@article{DBLP:journals/cbm/SchaeferRHNKPSBS24,
author = {Moritz Schaefer and
Stephan Reichl and
Rob ter Horst and
Adele M. Nicolas and
Thomas Krausgruber and
Francesco Piras and
Peter Stepper and
Christoph Bock and
Matthias Samwald},
title = {{GPT-4} as a biomedical simulator},
journal = {Comput. Biol. Medicine},
volume = {178},
pages = {108796},
year = {2024},
url = {https://doi.org/10.1016/j.compbiomed.2024.108796},
doi = {10.1016/J.COMPBIOMED.2024.108796},
timestamp = {Fri, 19 Jul 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cbm/SchaeferRHNKPSBS24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/eaai/MoradiYCSA24,
author = {Milad Moradi and
Ke Yan and
David Colwell and
Matthias Samwald and
Rhona Asgari},
title = {Model-agnostic explainable artificial intelligence for object detection
in image data},
journal = {Eng. Appl. Artif. Intell.},
volume = {137},
pages = {109183},
year = {2024},
url = {https://doi.org/10.1016/j.engappai.2024.109183},
doi = {10.1016/J.ENGAPPAI.2024.109183},
timestamp = {Sun, 08 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/eaai/MoradiYCSA24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerj-cs/HebenstreitPKS24,
author = {Konstantin Hebenstreit and
Robert Praas and
Louis P. Kiesewetter and
Matthias Samwald},
title = {A comparison of chain-of-thought reasoning strategies across datasets
and models},
journal = {PeerJ Comput. Sci.},
volume = {10},
pages = {e1999},
year = {2024},
url = {https://doi.org/10.7717/peerj-cs.1999},
doi = {10.7717/PEERJ-CS.1999},
timestamp = {Sun, 14 Jul 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerj-cs/HebenstreitPKS24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2404-11973,
author = {Milad Moradi and
Ke Yan and
David Colwell and
Matthias Samwald and
Rhona Asgari},
title = {Exploring the landscape of large language models: Foundations, techniques,
and challenges},
journal = {CoRR},
volume = {abs/2404.11973},
year = {2024},
url = {https://doi.org/10.48550/arXiv.2404.11973},
doi = {10.48550/ARXIV.2404.11973},
eprinttype = {arXiv},
eprint = {2404.11973},
timestamp = {Wed, 22 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2404-11973.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2410-18991,
author = {Nathalie Maria Kirch and
Konstantin Hebenstreit and
Matthias Samwald},
title = {{TRIAGE:} Ethical Benchmarking of {AI} Models Through Mass Casualty
Simulations},
journal = {CoRR},
volume = {abs/2410.18991},
year = {2024},
url = {https://doi.org/10.48550/arXiv.2410.18991},
doi = {10.48550/ARXIV.2410.18991},
eprinttype = {arXiv},
eprint = {2410.18991},
timestamp = {Thu, 28 Nov 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2410-18991.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbi/BlagecKFS23,
author = {Kathrin Blagec and
Jakob Kraiger and
Wolfgang Fr{\"{u}}hwirt and
Matthias Samwald},
title = {Benchmark datasets driving artificial intelligence development fail
to capture the needs of medical professionals},
journal = {J. Biomed. Informatics},
volume = {137},
pages = {104274},
year = {2023},
url = {https://doi.org/10.1016/j.jbi.2022.104274},
doi = {10.1016/J.JBI.2022.104274},
timestamp = {Sun, 06 Oct 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbi/BlagecKFS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/paa/MemarzadehGSS23,
author = {Hoda Memarzadeh and
Nasser Ghadiri and
Matthias Samwald and
Maryam Lotfi Shahreza},
title = {Applying unsupervised keyphrase methods on concepts extracted from
discharge sheets},
journal = {Pattern Anal. Appl.},
volume = {26},
number = {4},
pages = {1715--1727},
year = {2023},
url = {https://doi.org/10.1007/s10044-023-01198-0},
doi = {10.1007/S10044-023-01198-0},
timestamp = {Sun, 10 Dec 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/paa/MemarzadehGSS23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/KusaMSKH23,
author = {Wojciech Kusa and
{\'{O}}scar E. Mendoza and
Matthias Samwald and
Petr Knoth and
Allan Hanbury},
editor = {Alice Oh and
Tristan Naumann and
Amir Globerson and
Kate Saenko and
Moritz Hardt and
Sergey Levine},
title = {CSMeD: Bridging the Dataset Gap in Automated Citation Screening for
Systematic Literature Reviews},
booktitle = {Advances in Neural Information Processing Systems 36: Annual Conference
on Neural Information Processing Systems 2023, NeurIPS 2023, New Orleans,
LA, USA, December 10 - 16, 2023},
year = {2023},
url = {http://papers.nips.cc/paper\_files/paper/2023/hash/4962a23916103301b27bde29a27642e8-Abstract-Datasets\_and\_Benchmarks.html},
timestamp = {Fri, 01 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/nips/KusaMSKH23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2301-11596,
author = {Simon Ott and
Konstantin Hebenstreit and
Valentin Li{\'{e}}vin and
Christoffer Egeberg Hother and
Milad Moradi and
Maximilian Mayrhauser and
Robert Praas and
Ole Winther and
Matthias Samwald},
title = {ThoughtSource: {A} central hub for large language model reasoning
data},
journal = {CoRR},
volume = {abs/2301.11596},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2301.11596},
doi = {10.48550/ARXIV.2301.11596},
eprinttype = {arXiv},
eprint = {2301.11596},
timestamp = {Tue, 31 Jan 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2301-11596.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2303-08928,
author = {Hoda Memarzadeh and
Nasser Ghadiri and
Matthias Samwald and
Maryam Lotfi Shahreza},
title = {Applying unsupervised keyphrase methods on concepts extracted from
discharge sheets},
journal = {CoRR},
volume = {abs/2303.08928},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2303.08928},
doi = {10.48550/ARXIV.2303.08928},
eprinttype = {arXiv},
eprint = {2303.08928},
timestamp = {Mon, 20 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2303-08928.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2303-17249,
author = {Milad Moradi and
Ke Yan and
David Colwell and
Matthias Samwald and
Rhona Asgari},
title = {Model-agnostic explainable artificial intelligence for object detection
in image data},
journal = {CoRR},
volume = {abs/2303.17249},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2303.17249},
doi = {10.48550/ARXIV.2303.17249},
eprinttype = {arXiv},
eprint = {2303.17249},
timestamp = {Fri, 14 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2303-17249.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2305-02897,
author = {Konstantin Hebenstreit and
Robert Praas and
Louis P. Kiesewetter and
Matthias Samwald},
title = {An automatically discovered chain-of-thought prompt generalizes to
novel models and datasets},
journal = {CoRR},
volume = {abs/2305.02897},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2305.02897},
doi = {10.48550/ARXIV.2305.02897},
eprinttype = {arXiv},
eprint = {2305.02897},
timestamp = {Wed, 10 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2305-02897.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2311-12474,
author = {Wojciech Kusa and
{\'{O}}scar E. Mendoza and
Matthias Samwald and
Petr Knoth and
Allan Hanbury},
title = {CSMeD: Bridging the Dataset Gap in Automated Citation Screening for
Systematic Literature Reviews},
journal = {CoRR},
volume = {abs/2311.12474},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2311.12474},
doi = {10.48550/ARXIV.2311.12474},
eprinttype = {arXiv},
eprint = {2311.12474},
timestamp = {Wed, 29 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2311-12474.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2312-10059,
author = {Konstantin Hebenstreit and
Robert Praas and
Matthias Samwald},
title = {A collection of principles for guiding and evaluating large language
models},
journal = {CoRR},
volume = {abs/2312.10059},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2312.10059},
doi = {10.48550/ARXIV.2312.10059},
eprinttype = {arXiv},
eprint = {2312.10059},
timestamp = {Mon, 15 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2312-10059.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/OttBS22,
author = {Simon Ott and
Adriano Barbosa{-}Silva and
Matthias Samwald},
title = {LinkExplorer: predicting, explaining and exploring links in large
biomedical knowledge graphs},
journal = {Bioinform.},
volume = {38},
number = {8},
pages = {2371--2373},
year = {2022},
url = {https://doi.org/10.1093/bioinformatics/btac068},
doi = {10.1093/BIOINFORMATICS/BTAC068},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/OttBS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbi/MoradiS22,
author = {Milad Moradi and
Matthias Samwald},
title = {Improving the robustness and accuracy of biomedical language models
through adversarial training},
journal = {J. Biomed. Informatics},
volume = {132},
pages = {104114},
year = {2022},
url = {https://doi.org/10.1016/j.jbi.2022.104114},
doi = {10.1016/J.JBI.2022.104114},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbi/MoradiS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/kais/MemarzadehGSS22,
author = {Hoda Memarzadeh and
Nasser Ghadiri and
Matthias Samwald and
Maryam Lotfi Shahreza},
title = {A study into patient similarity through representation learning from
medical records},
journal = {Knowl. Inf. Syst.},
volume = {64},
number = {12},
pages = {3293--3324},
year = {2022},
url = {https://doi.org/10.1007/s10115-022-01740-2},
doi = {10.1007/S10115-022-01740-2},
timestamp = {Tue, 08 Nov 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/kais/MemarzadehGSS22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nn/BrandmayrHFMSKD22,
author = {Georg Brandmayr and
Manfred Martin Hartmann and
Franz F{\"{u}}rbass and
Gerald Matz and
Matthias Samwald and
Tilmann Kluge and
Georg Dorffner},
title = {Relational local electroencephalography representations for sleep
scoring},
journal = {Neural Networks},
volume = {154},
pages = {310--322},
year = {2022},
url = {https://doi.org/10.1016/j.neunet.2022.07.020},
doi = {10.1016/J.NEUNET.2022.07.020},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nn/BrandmayrHFMSKD22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/FriesWSADGKSKCB22,
author = {Jason A. Fries and
Leon Weber and
Natasha Seelam and
Gabriel Altay and
Debajyoti Datta and
Samuele Garda and
Sunny Kang and
Rosaline Su and
Wojciech Kusa and
Samuel Cahyawijaya and
Fabio Barth and
Simon Ott and
Matthias Samwald and
Stephen H. Bach and
Stella Biderman and
Mario S{\"{a}}nger and
Bo Wang and
Alison Callahan and
Daniel Le{\'{o}}n Peri{\~{n}}{\'{a}}n and
Th{\'{e}}o Gigant and
Patrick Haller and
Jenny Chim and
Jos{\'{e}} D. Posada and
John M. Giorgi and
Karthik Rangasai Sivaraman and
Marc P{\`{a}}mies and
Marianna Nezhurina and
Robert Martin and
Michael Cullan and
Moritz Freidank and
Nathan Dahlberg and
Shubhanshu Mishra and
Shamik Bose and
Nicholas Broad and
Yanis Labrak and
Shlok Deshmukh and
Sid Kiblawi and
Ayush Singh and
Minh Chien Vu and
Trishala Neeraj and
Jonas Golde and
Albert Villanova del Moral and
Benjamin Beilharz},
editor = {Sanmi Koyejo and
S. Mohamed and
A. Agarwal and
Danielle Belgrave and
K. Cho and
A. Oh},
title = {BigBio: {A} Framework for Data-Centric Biomedical Natural Language
Processing},
booktitle = {Advances in Neural Information Processing Systems 35: Annual Conference
on Neural Information Processing Systems 2022, NeurIPS 2022, New Orleans,
LA, USA, November 28 - December 9, 2022},
year = {2022},
url = {http://papers.nips.cc/paper\_files/paper/2022/hash/a583d2197eafc4afdd41f5b8765555c5-Abstract-Datasets\_and\_Benchmarks.html},
timestamp = {Tue, 13 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/nips/FriesWSADGKSKCB22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2201-07040,
author = {Kathrin Blagec and
Jakob Kraiger and
Wolfgang Fr{\"{u}}hwirt and
Matthias Samwald},
title = {Benchmark datasets driving artificial intelligence development fail
to capture the needs of medical professionals},
journal = {CoRR},
volume = {abs/2201.07040},
year = {2022},
url = {https://arxiv.org/abs/2201.07040},
eprinttype = {arXiv},
eprint = {2201.07040},
timestamp = {Fri, 21 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2201-07040.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2202-12678,
author = {Milad Moradi and
Matthias Samwald},
title = {Deep Learning, Natural Language Processing, and Explainable Artificial
Intelligence in the Biomedical Domain},
journal = {CoRR},
volume = {abs/2202.12678},
year = {2022},
url = {https://arxiv.org/abs/2202.12678},
eprinttype = {arXiv},
eprint = {2202.12678},
timestamp = {Wed, 02 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2202-12678.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2203-04592,
author = {Adriano Barbosa{-}Silva and
Simon Ott and
Kathrin Blagec and
Jan Brauner and
Matthias Samwald},
title = {Mapping global dynamics of benchmark creation and saturation in artificial
intelligence},
journal = {CoRR},
volume = {abs/2203.04592},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2203.04592},
doi = {10.48550/ARXIV.2203.04592},
eprinttype = {arXiv},
eprint = {2203.04592},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2203-04592.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2204-11574,
author = {Kathrin Blagec and
Georg Dorffner and
Milad Moradi and
Simon Ott and
Matthias Samwald},
title = {A global analysis of metrics used for measuring performance in natural
language processing},
journal = {CoRR},
volume = {abs/2204.11574},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2204.11574},
doi = {10.48550/ARXIV.2204.11574},
eprinttype = {arXiv},
eprint = {2204.11574},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2204-11574.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2206-15076,
author = {Jason Alan Fries and
Leon Weber and
Natasha Seelam and
Gabriel Altay and
Debajyoti Datta and
Samuele Garda and
Myungsun Kang and
Ruisi Su and
Wojciech Kusa and
Samuel Cahyawijaya and
Fabio Barth and
Simon Ott and
Matthias Samwald and
Stephen H. Bach and
Stella Biderman and
Mario S{\"{a}}nger and
Bo Wang and
Alison Callahan and
Daniel Le{\'{o}}n Peri{\~{n}}{\'{a}}n and
Th{\'{e}}o Gigant and
Patrick Haller and
Jenny Chim and
Jos{\'{e}} David Posada and
John Michael Giorgi and
Karthik Rangasai Sivaraman and
Marc P{\`{a}}mies and
Marianna Nezhurina and
Robert Martin and
Michael Cullan and
Moritz Freidank and
Nathan Dahlberg and
Shubhanshu Mishra and
Shamik Bose and
Nicholas Michio Broad and
Yanis Labrak and
Shlok S. Deshmukh and
Sid Kiblawi and
Ayush Singh and
Minh Chien Vu and
Trishala Neeraj and
Jonas Golde and
Albert Villanova del Moral and
Benjamin Beilharz},
title = {BigBIO: {A} Framework for Data-Centric Biomedical Natural Language
Processing},
journal = {CoRR},
volume = {abs/2206.15076},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2206.15076},
doi = {10.48550/ARXIV.2206.15076},
eprinttype = {arXiv},
eprint = {2206.15076},
timestamp = {Tue, 13 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2206-15076.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/eswa/MoradiS21,
author = {Milad Moradi and
Matthias Samwald},
title = {Post-hoc explanation of black-box classifiers using confident itemsets},
journal = {Expert Syst. Appl.},
volume = {165},
pages = {113941},
year = {2021},
url = {https://doi.org/10.1016/j.eswa.2020.113941},
doi = {10.1016/J.ESWA.2020.113941},
timestamp = {Fri, 14 May 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/eswa/MoradiS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/titb/MoradiS21,
author = {Milad Moradi and
Matthias Samwald},
title = {Explaining Black-Box Models for Biomedical Text Classification},
journal = {{IEEE} J. Biomed. Health Informatics},
volume = {25},
number = {8},
pages = {3112--3120},
year = {2021},
url = {https://doi.org/10.1109/JBHI.2021.3056748},
doi = {10.1109/JBHI.2021.3056748},
timestamp = {Fri, 13 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/titb/MoradiS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/akbc/OttMS21,
author = {Simon Ott and
Christian Meilicke and
Matthias Samwald},
editor = {Danqi Chen and
Jonathan Berant and
Andrew McCallum and
Sameer Singh},
title = {{SAFRAN:} An interpretable, rule-based link prediction method outperforming
embedding models},
booktitle = {3rd Conference on Automated Knowledge Base Construction, {AKBC} 2021,
Virtual, October 4-8, 2021},
year = {2021},
url = {https://doi.org/10.24432/C5MK57},
doi = {10.24432/C5MK57},
timestamp = {Thu, 14 Dec 2023 18:03:42 +0100},
biburl = {https://dblp.org/rec/conf/akbc/OttMS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/emnlp/MoradiS21,
author = {Milad Moradi and
Matthias Samwald},
editor = {Marie{-}Francine Moens and
Xuanjing Huang and
Lucia Specia and
Scott Wen{-}tau Yih},
title = {Evaluating the Robustness of Neural Language Models to Input Perturbations},
booktitle = {Proceedings of the 2021 Conference on Empirical Methods in Natural
Language Processing, {EMNLP} 2021, Virtual Event / Punta Cana, Dominican
Republic, 7-11 November, 2021},
pages = {1558--1570},
publisher = {Association for Computational Linguistics},
year = {2021},
url = {https://doi.org/10.18653/v1/2021.emnlp-main.117},
doi = {10.18653/V1/2021.EMNLP-MAIN.117},
timestamp = {Fri, 16 Feb 2024 08:27:36 +0100},
biburl = {https://dblp.org/rec/conf/emnlp/MoradiS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2108-12237,
author = {Milad Moradi and
Matthias Samwald},
title = {Evaluating the Robustness of Neural Language Models to Input Perturbations},
journal = {CoRR},
volume = {abs/2108.12237},
year = {2021},
url = {https://arxiv.org/abs/2108.12237},
eprinttype = {arXiv},
eprint = {2108.12237},
timestamp = {Thu, 02 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2108-12237.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2108-12242,
author = {Milad Moradi and
Kathrin Blagec and
Matthias Samwald},
title = {Deep learning models are not robust against noise in clinical text},
journal = {CoRR},
volume = {abs/2108.12242},
year = {2021},
url = {https://arxiv.org/abs/2108.12242},
eprinttype = {arXiv},
eprint = {2108.12242},
timestamp = {Thu, 02 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2108-12242.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2109-02555,
author = {Milad Moradi and
Kathrin Blagec and
Florian Haberl and
Matthias Samwald},
title = {{GPT-3} Models are Poor Few-Shot Learners in the Biomedical Domain},
journal = {CoRR},
volume = {abs/2109.02555},
year = {2021},
url = {https://arxiv.org/abs/2109.02555},
eprinttype = {arXiv},
eprint = {2109.02555},
timestamp = {Mon, 20 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2109-02555.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2109-08002,
author = {Simon Ott and
Christian Meilicke and
Matthias Samwald},
title = {{SAFRAN:} An interpretable, rule-based link prediction method outperforming
embedding models},
journal = {CoRR},
volume = {abs/2109.08002},
year = {2021},
url = {https://arxiv.org/abs/2109.08002},
eprinttype = {arXiv},
eprint = {2109.08002},
timestamp = {Wed, 22 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2109-08002.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2110-01434,
author = {Kathrin Blagec and
Adriano Barbosa{-}Silva and
Simon Ott and
Matthias Samwald},
title = {A curated, ontology-based, large-scale knowledge graph of artificial
intelligence tasks and benchmarks},
journal = {CoRR},
volume = {abs/2110.01434},
year = {2021},
url = {https://arxiv.org/abs/2110.01434},
eprinttype = {arXiv},
eprint = {2110.01434},
timestamp = {Fri, 08 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2110-01434.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2110-15708,
author = {Kathrin Blagec and
Hong Xu and
Asan Agibetov and
Matthias Samwald},
title = {Neural sentence embedding models for semantic similarity estimation
in the biomedical domain},
journal = {CoRR},
volume = {abs/2110.15708},
year = {2021},
url = {https://arxiv.org/abs/2110.15708},
eprinttype = {arXiv},
eprint = {2110.15708},
timestamp = {Mon, 13 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2110-15708.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2111-08529,
author = {Milad Moradi and
Matthias Samwald},
title = {Improving the robustness and accuracy of biomedical language models
through adversarial training},
journal = {CoRR},
volume = {abs/2111.08529},
year = {2021},
url = {https://arxiv.org/abs/2111.08529},
eprinttype = {arXiv},
eprint = {2111.08529},
timestamp = {Mon, 22 Nov 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2111-08529.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BreitOAS20,
author = {Anna Breit and
Simon Ott and
Asan Agibetov and
Matthias Samwald},
title = {OpenBioLink: a benchmarking framework for large-scale biomedical link
prediction},
journal = {Bioinform.},
volume = {36},
number = {13},
pages = {4097--4098},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btaa274},
doi = {10.1093/BIOINFORMATICS/BTAA274},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/BreitOAS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cmpb/MoradiDS20,
author = {Milad Moradi and
Georg Dorffner and
Matthias Samwald},
title = {Deep contextualized embeddings for quantifying the informative content
in biomedical text summarization},
journal = {Comput. Methods Programs Biomed.},
volume = {184},
pages = {105117},
year = {2020},
url = {https://doi.org/10.1016/j.cmpb.2019.105117},
doi = {10.1016/J.CMPB.2019.105117},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cmpb/MoradiDS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbi/MoradiDS20,
author = {Milad Moradi and
Maedeh Dashti and
Matthias Samwald},
title = {Summarization of biomedical articles using domain-specific word embeddings
and graph ranking},
journal = {J. Biomed. Informatics},
volume = {107},
pages = {103452},
year = {2020},
url = {https://doi.org/10.1016/j.jbi.2020.103452},
doi = {10.1016/J.JBI.2020.103452},
timestamp = {Sun, 06 Oct 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbi/MoradiDS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ws/AgibetovS20,
author = {Asan Agibetov and
Matthias Samwald},
title = {Benchmarking neural embeddings for link prediction in knowledge graphs
under semantic and structural changes},
journal = {J. Web Semant.},
volume = {64},
pages = {100590},
year = {2020},
url = {https://doi.org/10.1016/j.websem.2020.100590},
doi = {10.1016/J.WEBSEM.2020.100590},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ws/AgibetovS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ecai/Jimenez-RuizACS20,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Jiaoyan Chen and
Matthias Samwald and
Valerie Cross},
editor = {Giuseppe De Giacomo and
Alejandro Catal{\'{a}} and
Bistra Dilkina and
Michela Milano and
Sen{\'{e}}n Barro and
Alberto Bugar{\'{\i}}n and
J{\'{e}}r{\^{o}}me Lang},
title = {Dividing the Ontology Alignment Task with Semantic Embeddings and
Logic-Based Modules},
booktitle = {{ECAI} 2020 - 24th European Conference on Artificial Intelligence,
29 August-8 September 2020, Santiago de Compostela, Spain, August
29 - September 8, 2020 - Including 10th Conference on Prestigious
Applications of Artificial Intelligence {(PAIS} 2020)},
series = {Frontiers in Artificial Intelligence and Applications},
volume = {325},
pages = {784--791},
publisher = {{IOS} Press},
year = {2020},
url = {https://doi.org/10.3233/FAIA200167},
doi = {10.3233/FAIA200167},
timestamp = {Mon, 03 Jun 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ecai/Jimenez-RuizACS20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2003-05370,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Jiaoyan Chen and
Matthias Samwald and
Valerie Cross},
title = {Dividing the Ontology Alignment Task with Semantic Embeddings and
Logic-based Modules},
journal = {CoRR},
volume = {abs/2003.05370},
year = {2020},
url = {https://arxiv.org/abs/2003.05370},
eprinttype = {arXiv},
eprint = {2003.05370},
timestamp = {Mon, 03 Jun 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2003-05370.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2005-01992,
author = {Milad Moradi and
Matthias Samwald},
title = {Post-hoc explanation of black-box classifiers using confident itemsets},
journal = {CoRR},
volume = {abs/2005.01992},
year = {2020},
url = {https://arxiv.org/abs/2005.01992},
eprinttype = {arXiv},
eprint = {2005.01992},
timestamp = {Fri, 08 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2005-01992.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2005-07654,
author = {Asan Agibetov and
Matthias Samwald},
title = {Benchmarking neural embeddings for link prediction in knowledge graphs
under semantic and structural changes},
journal = {CoRR},
volume = {abs/2005.07654},
year = {2020},
url = {https://arxiv.org/abs/2005.07654},
eprinttype = {arXiv},
eprint = {2005.07654},
timestamp = {Fri, 22 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2005-07654.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2008-02577,
author = {Kathrin Blagec and
Georg Dorffner and
Milad Moradi and
Matthias Samwald},
title = {A critical analysis of metrics used for measuring progress in artificial
intelligence},
journal = {CoRR},
volume = {abs/2008.02577},
year = {2020},
url = {https://arxiv.org/abs/2008.02577},
eprinttype = {arXiv},
eprint = {2008.02577},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2008-02577.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2010-10873,
author = {Milad Moradi and
Matthias Samwald},
title = {Explaining black-box text classifiers for disease-treatment information
extraction},
journal = {CoRR},
volume = {abs/2010.10873},
year = {2020},
url = {https://arxiv.org/abs/2010.10873},
eprinttype = {arXiv},
eprint = {2010.10873},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2010-10873.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2012-05750,
author = {Simon Ott and
Laura Graf and
Asan Agibetov and
Christian Meilicke and
Matthias Samwald},
title = {Scalable and interpretable rule-based link prediction for large heterogeneous
knowledge graphs},
journal = {CoRR},
volume = {abs/2012.05750},
year = {2020},
url = {https://arxiv.org/abs/2012.05750},
eprinttype = {arXiv},
eprint = {2012.05750},
timestamp = {Mon, 18 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2012-05750.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2012-10928,
author = {Milad Moradi and
Matthias Samwald},
title = {Explaining Black-box Models for Biomedical Text Classification},
journal = {CoRR},
volume = {abs/2012.10928},
year = {2020},
url = {https://arxiv.org/abs/2012.10928},
eprinttype = {arXiv},
eprint = {2012.10928},
timestamp = {Mon, 04 Jan 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2012-10928.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BlagecXAS19,
author = {Kathrin Blagec and
Hong Xu and
Asan Agibetov and
Matthias Samwald},
title = {Neural sentence embedding models for semantic similarity estimation
in the biomedical domain},
journal = {{BMC} Bioinform.},
volume = {20},
number = {1},
pages = {178:1--178:10},
year = {2019},
url = {https://doi.org/10.1186/s12859-019-2789-2},
doi = {10.1186/S12859-019-2789-2},
timestamp = {Mon, 13 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/BlagecXAS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/semdeep/AgibetovDS19,
author = {Asan Agibetov and
Georg Dorffner and
Matthias Samwald},
editor = {Luis Espinosa Anke and
Thierry Declerck and
Dagmar Gromann and
Jos{\'{e}} Camacho{-}Collados and
Mohammad Taher Pilehvar},
title = {Using hyperbolic large-margin classifiers for biological link prediction},
booktitle = {Proceedings of the 5th Workshop on Semantic Deep Learning, SemDeep@IJCAI
2019, Macau, China, August 12, 2019},
pages = {26--30},
publisher = {Association for Computational Linguistics},
year = {2019},
url = {https://aclanthology.org/W19-5805/},
timestamp = {Fri, 06 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/semdeep/AgibetovDS19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@misc{DBLP:data/10/JimenezRuizACSC19,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Jiaoyan Chen and
Matthias Samwald and
Valerie Cross},
title = {Dividing the Ontology Alignment Task (Version November 2019 - v.2)},
publisher = {Zenodo},
year = {2019},
month = nov,
howpublished = {\url{https://doi.org/10.5281/zenodo.3547888}},
note = {Accessed on YYYY-MM-DD.},
url = {https://doi.org/10.5281/zenodo.3547888},
doi = {10.5281/ZENODO.3547888},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/data/10/JimenezRuizACSC19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1908-02286,
author = {Milad Moradi and
Matthias Samwald},
title = {Clustering of Deep Contextualized Representations for Summarization
of Biomedical Texts},
journal = {CoRR},
volume = {abs/1908.02286},
year = {2019},
url = {http://arxiv.org/abs/1908.02286},
eprinttype = {arXiv},
eprint = {1908.02286},
timestamp = {Fri, 09 Aug 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1908-02286.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1912-04616,
author = {Anna Breit and
Asan Agibetov and
Matthias Samwald},
title = {OpenBioLink: {A} resource and benchmarking framework for large-scale
biomedical link prediction},
journal = {CoRR},
volume = {abs/1912.04616},
year = {2019},
url = {http://arxiv.org/abs/1912.04616},
eprinttype = {arXiv},
eprint = {1912.04616},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1912-04616.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AgibetovBXS18,
author = {Asan Agibetov and
Kathrin Blagec and
Hong Xu and
Matthias Samwald},
title = {Fast and scalable neural embedding models for biomedical sentence
classification},
journal = {{BMC} Bioinform.},
volume = {19},
number = {1},
pages = {541:1--541:9},
year = {2018},
url = {https://doi.org/10.1186/s12859-018-2496-4},
doi = {10.1186/S12859-018-2496-4},
timestamp = {Mon, 13 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/AgibetovBXS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/BlagecKRHWKXSJS18,
author = {Kathrin Blagec and
Rudolf Koopmann and
Mandy Crommentuijn{-}van Rhenen and
Inge Holsappel and
Cathelijne H. van der Wouden and
Lidija Konta and
Hong Xu and
Daniela Steinberger and
Enrico Just and
Jesse J. Swen and
Henk{-}Jan Guchelaar and
Matthias Samwald},
title = {Implementing pharmacogenomics decision support across seven European
countries: The Ubiquitous Pharmacogenomics (U-PGx) project},
journal = {J. Am. Medical Informatics Assoc.},
volume = {25},
number = {7},
pages = {893--898},
year = {2018},
url = {https://doi.org/10.1093/jamia/ocy005},
doi = {10.1093/JAMIA/OCY005},
timestamp = {Mon, 13 May 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/BlagecKRHWKXSJS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ehealth2/BlagecJHS18,
author = {Kathrin Blagec and
David Jungwirth and
Daniela Haluza and
Matthias Samwald},
editor = {G{\"{u}}nter Schreier and
Dieter Hayn},
title = {Effects of Medical Device Regulations on the Development of Stand-Alone
Medical Software: {A} Pilot Study},
booktitle = {Health Informatics Meets eHealth - Biomedical Meets eHealth - From
Sensors to Decisions - Proceedings of the 12th eHealth Conference,
eHealth 2018, Vienna, Austria, May 2018},
series = {Studies in Health Technology and Informatics},
volume = {248},
pages = {180--187},
publisher = {{IOS} Press},
year = {2018},
url = {https://doi.org/10.3233/978-1-61499-858-7-180},
doi = {10.3233/978-1-61499-858-7-180},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ehealth2/BlagecJHS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/esws/AgibetovS18,
author = {Asan Agibetov and
Matthias Samwald},
editor = {Michael Cochez and
Thierry Declerck and
Gerard de Melo and
Luis Espinosa Anke and
Besnik Fetahu and
Dagmar Gromann and
Mayank Kejriwal and
Maria Koutraki and
Freddy L{\'{e}}cu{\'{e}} and
Enrico Palumbo and
Harald Sack},
title = {Fast and Scalable Learning of Neuro-Symbolic Representations of Biomedical
Knowledge},
booktitle = {Proceedings of the First Workshop on Deep Learning for Knowledge Graphs
and Semantic Technologies {(DL4KGS)} co-located with the 15th Extended
Semantic Web Conerence {(ESWC} 2018), Heraklion, Crete, Greece, June
4, 2018},
series = {{CEUR} Workshop Proceedings},
volume = {2106},
pages = {62--71},
publisher = {CEUR-WS.org},
year = {2018},
url = {https://ceur-ws.org/Vol-2106/paper8.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:14 +0100},
biburl = {https://dblp.org/rec/conf/esws/AgibetovS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/semweb/AgibetovS18,
author = {Asan Agibetov and
Matthias Samwald},
editor = {Key{-}Sun Choi and
Luis Espinosa Anke and
Thierry Declerck and
Dagmar Gromann and
Jin{-}Dong Kim and
Axel{-}Cyrille Ngonga Ngomo and
Muhammad Saleem and
Ricardo Usbeck},
title = {Global and Local Evaluation of Link Prediction Tasks with Neural Embeddings},
booktitle = {Joint proceedings of the 4th Workshop on Semantic Deep Learning (SemDeep-4)
and NLIWoD4: Natural Language Interfaces for the Web of Data {(NLIWOD-4)}
and 9th Question Answering over Linked Data challenge {(QALD-9)} co-located
with 17th International Semantic Web Conference {(ISWC} 2018), Monterey,
California, United States of America, October 8th - 9th, 2018},
series = {{CEUR} Workshop Proceedings},
volume = {2241},
pages = {89--102},
publisher = {CEUR-WS.org},
year = {2018},
url = {https://ceur-ws.org/Vol-2241/paper-09.pdf},
timestamp = {Mon, 26 Jun 2023 20:39:39 +0200},
biburl = {https://dblp.org/rec/conf/semweb/AgibetovS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/semweb/Jimenez-RuizASC18,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Matthias Samwald and
Valerie Cross},
editor = {Marieke van Erp and
Medha Atre and
Vanessa L{\'{o}}pez and
Kavitha Srinivas and
Carolina Fortuna},
title = {We Divide, You Conquer: From Large-scale Ontology Alignment to Manageable
Subtasks with a Lexical Index and Neural Embeddings},
booktitle = {Proceedings of the {ISWC} 2018 Posters {\&} Demonstrations, Industry
and Blue Sky Ideas Tracks co-located with 17th International Semantic
Web Conference {(ISWC} 2018), Monterey, USA, October 8th - to - 12th,
2018},
series = {{CEUR} Workshop Proceedings},
volume = {2180},
publisher = {CEUR-WS.org},
year = {2018},
url = {https://ceur-ws.org/Vol-2180/paper-28.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:03 +0100},
biburl = {https://dblp.org/rec/conf/semweb/Jimenez-RuizASC18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/semweb/Jimenez-RuizASC18a,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Matthias Samwald and
Valerie Cross},
editor = {Pavel Shvaiko and
J{\'{e}}r{\^{o}}me Euzenat and
Ernesto Jim{\'{e}}nez{-}Ruiz and
Michelle Cheatham and
Oktie Hassanzadeh},
title = {We divide, you conquer: from large-scale ontology alignment to manageable
subtasks with a lexical index and neural embeddings},
booktitle = {Proceedings of the 13th International Workshop on Ontology Matching
co-located with the 17th International Semantic Web Conference, OM@ISWC
2018, Monterey, CA, USA, October 8, 2018},
series = {{CEUR} Workshop Proceedings},
volume = {2288},
pages = {13--24},
publisher = {CEUR-WS.org},
year = {2018},
url = {https://ceur-ws.org/Vol-2288/om2018\_LTpaper2.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:03 +0100},
biburl = {https://dblp.org/rec/conf/semweb/Jimenez-RuizASC18a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@misc{DBLP:data/10/JimenezRuizACSC18,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Jiaoyan Chen and
Matthias Samwald and
Valerie Cross},
title = {Dividing the Ontology Alignment Task (Version April 2018 (v.1))},
publisher = {Zenodo},
year = {2018},
month = apr,
howpublished = {\url{https://doi.org/10.5281/zenodo.1214149}},
note = {Accessed on YYYY-MM-DD.},
url = {https://doi.org/10.5281/zenodo.1214149},
doi = {10.5281/ZENODO.1214149},
timestamp = {Thu, 29 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/data/10/JimenezRuizACSC18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1804-11105,
author = {Asan Agibetov and
Matthias Samwald},
title = {Fast and scalable learning of neuro-symbolic representations of biomedical
knowledge},
journal = {CoRR},
volume = {abs/1804.11105},
year = {2018},
url = {http://arxiv.org/abs/1804.11105},
eprinttype = {arXiv},
eprint = {1804.11105},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1804-11105.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1805-12402,
author = {Ernesto Jim{\'{e}}nez{-}Ruiz and
Asan Agibetov and
Matthias Samwald and
Valerie Cross},
title = {Breaking-down the Ontology Alignment Task with a Lexical Index and
Neural Embeddings},
journal = {CoRR},
volume = {abs/1805.12402},
year = {2018},
url = {http://arxiv.org/abs/1805.12402},
eprinttype = {arXiv},
eprint = {1805.12402},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1805-12402.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1807-10511,
author = {Asan Agibetov and
Matthias Samwald},
title = {Global and local evaluation of link prediction tasks with neural embeddings},
journal = {CoRR},
volume = {abs/1807.10511},
year = {2018},
url = {http://arxiv.org/abs/1807.10511},
eprinttype = {arXiv},
eprint = {1807.10511},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1807-10511.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ehealth2/BlagecKS17,
author = {Kathrin Blagec and
Wolfgang Kuch and
Matthias Samwald},
editor = {Dieter Hayn and
G{\"{u}}nter Schreier},
title = {The Importance of Gene-Drug-Drug-Interactions in Pharmacogenomics
Decision Support: An Analysis Based on Austrian Claims Data},
booktitle = {Health Informatics Meets eHealth - Digital Insight - Information-Driven
Health {\&} Care - Proceedings of the 11th eHealth2017 Conference,
eHealth 2017, Vienna, Austria, May 2017},
series = {Studies in Health Technology and Informatics},
volume = {236},
pages = {121--127},
publisher = {{IOS} Press},
year = {2017},
url = {https://doi.org/10.3233/978-1-61499-759-7-121},
doi = {10.3233/978-1-61499-759-7-121},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ehealth2/BlagecKS17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ehealth2/KuchRGS16,
author = {Wolfgang Kuch and
Christoph Rinner and
Walter Gall and
Matthias Samwald},
editor = {G{\"{u}}nter Schreier and
Elske Ammenwerth and
Alexander H{\"{o}}rbst and
Dieter Hayn},
title = {How Many Patients Could Benefit From Pre-emptive Pharmacogenomic Testing
and Decision Support? {A} Retrospective Study Based on Nationwide
Austrian Claims Data},
booktitle = {Health Informatics Meets eHealth - Predictive Modeling in Healthcare
- From Prediction to Prevention - Proceedings of the 10th eHealth2016
Conference, eHealth 2016, Vienna, Austria, May 2016},
series = {Studies in Health Technology and Informatics},
volume = {223},
pages = {253--258},
publisher = {{IOS} Press},
year = {2016},
url = {https://doi.org/10.3233/978-1-61499-645-3-253},
doi = {10.3233/978-1-61499-645-3-253},
timestamp = {Mon, 14 Mar 2022 17:10:13 +0100},
biburl = {https://dblp.org/rec/conf/ehealth2/KuchRGS16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbi/AyvazHHZSTVBSRD15,
author = {Serkan Ayvaz and
John R. Horn and
Oktie Hassanzadeh and
Qian Zhu and
Johann Stan and
Nicholas P. Tatonetti and
Santiago Vilar and
Mathias Brochhausen and
Matthias Samwald and
Majid Rastegar{-}Mojarad and
Michel Dumontier and
Richard D. Boyce},
title = {Toward a complete dataset of drug-drug interaction information from
publicly available sources},
journal = {J. Biomed. Informatics},
volume = {55},
pages = {206--217},
year = {2015},
url = {https://doi.org/10.1016/j.jbi.2015.04.006},
doi = {10.1016/J.JBI.2015.04.006},
timestamp = {Mon, 21 Feb 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jbi/AyvazHHZSTVBSRD15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/midm/SamwaldGBFAD15,
author = {Matthias Samwald and
Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Richard D. Boyce and
Robert R. Freimuth and
Klaus{-}Peter Adlassnig and
Michel Dumontier},
title = {Pharmacogenomic knowledge representation, reasoning and genome-based
clinical decision support based on {OWL} 2 {DL} ontologies},
journal = {{BMC} Medical Informatics Decis. Mak.},
volume = {15},
pages = {12},
year = {2015},
url = {https://doi.org/10.1186/s12911-015-0130-1},
doi = {10.1186/S12911-015-0130-1},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/midm/SamwaldGBFAD15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/Minarro-Gimenez15,
author = {Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Oscar Mar{\'{\i}}n{-}Alonso and
Matthias Samwald},
title = {Applying deep learning techniques on medical corpora from the World
Wide Web: a prototypical system and evaluation},
journal = {CoRR},
volume = {abs/1502.03682},
year = {2015},
url = {http://arxiv.org/abs/1502.03682},
eprinttype = {arXiv},
eprint = {1502.03682},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/Minarro-Gimenez15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/DumontierBBCCCRDFKKMQSVWH14,
author = {Michel Dumontier and
Christopher J. O. Baker and
Joachim Baran and
Alison Callahan and
Leonid L. Chepelev and
Jose Cruz{-}Toledo and
Nicholas R. Del Rio and
Geraint Duck and
Laura In{\'{e}}s Furlong and
Nichealla Keath and
Dana Klassen and
Jamie P. McCusker and
N{\'{u}}ria Queralt{-}Rosinach and
Matthias Samwald and
Natalia Villanueva{-}Rosales and
Mark D. Wilkinson and
Robert Hoehndorf},
title = {The Semanticscience Integrated Ontology {(SIO)} for biomedical research
and knowledge discovery},
journal = {J. Biomed. Semant.},
volume = {5},
pages = {14},
year = {2014},
url = {https://doi.org/10.1186/2041-1480-5-14},
doi = {10.1186/2041-1480-5-14},
timestamp = {Thu, 16 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biomedsem/DumontierBBCCCRDFKKMQSVWH14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ehealth2/SamwaldMBA14,
author = {Matthias Samwald and
Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Kathrin Blagec and
Klaus{-}Peter Adlassnig},
editor = {Alexander H{\"{o}}rbst and
Dieter Hayn and
G{\"{u}}nter Schreier and
Elske Ammenwerth},
title = {Towards a Global {IT} System for Personalized Medicine: the Medicine
Safety Code Initiative},
booktitle = {Health Informatics Meets eHealth - Outcomes Research: The Benefit
of Health-IT, eHealth2014, Vienna, Austria, April 22-23, 2014},
series = {Studies in Health Technology and Informatics},
volume = {198},
pages = {25--31},
publisher = {{IOS} Press},
year = {2014},
url = {https://doi.org/10.3233/978-1-61499-397-1-25},
doi = {10.3233/978-1-61499-397-1-25},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ehealth2/SamwaldMBA14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/SamwaldMBA14,
author = {Matthias Samwald and
Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Kathrin Blagec and
Klaus{-}Peter Adlassnig},
editor = {Christian Lovis and
Brigitte S{\'{e}}roussi and
Arie Hasman and
Louise Pape{-}Haugaard and
Osman Saka and
Stig Kj{\ae}r Andersen},
title = {Towards a global {IT} system for personalized medicine: the Medicine
Safety Code initiative},
booktitle = {e-Health - For Continuity of Care - Proceedings of MIE2014, the 25th
European Medical Informatics Conference, Istanbul, Turkey, August
31 - September 3, 2014},
series = {Studies in Health Technology and Informatics},
volume = {205},
pages = {261--265},
publisher = {{IOS} Press},
year = {2014},
url = {https://doi.org/10.3233/978-1-61499-432-9-261},
doi = {10.3233/978-1-61499-432-9-261},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/SamwaldMBA14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/SamwaldH14,
author = {Matthias Samwald and
Allan Hanbury},
editor = {Christian Lovis and
Brigitte S{\'{e}}roussi and
Arie Hasman and
Louise Pape{-}Haugaard and
Osman Saka and
Stig Kj{\ae}r Andersen},
title = {An Open-Source, Mobile-Friendly Search Engine for Public Medical Knowledge},
booktitle = {e-Health - For Continuity of Care - Proceedings of MIE2014, the 25th
European Medical Informatics Conference, Istanbul, Turkey, August
31 - September 3, 2014},
series = {Studies in Health Technology and Informatics},
volume = {205},
pages = {358--362},
publisher = {{IOS} Press},
year = {2014},
url = {https://doi.org/10.3233/978-1-61499-432-9-358},
doi = {10.3233/978-1-61499-432-9-358},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/SamwaldH14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/Minarro-GimenezMS14,
author = {Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Oscar Mar{\'{\i}}n{-}Alonso and
Matthias Samwald},
editor = {Christian Lovis and
Brigitte S{\'{e}}roussi and
Arie Hasman and
Louise Pape{-}Haugaard and
Osman Saka and
Stig Kj{\ae}r Andersen},
title = {Exploring the Application of Deep Learning Techniques on Medical Text
Corpora},
booktitle = {e-Health - For Continuity of Care - Proceedings of MIE2014, the 25th
European Medical Informatics Conference, Istanbul, Turkey, August
31 - September 3, 2014},
series = {Studies in Health Technology and Informatics},
volume = {205},
pages = {584--588},
publisher = {{IOS} Press},
year = {2014},
url = {https://doi.org/10.3233/978-1-61499-432-9-584},
doi = {10.3233/978-1-61499-432-9-584},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/Minarro-GimenezMS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/BruinMSM14,
author = {Jeroen S. de Bruin and
Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Matthias Samwald and
Oscar Mar{\'{\i}}n{-}Alonso},
editor = {Christian Lovis and
Brigitte S{\'{e}}roussi and
Arie Hasman and
Louise Pape{-}Haugaard and
Osman Saka and
Stig Kj{\ae}r Andersen},
title = {Visualising topic networks in infection control using word vector
analysis},
booktitle = {e-Health - For Continuity of Care - Proceedings of MIE2014, the 25th
European Medical Informatics Conference, Istanbul, Turkey, August
31 - September 3, 2014},
series = {Studies in Health Technology and Informatics},
volume = {205},
pages = {1227},
publisher = {{IOS} Press},
year = {2014},
timestamp = {Sat, 11 Oct 2014 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/BruinMSM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ore/Minarro-Gimenez14,
author = {Jos{\'{e}} Antonio Mi{\~{n}}arro{-}Gim{\'{e}}nez and
Matthias Samwald},
editor = {Samantha Bail and
Birte Glimm and
Ernesto Jim{\'{e}}nez{-}Ruiz and
Nicolas Matentzoglu and
Bijan Parsia and
Andreas Steigmiller},
title = {An Update on Genomic CDS, a Complex Ontology for Pharmacogenomics
and Clinical Decision Support},
booktitle = {Informal Proceedings of the 3rd International Workshop on {OWL} Reasoner
Evaluation {(ORE} 2014) co-located with the Vienna Summer of Logic
{(VSL} 2014), Vienna, Austria, July 13, 2014},
series = {{CEUR} Workshop Proceedings},
volume = {1207},
pages = {58--63},
publisher = {CEUR-WS.org},
year = {2014},
url = {https://ceur-ws.org/Vol-1207/paper\_4.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:01 +0100},
biburl = {https://dblp.org/rec/conf/ore/Minarro-Gimenez14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jamia/SamwaldA13,
author = {Matthias Samwald and
Klaus{-}Peter Adlassnig},
title = {Pharmacogenomics in the pocket of every patient? {A} prototype based
on quick response codes},
journal = {J. Am. Medical Informatics Assoc.},
volume = {20},
number = {3},
pages = {409--412},
year = {2013},
url = {https://doi.org/10.1136/amiajnl-2012-001275},
doi = {10.1136/AMIAJNL-2012-001275},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jamia/SamwaldA13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/clef/StefanovSKSGH13,
author = {Veronika Stefanov and
Alexander Sachs and
Marlene Kritz and
Matthias Samwald and
Manfred Gschwandtner and
Allan Hanbury},
editor = {Pamela Forner and
Henning M{\"{u}}ller and
Roberto Paredes and
Paolo Rosso and
Benno Stein},
title = {A Formative Evaluation of a Comprehensive Search System for Medical
Professionals},
booktitle = {Information Access Evaluation. Multilinguality, Multimodality, and
Visualization - 4th International Conference of the {CLEF} Initiative,
{CLEF} 2013, Valencia, Spain, September 23-26, 2013. Proceedings},
series = {Lecture Notes in Computer Science},
volume = {8138},
pages = {81--92},
publisher = {Springer},
year = {2013},
url = {https://doi.org/10.1007/978-3-642-40802-1\_10},
doi = {10.1007/978-3-642-40802-1\_10},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/clef/StefanovSKSGH13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/medinfo/SamwaldFLLPMADB13,
author = {Matthias Samwald and
Robert R. Freimuth and
Joanne S. Luciano and
Simon M. Lin and
Robert L. Powers and
M. Scott Marshall and
Klaus{-}Peter Adlassnig and
Michel Dumontier and
Richard D. Boyce},
editor = {Christoph Ulrich Lehmann and
Elske Ammenwerth and
Christian N{\o}hr},
title = {An {RDF/OWL} Knowledge Base for Query Answering and Decision Support
in Clinical Pharmacogenetics},
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 = {539--542},
publisher = {{IOS} Press},
year = {2013},
url = {https://doi.org/10.3233/978-1-61499-289-9-539},
doi = {10.3233/978-1-61499-289-9-539},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/medinfo/SamwaldFLLPMADB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/medinfo/SamwaldKGSH13,
author = {Matthias Samwald and
Marlene Kritz and
Manfred Gschwandtner and
Veronika Stefanov and
Allan Hanbury},
editor = {Christoph Ulrich Lehmann and
Elske Ammenwerth and
Christian N{\o}hr},
title = {Physicians searching the web for medical question answering: {A} European
survey and local user studies},
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 = {1103},
publisher = {{IOS} Press},
year = {2013},
url = {https://doi.org/10.3233/978-1-61499-289-9-1103},
doi = {10.3233/978-1-61499-289-9-1103},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/medinfo/SamwaldKGSH13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/medinfo/AswaniBB13,
author = {Niraj Aswani and
Thomas Beckers and
Erich Birngruber and
C{\'{e}}lia Boyer and
Andreas Burner and
Jakub Bystron and
Khalid Choukri and
Sarah Cruchet and
Hamish Cunningham and
Jan Dedek and
Ljiljana Dolamic and
Ren{\'{e}} Donner and
Sebastian Dungs and
Ivan Eggel and
Antonio Foncubierta{-}Rodr{\'{\i}}guez and
Norbert Fuhr and
Adam Funk and
Alba Garcia Seco de Herrera and
Arnaud Gaudinat and
Georgi Georgiev and
Julien Gobeill and
Lorraine Goeuriot and
Paz Gomez and
Robert Mark Greenwood and
Manfred Gschwandtner and
Allan Hanbury and
Jan Hajic and
Jaroslava Hlav{\'{a}}cov{\'{a}} and
Markus Holzer and
Gareth J. F. Jones and
Blanca Jordan and
Matthias Jordan and
Klemens Kaderk and
Franz Kainberger and
Liadh Kelly and
Sascha Kriewel and
Marlene Kritz and
Georg Langs and
Nolan Lawson and
Dimitrios Markonis and
Iv{\'{a}}n Mart{\'{\i}}nez and
Vassil Momtchev and
Alexandre Masselot and
H{\'{e}}l{\`{e}}ne Mazo and
Henning M{\"{u}}ller and
Jo{\~{a}}o R. M. Palotti and
Pavel Pecina and
Konstantin Pentchev and
Deyan Peychev and
Natalia Pletneva and
Diana Pottecher and
Angus Roberts and
Patrick Ruch and
Alexander Sachs and
Matthias Samwald and
Priscille Schneller and
Veronika Stefanov and
Miguel Angel Tinte and
Zdenka Uresov{\'{a}} and
Alejandro Vargas and
Dina Vishnyakova},
editor = {Christoph Ulrich Lehmann and
Elske Ammenwerth and
Christian N{\o}hr},
title = {Khresmoi - Multilingual Semantic Search of Medical Text and Images},
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 = {1266},
publisher = {{IOS} Press},
year = {2013},
timestamp = {Tue, 16 Nov 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/medinfo/AswaniBB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ore/Samwald13,
author = {Matthias Samwald},
editor = {Samantha Bail and
Birte Glimm and
Rafael S. Gon{\c{c}}alves and
Ernesto Jim{\'{e}}nez{-}Ruiz and
Yevgeny Kazakov and
Nicolas Matentzoglu and
Bijan Parsia},
title = {Genomic {CDS:} an Example of a Complex Ontology for Pharmacogenetics
and Clinical Decision Support},
booktitle = {Informal Proceedings of the 2nd International Workshop on {OWL} Reasoner
Evaluation (ORE-2013), Ulm, Germany, July 22, 2013},
series = {{CEUR} Workshop Proceedings},
volume = {1015},
pages = {128--133},
publisher = {CEUR-WS.org},
year = {2013},
url = {https://ceur-ws.org/Vol-1015/paper\_12.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:01 +0100},
biburl = {https://dblp.org/rec/conf/ore/Samwald13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbi/SamwaldFBA12,
author = {Matthias Samwald and
Karsten Fehre and
Jeroen S. de Bruin and
Klaus{-}Peter Adlassnig},
title = {The Arden Syntax standard for clinical decision support: Experiences
and directions},
journal = {J. Biomed. Informatics},
volume = {45},
number = {4},
pages = {711--718},
year = {2012},
url = {https://doi.org/10.1016/j.jbi.2012.02.001},
doi = {10.1016/J.JBI.2012.02.001},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbi/SamwaldFBA12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ws/MarshallBDZWSPHPS12,
author = {M. Scott Marshall and
Richard D. Boyce and
Helena F. Deus and
Jun Zhao and
Egon L. Willighagen and
Matthias Samwald and
Elgar Pichler and
Janos G. Hajagos and
Eric Prud'hommeaux and
Susie Stephens},
title = {Emerging practices for mapping and linking life sciences data using
{RDF} - {A} case series},
journal = {J. Web Semant.},
volume = {14},
pages = {2--13},
year = {2012},
url = {https://doi.org/10.1016/j.websem.2012.02.003},
doi = {10.1016/J.WEBSEM.2012.02.003},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ws/MarshallBDZWSPHPS12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/LucianoABBCDDGHJKKKLMMMOPPPSSTWZSD11,
author = {Joanne S. Luciano and
Bosse Andersson and
Colin R. Batchelor and
Olivier Bodenreider and
Tim Clark and
Christine K. Denney and
Christopher Domarew and
Thomas Gambet and
Lee Harland and
Anja Jentzsch and
Vipul Kashyap and
Peter J. Kos and
Julia Kozlovsky and
Timothy Lebo and
M. Scott Marshall and
Jamie P. McCusker and
Deborah L. McGuinness and
Chimezie Ogbuji and
Elgar Pichler and
Robert L. Powers and
Eric Prud'hommeaux and
Matthias Samwald and
Lynn M. Schriml and
Peter J. Tonellato and
Patricia L. Whetzel and
Jun Zhao and
Susie Stephens and
Michel Dumontier},
title = {The Translational Medicine Ontology and Knowledge Base: driving personalized
medicine by bridging the gap between bench and bedside},
journal = {J. Biomed. Semant.},
volume = {2},
number = {{S-2}},
pages = {S1},
year = {2011},
url = {http://www.jbiomedsem.com/content/2/S2/S1},
timestamp = {Thu, 16 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biomedsem/LucianoABBCDDGHJKKKLMMMOPPPSSTWZSD11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcheminf/SamwaldJBKWHMPHPS11,
author = {Matthias Samwald and
Anja Jentzsch and
Christopher Bouton and
Claus Kalles{\o}e and
Egon L. Willighagen and
Janos G. Hajagos and
M. Scott Marshall and
Eric Prud'hommeaux and
Oktie Hassanzadeh and
Elgar Pichler and
Susie Stephens},
title = {Linked open drug data for pharmaceutical research and development},
journal = {J. Cheminformatics},
volume = {3},
pages = {19},
year = {2011},
url = {https://doi.org/10.1186/1758-2946-3-19},
doi = {10.1186/1758-2946-3-19},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcheminf/SamwaldJBKWHMPHPS11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/SamwaldSDMLA11,
author = {Matthias Samwald and
Holger Stenzhorn and
Michel Dumontier and
M. Scott Marshall and
Joanne Luciano and
Klaus{-}Peter Adlassnig},
editor = {Anne Moen and
Stig Kj{\ae}r Andersen and
Jos Aarts and
Petter Hurlen},
title = {Towards an Interoperable Information Infrastructure Providing Decision
Support for Genomic Medicine},
booktitle = {User Centered Networked Health Care - Proceedings of {MIE} 2011 -
The XXIIIth International Congress of the European Federation for
Medical Informatics, Oslo, Norway, August 28-31, 2011},
series = {Studies in Health Technology and Informatics},
volume = {169},
pages = {165--169},
publisher = {{IOS} Press},
year = {2011},
url = {https://doi.org/10.3233/978-1-60750-806-9-165},
doi = {10.3233/978-1-60750-806-9-165},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/SamwaldSDMLA11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1109-6626,
author = {Matthias Samwald and
Holger Stenzhorn and
Michel Dumontier and
M. Scott Marshall and
Joanne Luciano and
Klaus{-}Peter Adlassnig},
title = {Towards an interoperable information infrastructure providing decision
support for genomic medicine},
journal = {CoRR},
volume = {abs/1109.6626},
year = {2011},
url = {http://arxiv.org/abs/1109.6626},
eprinttype = {arXiv},
eprint = {1109.6626},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1109-6626.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/artmed/SamwaldCRLMMSC10,
author = {Matthias Samwald and
Huajun Chen and
Alan Ruttenberg and
Ernest Lim and
Luis N. Marenco and
Perry L. Miller and
Gordon M. Shepherd and
Kei{-}Hoi Cheung},
title = {Semantic SenseLab: Implementing the vision of the Semantic Web in
neuroscience},
journal = {Artif. Intell. Medicine},
volume = {48},
number = {1},
pages = {21--28},
year = {2010},
url = {https://doi.org/10.1016/j.artmed.2009.11.003},
doi = {10.1016/J.ARTMED.2009.11.003},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/artmed/SamwaldCRLMMSC10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biomedsem/SamwaldS10,
author = {Matthias Samwald and
Holger Stenzhorn},
title = {Establishing a distributed system for the simple representation and
integration of diverse scientific assertions},
journal = {J. Biomed. Semant.},
volume = {1},
number = {{S-1}},
pages = {S5},
year = {2010},
url = {http://www.jbiomedsem.com/content/1/S1/S5},
timestamp = {Thu, 13 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biomedsem/SamwaldS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/semweb/DeusZSSPMMC10,
author = {Helena F. Deus and
Jun Zhao and
Satya S. Sahoo and
Matthias Samwald and
Eric Prud'hommeaux and
Michael Miller and
M. Scott Marshall and
Kei{-}Hoi Cheung},
editor = {Satya S. Sahoo and
Jun Zhao and
Paolo Missier and
Jos{\'{e}} Manu{\'{e}}l G{\'{o}}mez{-}P{\'{e}}rez},
title = {Provenance of Microarray Experiments for a Better Understanding of
Experiment Results},
booktitle = {Proceedings of the Second International Workshop on the role of Semantic
Web in Provenance Management, SWPM@ISWC 2010, Shanghai, China, November
7, 2010},
series = {{CEUR} Workshop Proceedings},
volume = {670},
publisher = {CEUR-WS.org},
year = {2010},
url = {https://ceur-ws.org/Vol-670/paper\_6.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:06 +0100},
biburl = {https://dblp.org/rec/conf/semweb/DeusZSSPMMC10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/RuttenbergRSM09,
author = {Alan Ruttenberg and
Jonathan Rees and
Matthias Samwald and
M. Scott Marshall},
title = {Life sciences on the Semantic Web: the Neurocommons and beyond},
journal = {Briefings Bioinform.},
volume = {10},
number = {2},
pages = {193--204},
year = {2009},
url = {https://doi.org/10.1093/bib/bbp004},
doi = {10.1093/BIB/BBP004},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/RuttenbergRSM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/CheungLSCMHMMSM09,
author = {Kei{-}Hoi Cheung and
Ernest Lim and
Matthias Samwald and
Huajun Chen and
Luis N. Marenco and
Matthew Holford and
Thomas M. Morse and
Pradeep Mutalik and
Gordon M. Shepherd and
Perry L. Miller},
title = {Approaches to neuroscience data integration},
journal = {Briefings Bioinform.},
volume = {10},
number = {4},
pages = {345--353},
year = {2009},
url = {https://doi.org/10.1093/bib/bbp029},
doi = {10.1093/BIB/BBP029},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/CheungLSCMHMMSM09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/CheungFMPSZP09,
author = {Kei{-}Hoi Cheung and
H. Robert Frost and
M. Scott Marshall and
Eric Prud'hommeaux and
Matthias Samwald and
Jun Zhao and
Adrian Paschke},
title = {A journey to Semantic Web query federation in the life sciences},
journal = {{BMC} Bioinform.},
volume = {10},
number = {{S-10}},
pages = {10},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-S10-S10},
doi = {10.1186/1471-2105-10-S10-S10},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/CheungFMPSZP09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/expert/PassantSBD09,
author = {Alexandre Passant and
Matthias Samwald and
John G. Breslin and
Stefan Decker},
title = {Federating Distributed Social Data to Build an Interlinked Online
Information Society},
journal = {{IEEE} Intell. Syst.},
volume = {24},
number = {6},
pages = {44--48},
year = {2009},
url = {https://doi.org/10.1109/MIS.2009.113},
doi = {10.1109/MIS.2009.113},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/expert/PassantSBD09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/i-semantics/JentzschZHCSA09,
author = {Anja Jentzsch and
Jun Zhao and
Oktie Hassanzadeh and
Kei{-}Hoi Cheung and
Matthias Samwald and
Bo Andersson},
editor = {Adrian Paschke and
Hans Weigand and
Wernher Behrendt and
Klaus Tochtermann and
Tassilo Pellegrini},
title = {Linking Open Drug Data},
booktitle = {5th International Conference on Semantic Systems, Graz, Austria, September
2-4, 2009. Proceedings},
publisher = {Verlag der Technischen Universit{\"{a}}t Graz},
year = {2009},
url = {http://i-semantics.tugraz.at/2009/triplification/05\_TriplificationChallengeLODD.pdf},
timestamp = {Tue, 27 Sep 2022 09:57:16 +0200},
biburl = {https://dblp.org/rec/conf/i-semantics/JentzschZHCSA09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mie/SamwaldLMMCMMSMC09,
author = {Matthias Samwald and
Ernest Lim and
Peter Masiar and
Luis N. Marenco and
Huajun Chen and
Thomas M. Morse and
Pradeep Mutalik and
Gordon M. Shepherd and
Perry L. Miller and
Kei{-}Hoi Cheung},
editor = {Klaus{-}Peter Adlassnig and
Bernd Blobel and
John Mantas and
Izet Masic},
title = {Entrez Neuron RDFa: {A} Pragmatic Semantic Web Application for Data
Integration in Neuroscience Research},
booktitle = {Medical Informatics in a United and Healthy Europe - Proceedings of
{MIE} 2009, The XXIInd International Congress of the European Federation
for Medical Informatics, Sarajevo, Bosnia and Herzegovina, August
30 - September 2, 2009},
series = {Studies in Health Technology and Informatics},
volume = {150},
pages = {317--321},
publisher = {{IOS} Press},
year = {2009},
url = {https://doi.org/10.3233/978-1-60750-044-5-317},
doi = {10.3233/978-1-60750-044-5-317},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/mie/SamwaldLMMCMMSMC09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:series/xmedia/StenzhornS09,
author = {Holger Stenzhorn and
Matthias Samwald},
editor = {Andreas Blumauer and
Tassilo Pellegrini},
title = {Das Semantic Web als Werkzeug in der biomedizinischen Forschung},
booktitle = {Social Semantic Web: Web 2.0 - Was nun?},
series = {X.media.press},
pages = {435--449},
publisher = {Springer},
year = {2009},
url = {https://doi.org/10.1007/978-3-540-72216-8\_21},
doi = {10.1007/978-3-540-72216-8\_21},
timestamp = {Tue, 16 May 2017 14:24:25 +0200},
biburl = {https://dblp.org/rec/series/xmedia/StenzhornS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ao/SamwaldA08,
author = {Matthias Samwald and
Klaus{-}Peter Adlassnig},
title = {The bio-zen plus ontology},
journal = {Appl. Ontology},
volume = {3},
number = {4},
pages = {213--217},
year = {2008},
url = {https://doi.org/10.3233/AO-2008-0053},
doi = {10.3233/AO-2008-0053},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ao/SamwaldA08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/esws/MorbidoniPPST08,
author = {Christian Morbidoni and
Danh Le Phuoc and
Axel Polleres and
Matthias Samwald and
Giovanni Tummarello},
editor = {Sean Bechhofer and
Manfred Hauswirth and
J{\"{o}}rg Hoffmann and
Manolis Koubarakis},
title = {Previewing Semantic Web Pipes},
booktitle = {The Semantic Web: Research and Applications, 5th European Semantic
Web Conference, {ESWC} 2008, Tenerife, Canary Islands, Spain, June
1-5, 2008, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {5021},
pages = {843--848},
publisher = {Springer},
year = {2008},
url = {https://doi.org/10.1007/978-3-540-68234-9\_70},
doi = {10.1007/978-3-540-68234-9\_70},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/esws/MorbidoniPPST08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/esws/SchaffertESB08,
author = {Sebastian Schaffert and
Julia Eder and
Matthias Samwald and
Andreas Blumauer},
editor = {York Sure},
title = {KiWi - Knowledge in a Wiki},
booktitle = {Proceedings of the Poster Track of the 5th European Semantic Web Conference
{(ESWC2008)} Tenerife (Spain), 01 - 05 June 2008},
series = {{CEUR} Workshop Proceedings},
volume = {367},
publisher = {CEUR-WS.org},
year = {2008},
url = {https://ceur-ws.org/Vol-367/ESWC2008\_Poster\_Schaffert.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:13 +0100},
biburl = {https://dblp.org/rec/conf/esws/SchaffertESB08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/esws/StenzhornSSR08,
author = {Holger Stenzhorn and
Kavitha Srinivas and
Matthias Samwald and
Alan Ruttenberg},
editor = {Sean Bechhofer and
Manfred Hauswirth and
J{\"{o}}rg Hoffmann and
Manolis Koubarakis},
title = {Simplifying Access to Large-Scale Health Care and Life Sciences Datasets},
booktitle = {The Semantic Web: Research and Applications, 5th European Semantic
Web Conference, {ESWC} 2008, Tenerife, Canary Islands, Spain, June
1-5, 2008, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {5021},
pages = {864--868},
publisher = {Springer},
year = {2008},
url = {https://doi.org/10.1007/978-3-540-68234-9\_74},
doi = {10.1007/978-3-540-68234-9\_74},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/esws/StenzhornSSR08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/RuttenbergCBSBCDFGKKLMORSWWZHNHC07,
author = {Alan Ruttenberg and
Tim Clark and
William J. Bug and
Matthias Samwald and
Olivier Bodenreider and
Helen Chen and
Donald Doherty and
Kerstin Forsberg and
Yong Gao and
Vipul Kashyap and
June Kinoshita and
Joanne Luciano and
M. Scott Marshall and
Chimezie Ogbuji and
Jonathan Rees and
Susie Stephens and
Gwendolyn T. Wong and
Elizabeth Wu and
Davide Zaccagnini and
Tonya Hongsermeier and
Eric Neumann and
Ivan Herman and
Kei{-}Hoi Cheung},
title = {Advancing translational research with the Semantic Web},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-3}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S3-S2},
doi = {10.1186/1471-2105-8-S3-S2},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/RuttenbergCBSBCDFGKKLMORSWWZHNHC07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:conf/swb/KashyapCDSMLSHH07,
author = {Vipul Kashyap and
Kei{-}Hoi Cheung and
Donald Doherty and
Matthias Samwald and
M. Scott Marshall and
Joanne Luciano and
Susie Stephens and
Ivan Herman and
Raymond Hookway},
editor = {Jorge Cardoso and
Martin Hepp and
Miltiadis D. Lytras},
title = {Ontology-Based Data Integration For Biomedical Research},
booktitle = {The Semantic Web: Real-World Applications from Industry},
series = {Semantic Web and Beyond: Computing for Human Experience},
volume = {6},
pages = {97--122},
publisher = {Springer},
year = {2007},
url = {https://doi.org/10.1007/978-0-387-48531-7\_5},
doi = {10.1007/978-0-387-48531-7\_5},
timestamp = {Thu, 03 Feb 2022 09:27:48 +0100},
biburl = {https://dblp.org/rec/conf/swb/KashyapCDSMLSHH07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cimca/SamwaldA05,
author = {Matthias Samwald and
Klaus{-}Peter Adlassnig},
title = {Bringing Neuroscience to the Semantic Web: The Semantic Synapse Project},
booktitle = {2005 International Conference on Computational Intelligence for Modelling
Control and Automation {(CIMCA} 2005), International Conference on
Intelligent Agents, Web Technologies and Internet Commerce {(IAWTIC}
2005), 28-30 November 2005, Vienna, Austria},
pages = {145--150},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/CIMCA.2005.1631256},
doi = {10.1109/CIMCA.2005.1631256},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/cimca/SamwaldA05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
