, timestamp = {Thu, 12 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/psb/BrunakVRS14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jamia/ErikssonJFJB13, author = {Robert Eriksson and Peter Bj{\o}dstrup Jensen and Sune Frankild and Lars Juhl Jensen and S{\o}ren Brunak}, title = {Dictionary construction and identification of possible adverse drug events in Danish clinical narrative text}, journal = {J. Am. Medical Informatics Assoc.}, volume = {20}, number = {5}, pages = {947--953}, year = {2013}, url = {https://doi.org/10.1136/amiajnl-2013-001708}, doi = {10.1136/AMIAJNL-2013-001708}, timestamp = {Mon, 26 Oct 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/jamia/ErikssonJFJB13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/KjaerulffWKJKALBOT13, author = {Sonny Kim Kj{\ae}rulff and Louis Wich and Jens Kringelum and Ulrik Plesner Jacobsen and Irene Kouskoumvekaki and Karine Audouze and Ole Lund and S{\o}ren Brunak and Tudor I. Oprea and Olivier Taboureau}, title = {ChemProt-2.0: visual navigation in a disease chemical biology database}, journal = {Nucleic Acids Res.}, volume = {41}, number = {Database-Issue}, pages = {464--469}, year = {2013}, url = {https://doi.org/10.1093/nar/gks1166}, doi = {10.1093/NAR/GKS1166}, timestamp = {Tue, 21 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/nar/KjaerulffWKJKALBOT13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/PersDTLB13, author = {Tune H. Pers and Piotr Dworzynski and Cecilia Engel Thomas and Kasper Lage and S{\o}ren Brunak}, title = {MetaRanker 2.0: a web server for prioritization of genetic variation data}, journal = {Nucleic Acids Res.}, volume = {41}, number = {Webserver-Issue}, pages = {104--108}, year = {2013}, url = {https://doi.org/10.1093/nar/gkt387}, doi = {10.1093/NAR/GKT387}, timestamp = {Sun, 17 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/PersDTLB13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/medinfo/MaegaardHBSAW13, author = {Bente Maegaard and Udo Hahn and S{\o}ren Brunak and Stefan Schulz and Ulrich Andersen and Sebastian Welter}, editor = {Christoph Ulrich Lehmann and Elske Ammenwerth and Christian N{\o}hr}, title = {Question Answering for Health Professionals and Laypersons}, booktitle = {{MEDINFO} 2013 - Proceedings of the 14th World Congress on Medical and Health Informatics, 20-13 August 2013, Copenhagen, Denmark}, series = {Studies in Health Technology and Informatics}, volume = {192}, pages = {1244}, publisher = {{IOS} Press}, year = {2013}, timestamp = {Thu, 29 Mar 2018 01:00:00 +0200}, biburl = {https://dblp.org/rec/conf/medinfo/MaegaardHBSAW13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/WangWB11, author = {Kai Wang and Rasmus Wernersson and S{\o}ren Brunak}, title = {The strength of intron donor splice sites in human genes displays a bell-shaped pattern}, journal = {Bioinform.}, volume = {27}, number = {22}, pages = {3079--3084}, year = {2011}, url = {https://doi.org/10.1093/bioinformatics/btr532}, doi = {10.1093/BIOINFORMATICS/BTR532}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/WangWB11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcbi/LiEBDHSSPBRS11, author = {Qiyuan Li and Aron C. Eklund and Nicolai J. Birkbak and Christine Desmedt and Benjamin Haibe{-}Kains and Christos P. Sotiriou and W. Fraser Symmans and Lajos Pusztai and S{\o}ren Brunak and Andrea L. Richardson and Zoltan Szallasi}, title = {Consistent metagenes from cancer expression profiles yield agent specific predictors of chemotherapy response}, journal = {{BMC} Bioinform.}, volume = {12}, pages = {310}, year = {2011}, url = {https://doi.org/10.1186/1471-2105-12-310}, doi = {10.1186/1471-2105-12-310}, timestamp = {Fri, 09 Apr 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bmcbi/LiEBDHSSPBRS11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/TaboureauNAWERKBCJBO11, author = {Olivier Taboureau and Sonny Kim Nielsen and Karine Audouze and Nils Weinhold and Daniel Edsg{\"{a}}rd and Francisco S. Roque and Irene Kouskoumvekaki and Alina Bora and Ramona Curpan and Thomas Sk{\o}t Jensen and S{\o}ren Brunak and Tudor I. Oprea}, title = {ChemProt: a disease chemical biology database}, journal = {Nucleic Acids Res.}, volume = {39}, number = {Database-Issue}, pages = {367--372}, year = {2011}, url = {https://doi.org/10.1093/nar/gkq906}, doi = {10.1093/NAR/GKQ906}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/TaboureauNAWERKBCJBO11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/RoqueJSDAHSBJWJB11, author = {Francisco S. Roque and Peter Bj{\o}dstrup Jensen and Henriette Schmock and Marlene Dalgaard and Massimo Andreatta and Thomas Folkmann Hansen and Karen S{\o}eby and S{\o}ren Bredkj{\ae}r and Anders Juul and Thomas Werge and Lars Juhl Jensen and S{\o}ren Brunak}, title = {Using Electronic Patient Records to Discover Disease Correlations and Stratify Patient Cohorts}, journal = {PLoS Comput. Biol.}, volume = {7}, number = {8}, year = {2011}, url = {https://doi.org/10.1371/journal.pcbi.1002141}, doi = {10.1371/JOURNAL.PCBI.1002141}, timestamp = {Sat, 15 Jul 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ploscb/RoqueJSDAHSBJWJB11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/GauthierJWBJ10, author = {Nicholas Paul Gauthier and Lars Juhl Jensen and Rasmus Wernersson and S{\o}ren Brunak and Thomas Sk{\o}t Jensen}, title = {Cyclebase.org: version 2.0, an updated comprehensive, multi-species repository of cell cycle experiments and derived analysis results}, journal = {Nucleic Acids Res.}, volume = {38}, number = {Database-Issue}, pages = {699--702}, year = {2010}, url = {https://doi.org/10.1093/nar/gkp1044}, doi = {10.1093/NAR/GKP1044}, timestamp = {Sun, 17 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/GauthierJWBJ10.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/AudouzeJRKWTJB10, author = {Karine Audouze and Agnieszka Sierakowska Juncker and Francisco S. Roque and Konrad Krysiak{-}Baltyn and Nils Weinhold and Olivier Taboureau and Thomas Sk{\o}t Jensen and S{\o}ren Brunak}, title = {Deciphering Diseases and Biological Targets for Environmental Chemicals using Toxicogenomics Networks}, journal = {PLoS Comput. Biol.}, volume = {6}, number = {5}, year = {2010}, url = {https://doi.org/10.1371/journal.pcbi.1000788}, doi = {10.1371/JOURNAL.PCBI.1000788}, timestamp = {Tue, 21 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ploscb/AudouzeJRKWTJB10.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bib/PappalardoHRZAEPDPPMCRSMCBLBMLBB09, author = {Francesco Pappalardo and Mark D. Halling{-}Brown and Nicolas Rapin and Ping Zhang and Davide Alemani and Andrew P. J. Emerson and Paola Paci and Patrice Duroux and Marzio Pennisi and Arianna Palladini and Olivo Miotto and Daniel Churchill and Elda Rossi and Adrian J. Shepherd and David S. Moss and Filippo Castiglione and Massimo Bernaschi and Marie{-}Paule Lefranc and S{\o}ren Brunak and Santo Motta and Pierluigi Lollini and Kaye E. Basford and Vladimir Brusic}, title = {ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization}, journal = {Briefings Bioinform.}, volume = {10}, number = {3}, pages = {330--340}, year = {2009}, url = {https://doi.org/10.1093/bib/bbp014}, doi = {10.1093/BIB/BBP014}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bib/PappalardoHRZAEPDPPMCRSMCBLBMLBB09.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/GauthierLWLJBJ08, author = {Nicholas Paul Gauthier and Malene Erup Larsen and Rasmus Wernersson and Ulrik de Lichtenberg and Lars Juhl Jensen and S{\o}ren Brunak and Thomas Sk{\o}t Jensen}, title = {Cyclebase.org - a comprehensive multi-organism online database of cell-cycle experiments}, journal = {Nucleic Acids Res.}, volume = {36}, number = {Database-Issue}, pages = {854--859}, year = {2008}, url = {https://doi.org/10.1093/nar/gkm729}, doi = {10.1093/NAR/GKM729}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/GauthierLWLJBJ08.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/LundegaardLKBN07, author = {Claus Lundegaard and Ole Lund and Can Kesmir and S{\o}ren Brunak and Morten Nielsen}, title = {Modeling the adaptive immune system: predictions and simulations}, journal = {Bioinform.}, volume = {23}, number = {24}, pages = {3265--3275}, year = {2007}, url = {https://doi.org/10.1093/bioinformatics/btm471}, doi = {10.1093/BIOINFORMATICS/BTM471}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/LundegaardLKBN07.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/PanitzSHGHCTMHVZWWWJSALSGNHBFB07, author = {Frank Panitz and Henrik Stengaard and Henrik Hornsh{\o}j and Jan Gorodkin and Jakob Hedegaard and Susanna Cirera and Bo Thomsen and Lone B. Madsen and Anette H{\o}j and Rikke K. Vingborg and Bujie Zahn and Xuegang Wang and Xuefei Wang and Rasmus Wernersson and Claus B. J{\o}rgensen and Karsten Scheibye{-}Knudsen and Troels Arvin and Steen Lumholdt and Milena Sawera and Trine Green and Bente J. Nielsen and Jakob Hull Havgaard and S{\o}ren Brunak and Merete Fredholm and Christian Bendixen}, title = {{SNP} mining porcine ESTs with MAVIANT, a novel tool for {SNP} evaluation and annotation}, booktitle = {Proceedings 15th International Conference on Intelligent Systems for Molecular Biology {(ISMB)} {\&} 6th European Conference on Computational Biology (ECCB), Vienna, Austria, July 21-25, 2007}, pages = {387--391}, year = {2007}, url = {https://doi.org/10.1093/bioinformatics/btm192}, doi = {10.1093/BIOINFORMATICS/BTM192}, timestamp = {Sat, 19 Oct 2019 01:00:00 +0200}, biburl = {https://dblp.org/rec/conf/ismb/PanitzSHGHCTMHVZWWWJSALSGNHBFB07.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jcisd/HansenKJBJ06, author = {Niclas Tue Hansen and Irene Kouskoumvekaki and Flemming Steen J{\o}rgensen and S{\o}ren Brunak and Svava {\'{O}}sk J{\'{o}}nsd{\'{o}}ttir}, title = {Prediction of pH-Dependent Aqueous Solubility of Druglike Molecules}, journal = {J. Chem. Inf. Model.}, volume = {46}, number = {6}, pages = {2601--2609}, year = {2006}, url = {https://doi.org/10.1021/ci600292q}, doi = {10.1021/CI600292Q}, timestamp = {Fri, 06 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/jcisd/HansenKJBJ06.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/NeshichBB06, author = {Goran Neshich and Philip E. Bourne and S{\o}ren Brunak}, title = {{ISMB} 2006}, journal = {PLoS Comput. Biol.}, volume = {2}, number = {2}, year = {2006}, url = {https://doi.org/10.1371/journal.pcbi.0020011}, doi = {10.1371/JOURNAL.PCBI.0020011}, timestamp = {Thu, 10 Sep 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ploscb/NeshichBB06.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/BourneB06, author = {Philip E. Bourne and S{\o}ren Brunak}, title = {{ISMB} 2006}, booktitle = {Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, Fortaleza, Brazil, August 6-10, 2006}, pages = {1--2}, year = {2006}, url = {https://doi.org/10.1093/bioinformatics/btl373}, doi = {10.1093/BIOINFORMATICS/BTL373}, timestamp = {Wed, 14 Nov 2018 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/ismb/BourneB06.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@book{DBLP:books/daglib/0014218, author = {Ole Lund and Morten Nielsen and Claus Lundegaard and Can Kesmir and S{\o}ren Brunak}, title = {Immunological bioinformatics}, series = {Computational molecular biology}, publisher = {{AAAI} Press}, year = {2005}, isbn = {978-0-262-12280-1}, timestamp = {Fri, 12 Jul 2019 01:00:00 +0200}, biburl = {https://dblp.org/rec/books/daglib/0014218.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/LichtenbergJFJBB05, author = {Ulrik de Lichtenberg and Lars Juhl Jensen and Anders Fausb{\o}ll and Thomas Sk{\o}t Jensen and Peer Bork and S{\o}ren Brunak}, title = {Comparison of computational methods for the identification of cell cycle-regulated genes}, journal = {Bioinform.}, volume = {21}, number = {7}, pages = {1164--1171}, year = {2005}, url = {https://doi.org/10.1093/bioinformatics/bti093}, doi = {10.1093/BIOINFORMATICS/BTI093}, timestamp = {Thu, 14 Oct 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bioinformatics/LichtenbergJFJBB05.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/JonsdottirJB05, author = {Svava {\'{O}}sk J{\'{o}}nsd{\'{o}}ttir and Flemming Steen J{\o}rgensen and S{\o}ren Brunak}, title = {Prediction methods and databases within chemoinformatics: emphasis on drugs and drug candidates}, journal = {Bioinform.}, volume = {21}, number = {10}, pages = {2145--2160}, year = {2005}, url = {https://doi.org/10.1093/bioinformatics/bti314}, doi = {10.1093/BIOINFORMATICS/BTI314}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/JonsdottirJB05.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcbi/BendtsenNWPB05, author = {Jannick Dyrl{\o}v Bendtsen and Henrik Nielsen and David Widdick and Tracy Palmer and S{\o}ren Brunak}, title = {Prediction of twin-arginine signal peptides}, journal = {{BMC} Bioinform.}, volume = {6}, pages = {167}, year = {2005}, url = {https://doi.org/10.1186/1471-2105-6-167}, doi = {10.1186/1471-2105-6-167}, timestamp = {Sun, 15 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bmcbi/BendtsenNWPB05.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/aim/AndersenB04, author = {Claus A. F. Andersen and S{\o}ren Brunak}, title = {Representation of Protein-Sequence Information by Amino Acid Subalphabets}, journal = {{AI} Mag.}, volume = {25}, number = {1}, pages = {97--104}, year = {2004}, url = {https://doi.org/10.1609/aimag.v25i1.1750}, doi = {10.1609/AIMAG.V25I1.1750}, timestamp = {Tue, 25 Aug 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/aim/AndersenB04.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/NielsenLWSLBBL04, author = {Morten Nielsen and Claus Lundegaard and Peder Worning and Christina Sylvester{-}Hvid and Kasper Lamberth and S{\o}ren Buus and S{\o}ren Brunak and Ole Lund}, title = {Improved prediction of {MHC} class {I} and class {II} epitopes using a novel Gibbs sampling approach}, journal = {Bioinform.}, volume = {20}, number = {9}, pages = {1388--1397}, year = {2004}, url = {https://doi.org/10.1093/bioinformatics/bth100}, doi = {10.1093/BIOINFORMATICS/BTH100}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/NielsenLWSLBBL04.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcbi/KiemerLBB04, author = {Lars Kiemer and Ole Lund and S{\o}ren Brunak and Nikolaj Blom}, title = {Coronavirus 3CL\({}^{\mbox{\emph{pro }}}\)proteinase cleavage sites: Possible relevance to {SARS} virus pathology}, journal = {{BMC} Bioinform.}, volume = {5}, pages = {72}, year = {2004}, url = {https://doi.org/10.1186/1471-2105-5-72}, doi = {10.1186/1471-2105-5-72}, timestamp = {Sun, 15 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bmcbi/KiemerLBB04.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/icaris/LundegaardNLWSBBL04, author = {Claus Lundegaard and Morten Nielsen and Kasper Lamberth and Peder Worning and Christina Sylvester{-}Hvid and S{\o}ren Buus and S{\o}ren Brunak and Ole Lund}, editor = {Giuseppe Nicosia and Vincenzo Cutello and Peter J. Bentley and Jon Timmis}, title = {{MHC} Class {I} Epitope Binding Prediction Trained on Small Data Sets}, booktitle = {Artificial Immune Systems, Third International Conference, {ICARIS} 2004, Catania, Sicily, Italy, September 13-16, 2004}, series = {Lecture Notes in Computer Science}, volume = {3239}, pages = {217--225}, publisher = {Springer}, year = {2004}, url = {https://doi.org/10.1007/978-3-540-30220-9\_18}, doi = {10.1007/978-3-540-30220-9\_18}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/conf/icaris/LundegaardNLWSBBL04.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/JensenGSB03, author = {Lars Juhl Jensen and Ramneek Gupta and Hans Henrik St{\ae}rfeldt and S{\o}ren Brunak}, title = {Prediction of human protein function according to Gene Ontology categories}, journal = {Bioinform.}, volume = {19}, number = {5}, pages = {635--642}, year = {2003}, url = {https://doi.org/10.1093/bioinformatics/btg036}, doi = {10.1093/BIOINFORMATICS/BTG036}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/JensenGSB03.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/CourGRSPB03, author = {Tanja la Cour and Ramneek Gupta and Kristoffer Rapacki and Karen Skriver and Flemming M. Poulsen and S{\o}ren Brunak}, title = {NESbase version 1.0: a database of nuclear export signals}, journal = {Nucleic Acids Res.}, volume = {31}, number = {1}, pages = {393--396}, year = {2003}, url = {https://doi.org/10.1093/nar/gkg101}, doi = {10.1093/NAR/GKG101}, timestamp = {Sun, 17 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/CourGRSPB03.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/neco/ChristensenLNLWLBBL03, author = {Jens Kaae Christensen and Kasper Lamberth and Morten Nielsen and Claus Lundegaard and Peder Worning and Sanne Lise Lauem{\o}ller and S{\o}ren Buus and S{\o}ren Brunak and Ole Lund}, title = {Selecting Informative Data for Developing Peptide-MHC Binding Predictors Using a Query by Committee Approach}, journal = {Neural Comput.}, volume = {15}, number = {12}, pages = {2931--2942}, year = {2003}, url = {https://doi.org/10.1162/089976603322518803}, doi = {10.1162/089976603322518803}, timestamp = {Tue, 01 Sep 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/neco/ChristensenLNLWLBBL03.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/msps/LundegaardPNBBBGL03, author = {Claus Lundegaard and Thomas Nordahl Petersen and Morten Nielsen and Henrik Bohr and Jakob Bohr and S{\o}ren Brunak and Garry Gippert and Ole Lund}, editor = {Concettina Guerra and Sorin Istrail}, title = {Prediction of Protein Secondary Structure at High Accuracy Using a Combination of Many Neural Networks}, booktitle = {Mathematical Methods for Protein Structure Analysis and Design, Advanced Lectures}, series = {Lecture Notes in Computer Science}, volume = {2666}, pages = {117--122}, publisher = {Springer}, year = {2003}, url = {https://doi.org/10.1007/978-3-540-44827-3\_7}, doi = {10.1007/978-3-540-44827-3\_7}, timestamp = {Tue, 14 May 2019 10:00:42 +0200}, biburl = {https://dblp.org/rec/conf/msps/LundegaardPNBBBGL03.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/SpickerWLCWOBK02, author = {Jeppe S. Spicker and Friedrik Wikman and Ming{-}Lan Lu and Carlos Cordon{-}Cardo and Christopher T. Workman and Torben F. {\O}rntoft and S{\o}ren Brunak and Steen Knudsen}, title = {Neural network predicts sequence of {TP53} gene based on {DNA} chip}, journal = {Bioinform.}, volume = {18}, number = {8}, pages = {1133--1134}, year = {2002}, url = {https://doi.org/10.1093/bioinformatics/18.8.1133}, doi = {10.1093/BIOINFORMATICS/18.8.1133}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/SpickerWLCWOBK02.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/candc/UsserySBSWK02, author = {David Ussery and Dikeos Mario Soumpasis and S{\o}ren Brunak and Hans Henrik St{\ae}rfeldt and Peder Worning and Anders Krogh}, title = {Bias of Purine Stretches in Sequenced Chromosomes}, journal = {Comput. Chem.}, volume = {26}, number = {5}, pages = {531--541}, year = {2002}, url = {https://doi.org/10.1016/S0097-8485(02)00013-X}, doi = {10.1016/S0097-8485(02)00013-X}, timestamp = {Mon, 18 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/candc/UsserySBSWK02.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/psb/GuptaB02, author = {Ramneek Gupta and S{\o}ren Brunak}, editor = {Russ B. Altman and A. Keith Dunker and Lawrence Hunter and Teri E. Klein}, title = {Prediction of Glycosylation Across the Human Proteome and the Correlation to Protein Function}, booktitle = {Proceedings of the 7th Pacific Symposium on Biocomputing, {PSB} 2002, Lihue, Hawaii, USA, January 3-7, 2002}, pages = {310--322}, year = {2002}, url = {http://psb.stanford.edu/psb-online/proceedings/psb02/gupta.pdf}, timestamp = {Thu, 12 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/psb/GuptaB02.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@book{DBLP:books/daglib/0009521, author = {Pierre Baldi and S{\o}ren Brunak}, title = {Bioinformatics - the machine learning approach {(2.} ed.)}, publisher = {{MIT} Press}, year = {2001}, isbn = {978-0-262-02506-5}, timestamp = {Fri, 15 Apr 2011 01:00:00 +0200}, biburl = {https://dblp.org/rec/books/daglib/0009521.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/BaisneeBBP01, author = {Pierre{-}Fran{\c{c}}ois Baisn{\'{e}}e and Pierre Baldi and S{\o}ren Brunak and Anders Gorm Pedersen}, title = {Flexibility of the genetic code with respect to {DNA} structure}, journal = {Bioinform.}, volume = {17}, number = {3}, pages = {237--248}, year = {2001}, url = {https://doi.org/10.1093/bioinformatics/17.3.237}, doi = {10.1093/BIOINFORMATICS/17.3.237}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/BaisneeBBP01.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/candc/GorodkinSBDKB01, author = {Jan Gorodkin and Bodil S{\o}gaard and Hanne Bay and Hans Doll and Per K{\o}lster and S{\o}ren Brunak}, title = {Recognition of Environmental and Genetic Effects on Barley Phenolic Fingerprints by Neural Networks}, journal = {Comput. Chem.}, volume = {25}, number = {3}, pages = {301--307}, year = {2001}, url = {https://doi.org/10.1016/S0097-8485(00)00103-0}, doi = {10.1016/S0097-8485(00)00103-0}, timestamp = {Mon, 18 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/candc/GorodkinSBDKB01.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/BrunakK01, author = {S{\o}ren Brunak and Anders Krogh}, title = {{ISMB} 2001}, booktitle = {Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, July 21-25, 2001, Copenhagen, Denmark}, pages = {1--4}, year = {2001}, timestamp = {Thu, 20 Jun 2002 11:09:36 +0200}, biburl = {https://dblp.org/rec/conf/ismb/BrunakK01.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/psb/BaldiB01, author = {Pierre Baldi and S{\o}ren Brunak}, editor = {Russ B. Altman and A. Keith Dunker and Lawrence Hunter and Teri E. Klein}, title = {Bioethics, Fiction Science, and the Future of Mankind - Session Introduction}, booktitle = {Proceedings of the 6th Pacific Symposium on Biocomputing, {PSB} 2001, Hawaii, USA, January 3-7, 2001}, year = {2001}, timestamp = {Mon, 22 Jun 2015 17:24:45 +0200}, biburl = {https://dblp.org/rec/conf/psb/BaldiB01.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/seqlearn/BaldiBFPS01, author = {Pierre Baldi and S{\o}ren Brunak and Paolo Frasconi and Gianluca Pollastri and Giovanni Soda}, editor = {Ron Sun and C. Lee Giles}, title = {Bidirectional Dynamics for Protein Secondary Structure Prediction}, booktitle = {Sequence Learning - Paradigms, Algorithms, and Applications}, series = {Lecture Notes in Computer Science}, volume = {1828}, pages = {80--104}, publisher = {Springer}, year = {2001}, url = {https://doi.org/10.1007/3-540-44565-X\_5}, doi = {10.1007/3-540-44565-X\_5}, timestamp = {Sun, 25 Oct 2020 23:14:05 +0100}, biburl = {https://dblp.org/rec/conf/seqlearn/BaldiBFPS01.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@book{DBLP:books/daglib/0002479, author = {Pierre Baldi and S{\o}ren Brunak}, title = {Bioinformatics - the machine learning approach}, publisher = {{MIT} Press}, year = {2000}, isbn = {978-0-262-02442-6}, timestamp = {Mon, 18 Apr 2011 01:00:00 +0200}, biburl = {https://dblp.org/rec/books/daglib/0002479.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/BaldiBCAN00, author = {Pierre Baldi and S{\o}ren Brunak and Yves Chauvin and Claus A. F. Andersen and Henrik Nielsen}, title = {Assessing the accuracy of prediction algorithms for classification: an overview}, journal = {Bioinform.}, volume = {16}, number = {5}, pages = {412--424}, year = {2000}, url = {https://doi.org/10.1093/bioinformatics/16.5.412}, doi = {10.1093/BIOINFORMATICS/16.5.412}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/BaldiBCAN00.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jcisd/FrimurerBNLB00, author = {Thomas M. Frimurer and Robert Bywater and Lars N{\ae}rum and Leif N{\o}rskov Lauritsen and S{\o}ren Brunak}, title = {Improving the Odds in Discriminating "Drug-like" from "Non Drug-like" Compounds}, journal = {J. Chem. Inf. Comput. Sci.}, volume = {40}, number = {6}, pages = {1315--1324}, year = {2000}, url = {https://doi.org/10.1021/ci0003810}, doi = {10.1021/CI0003810}, timestamp = {Thu, 14 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/jcisd/FrimurerBNLB00.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/annimab/BaldiPAB00, author = {Pierre Baldi and Gianluca Pollastri and Claus A. F. Andersen and S{\o}ren Brunak}, editor = {Helge Malmgren and Magnus Borga and Lars Niklasson}, title = {Protein {\(\beta\)}-Sheet Partner Prediction by Neural Networks}, booktitle = {Artificial Neural Networks in Medicine and Biology, Proceedings of the {ANNIMAB-1} Conference, G{\"{o}}teborg, Sweden, 13-16 May 2000}, series = {Perspectives in Neural Computing}, pages = {3--9}, publisher = {Springer}, year = {2000}, url = {https://doi.org/10.1007/978-1-4471-0513-8\_1}, doi = {10.1007/978-1-4471-0513-8\_1}, timestamp = {Sun, 25 Oct 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/conf/annimab/BaldiPAB00.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/BaldiPAB00, author = {Pierre Baldi and Gianluca Pollastri and Claus A. F. Andersen and S{\o}ren Brunak}, editor = {Philip E. Bourne and Michael Gribskov and Russ B. Altman and Nancy Jensen and Debra A. Hope and Thomas Lengauer and Julie C. Mitchell and Eric D. Scheeff and Chris Smith and Shawn Strande and Helge Weissig}, title = {Matching Protein b-Sheet Partners by Feedforward and Recurrent Neural Networks}, booktitle = {Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, August 19-23, 2000, La Jolla / San Diego, CA, {USA}}, pages = {25--36}, publisher = {{AAAI}}, year = {2000}, url = {http://www.aaai.org/Library/ISMB/2000/ismb00-003.php}, timestamp = {Thu, 13 Dec 2012 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/ismb/BaldiPAB00.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/GorodkinSLB99, author = {Jan Gorodkin and Hans Henrik St{\ae}rfeldt and Ole Lund and S{\o}ren Brunak}, title = {MatrixPlot: visualizing sequence constraints}, journal = {Bioinform.}, volume = {15}, number = {9}, pages = {769--770}, year = {1999}, url = {https://doi.org/10.1093/bioinformatics/15.9.769}, doi = {10.1093/BIOINFORMATICS/15.9.769}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bioinformatics/GorodkinSLB99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/BaldiBCP99, author = {Pierre Baldi and S{\o}ren Brunak and Yves Chauvin and Anders Gorm Pedersen}, title = {Structural basis for triplet repeat disorders: a computational analysis}, journal = {Bioinform.}, volume = {15}, number = {11}, pages = {918--929}, year = {1999}, url = {https://doi.org/10.1093/bioinformatics/15.11.918}, doi = {10.1093/BIOINFORMATICS/15.11.918}, timestamp = {Mon, 02 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/BaldiBCP99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/BaldiBFSP99, author = {Pierre Baldi and S{\o}ren Brunak and Paolo Frasconi and Giovanni Soda and Gianluca Pollastri}, title = {Exploiting the past and the future in protein secondary structure prediction}, journal = {Bioinform.}, volume = {15}, number = {11}, pages = {937--946}, year = {1999}, url = {https://doi.org/10.1093/bioinformatics/15.11.937}, doi = {10.1093/BIOINFORMATICS/15.11.937}, timestamp = {Mon, 26 Oct 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bioinformatics/BaldiBFSP99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/candc/PedersenBCB99, author = {Anders Gorm Pedersen and Pierre Baldi and Yves Chauvin and S{\o}ren Brunak}, title = {The Biology of Eukaryotic Promoter Prediction - {A} Review}, journal = {Comput. Chem.}, volume = {23}, number = {3-4}, pages = {191--207}, year = {1999}, url = {https://doi.org/10.1016/S0097-8485(99)00015-7}, doi = {10.1016/S0097-8485(99)00015-7}, timestamp = {Mon, 18 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/candc/PedersenBCB99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/KreegipuuBB99, author = {Andres Kreegipuu and Nikolaj Blom and S{\o}ren Brunak}, title = {PhosphoBase, a database of phosphorylation sites: release 2.0}, journal = {Nucleic Acids Res.}, volume = {27}, number = {1}, pages = {237--239}, year = {1999}, url = {https://doi.org/10.1093/nar/27.1.237}, doi = {10.1093/NAR/27.1.237}, timestamp = {Sun, 17 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/KreegipuuBB99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/GuptaBRBH99, author = {Ramneek Gupta and Hanne Birch and Kristoffer Rapacki and S{\o}ren Brunak and Jan E. Hansen}, title = {{O-GLYCBASE} version 4.0: a revised database of O-glycosylated proteins}, journal = {Nucleic Acids Res.}, volume = {27}, number = {1}, pages = {370--372}, year = {1999}, url = {https://doi.org/10.1093/nar/27.1.370}, doi = {10.1093/NAR/27.1.370}, timestamp = {Sun, 17 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/GuptaBRBH99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/GorodkinLAB99, author = {Jan Gorodkin and Ole Lund and Claus A. F. Andersen and S{\o}ren Brunak}, editor = {Thomas Lengauer and Reinhard Schneider and Peer Bork and Douglas L. Brutlag and Janice I. Glasgow and Hans{-}Werner Mewes and Ralf Zimmer}, title = {Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints}, booktitle = {Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, August 6-10, 1999, Heidelberg, Germany}, pages = {95--105}, publisher = {{AAAI}}, year = {1999}, url = {http://www.aaai.org/Library/ISMB/1999/ismb99-012.php}, timestamp = {Mon, 24 Jun 2013 09:48:15 +0200}, biburl = {https://dblp.org/rec/conf/ismb/GorodkinLAB99.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/BlomKB98, author = {Nikolaj Blom and Andres Kreegipuu and S{\o}ren Brunak}, title = {PhosphoBase: a database of phosphorylation sites}, journal = {Nucleic Acids Res.}, volume = {26}, number = {1}, pages = {382--386}, year = {1998}, url = {https://doi.org/10.1093/nar/26.1.382}, doi = {10.1093/NAR/26.1.382}, timestamp = {Sun, 17 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/BlomKB98.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/HansenLNRB98, author = {Jan E. Hansen and Ole Lund and Jette Nilsson and Kristoffer Rapacki and S{\o}ren Brunak}, title = {{O-GLYCBASE} Version 3.0: a revised database of O-glycosylated proteins}, journal = {Nucleic Acids Res.}, volume = {26}, number = {1}, pages = {387--389}, year = {1998}, url = {https://doi.org/10.1093/nar/26.1.387}, doi = {10.1093/NAR/26.1.387}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/HansenLNRB98.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/BaldiBCP98, author = {Pierre Baldi and S{\o}ren Brunak and Yves Chauvin and Anders Gorm Pedersen}, editor = {Janice I. Glasgow and Timothy G. Littlejohn and Fran{\c{c}}ois Major and Richard H. Lathrop and David Sankoff and Christoph W. Sensen}, title = {Computational Applications of {DNA} Structural Scales}, booktitle = {Proceedings of the 6th International Conference on Intelligent Systems for Molecular Biology (ISMB-98), Montr{\'{e}}al, Qu{\'{e}}bec, Canada, June 28 - July 1, 1998}, pages = {35--42}, publisher = {{AAAI}}, year = {1998}, url = {http://www.aaai.org/Library/ISMB/1998/ismb98-005.php}, timestamp = {Thu, 27 Jun 2019 11:28:34 +0200}, biburl = {https://dblp.org/rec/conf/ismb/BaldiBCP98.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bioinformatics/GorodkinHBS97, author = {Jan Gorodkin and Laurie J. Heyer and S{\o}ren Brunak and Gary D. Stormo}, title = {Displaying the information contents of structural {RNA} alignments: the structure logos}, journal = {Comput. Appl. Biosci.}, volume = {13}, number = {6}, pages = {583--586}, year = {1997}, url = {https://doi.org/10.1093/bioinformatics/13.6.583}, doi = {10.1093/BIOINFORMATICS/13.6.583}, timestamp = {Fri, 15 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bioinformatics/GorodkinHBS97.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ijns/NielsenEBH97, author = {Henrik Nielsen and Jacob Engelbrecht and S{\o}ren Brunak and Gunnar von Heijne}, title = {A Neural Network Method for Identification of Prokaryotic and Eukaryotic Signal Peptides and Prediction of their Cleavage Sites}, journal = {Int. J. Neural Syst.}, volume = {8}, number = {5-6}, pages = {581--599}, year = {1997}, url = {https://doi.org/10.1142/S0129065797000537}, doi = {10.1142/S0129065797000537}, timestamp = {Wed, 14 Nov 2018 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ijns/NielsenEBH97.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/HansenLRB97, author = {Jan E. Hansen and Ole Lund and Kristoffer Rapacki and S{\o}ren Brunak}, title = {{O-GLYCBASE} version 2.0: a revised database of O-glycosylated proteins}, journal = {Nucleic Acids Res.}, volume = {25}, number = {1}, pages = {278--282}, year = {1997}, url = {https://doi.org/10.1093/nar/25.1.278}, doi = {10.1093/NAR/25.1.278}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/HansenLRB97.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/nar/HansenLNHB96, author = {Jan E. Hansen and Ole Lund and Jens O. Nielsen and John{-}E. S. Hansen and S{\o}ren Brunak}, title = {{O-GLYCBASE:} a revised database of O-glycosylated proteins}, journal = {Nucleic Acids Res.}, volume = {24}, number = {1}, pages = {248--252}, year = {1996}, url = {https://doi.org/10.1093/nar/24.1.248}, doi = {10.1093/NAR/24.1.248}, timestamp = {Sun, 02 Oct 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/nar/HansenLNHB96.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/PedersenBBC96, author = {Anders Gorm Pedersen and Pierre Baldi and S{\o}ren Brunak and Yves Chauvin}, editor = {David J. States and Pankaj Agarwal and Terry Gaasterland and Lawrence Hunter and Randall Smith}, title = {Characterization of Prokaryotic and Eukaryotic Promoters Using Hidden Markov Models}, booktitle = {Proceedings of the Fourth International Conference on Intelligent Systems for Molecular Biology, St. Louis, MO, USA, June 12-15 1996}, pages = {182--191}, publisher = {{AAAI}}, year = {1996}, url = {http://www.aaai.org/Library/ISMB/1996/ismb96-020.php}, timestamp = {Thu, 13 Dec 2012 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/ismb/PedersenBBC96.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/ismb/BaldiBCEK95, author = {Pierre Baldi and S{\o}ren Brunak and Yves Chauvin and Jacob Engelbrecht and Anders Krogh}, editor = {Christopher J. Rawlings and Dominic A. Clark and Russ B. Altman and Lawrence Hunter and Thomas Lengauer and Shoshana J. Wodak}, title = {Periodic Sequence Patterns in Human Exons}, booktitle = {Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, Cambridge, United Kingdom, July 16-19, 1995}, pages = {30--38}, publisher = {{AAAI}}, year = {1995}, url = {http://www.aaai.org/Library/ISMB/1995/ismb95-004.php}, timestamp = {Thu, 13 Dec 2012 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/ismb/BaldiBCEK95.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/nips/BaldiBCEK93, author = {Pierre Baldi and S{\o}ren Brunak and Yves Chauvin and Jacob Engelbrecht and Anders Krogh}, editor = {Jack D. Cowan and Gerald Tesauro and Joshua Alspector}, title = {Hidden Markov Models for Human Genes}, booktitle = {Advances in Neural Information Processing Systems 6, [7th {NIPS} Conference, Denver, Colorado, USA, 1993]}, pages = {761--768}, publisher = {Morgan Kaufmann}, year = {1993}, url = {http://papers.nips.cc/paper/761-hidden-markov-models-for-human-genes}, timestamp = {Mon, 16 May 2022 15:41:51 +0200}, biburl = {https://dblp.org/rec/conf/nips/BaldiBCEK93.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/nips/FredholmBBBCLP90, author = {Henrik Fredholm and Henrik Bohr and Jakob Bohr and S{\o}ren Brunak and Rodney M. J. Cotterill and Benny Lautrup and Steffen B. Petersen}, editor = {Richard Lippmann and John E. Moody and David S. Touretzky}, title = {A Novel Approach to Prediction of the 3-Dimensional Structures}, booktitle = {Advances in Neural Information Processing Systems 3, {[NIPS} Conference, Denver, Colorado, USA, November 26-29, 1990]}, pages = {523--529}, publisher = {Morgan Kaufmann}, year = {1990}, url = {http://papers.nips.cc/paper/380-a-novel-approach-to-prediction-of-the-3-dimensional-structures}, timestamp = {Mon, 16 May 2022 15:41:51 +0200}, biburl = {https://dblp.org/rec/conf/nips/FredholmBBBCLP90.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/compsys/BohrB89, author = {Henrik Bohr and S{\o}ren Brunak}, title = {A Travelling Salesman Approach to Protein Conformation}, journal = {Complex Syst.}, volume = {3}, number = {1}, year = {1989}, url = {http://www.complex-systems.com/abstracts/v03\_i01\_a02.html}, timestamp = {Fri, 11 Sep 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/compsys/BohrB89.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
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