2024

1.
Budde, K., Hiltawsky, K., Charton, J.-E., Eskofier, B., Krefting, D., Lang, M., Nejdl, W., Schapranow, M.-P., Zahn, T.: Arzneimittel mit KI entwickeln: Von der Idee bis zur Zulassung. Plattform Lernende Systeme (2024).
[ BibTeX ]
 
@techreport{budde2024arzneimittel, author = {Budde, Klemens and Hiltawsky, Karsten and Charton, Jean-Enno and Eskofier, Björn and Krefting, Dagmar and Lang, Maren and Nejdl, Wolfgang and Schapranow, Matthieu-P. and Zahn, Thomas}, institution = {Plattform Lernende Systeme}, keywords = {myown pls}, month = {March}, number = 1, title = {Arzneimittel mit KI entwickeln: Von der Idee bis zur Zulassung}, year = 2024 }
2.
Borchert, F., Llorca, I., Schapranow, M.-P.: Improving biomedical entity linking for complex entity mentions with LLM-based text simplification. Database. 2024, baae067 (2024).
[ BibTeX ]
 
@article{10.1093/database/baae067, abstract = {{Large amounts of important medical information are captured in free-text documents in biomedical research and within healthcare systems, which can be made accessible through natural language processing (NLP). A key component in most biomedical NLP pipelines is entity linking, i.e. grounding textual mentions of named entities to a reference of medical concepts, usually derived from a terminology system, such as the Systematized Nomenclature of Medicine Clinical Terms. However, complex entity mentions, spanning multiple tokens, are notoriously hard to normalize due to the difficulty of finding appropriate candidate concepts. In this work, we propose an approach to preprocess such mentions for candidate generation, building upon recent advances in text simplification with generative large language models. We evaluate the feasibility of our method in the context of the entity linking track of the BioCreative VIII SympTEMIST shared task. We find that instructing the latest Generative Pre-trained Transformer model with a few-shot prompt for text simplification results in mention spans that are easier to normalize. Thus, we can improve recall during candidate generation by 2.9 percentage points compared to our baseline system, which achieved the best score in the original shared task evaluation. Furthermore, we show that this improvement in recall can be fully translated into top-1 accuracy through careful initialization of a subsequent reranking model. Our best system achieves an accuracy of 63.6\\% on the SympTEMIST test set. The proposed approach has been integrated into the open-source xMEN toolkit, which is available online via https://github.com/hpi-dhc/xmen.}}, author = {Borchert, Florian and Llorca, Ignacio and Schapranow, Matthieu-P}, journal = {Database}, keywords = {nlp myown gemtex highmed}, month = {07}, pages = {baae067}, title = {Improving biomedical entity linking for complex entity mentions with {LLM}-based text simplification}, volume = 2024, year = 2024 }

2023

1.
Borchert, F., Llorca, I., Schapranow, M.-P.: Cross-Lingual Candidate Retrieval and Re-ranking for Biomedical Entity Linking. In: Arampatzis, A., Kanoulas, E., Tsikrika, T., Vrochidis, S., Giachanou, A., Li, D., Aliannejadi, M., Vlachos, M., Faggioli, G., en Ferro, N. (reds.) Experimental IR Meets Multilinguality, Multimodality, and Interaction. bll. 135–147. Springer Nature Switzerland, Cham (2023).
[ BibTeX ]
 
@inproceedings{10.1007/978-3-031-42448-9_12, address = {Cham}, author = {Borchert, Florian and Llorca, Ignacio and Schapranow, Matthieu-P.}, booktitle = {Experimental IR Meets Multilinguality, Multimodality, and Interaction}, editor = {Arampatzis, Avi and Kanoulas, Evangelos and Tsikrika, Theodora and Vrochidis, Stefanos and Giachanou, Anastasia and Li, Dan and Aliannejadi, Mohammad and Vlachos, Michalis and Faggioli, Guglielmo and Ferro, Nicola}, keywords = {nlp myown gemtex nephrocage fb-boettinger}, pages = {135--147}, publisher = {Springer Nature Switzerland}, title = {Cross-Lingual Candidate Retrieval and Re-ranking for Biomedical Entity Linking}, year = 2023 }
2.
Nordmeyer, S., Kraus, M., Ziehm, M., Kirchner, M., Schafstedde, M., Kelm, M., Niquet, S., Stephen, M., Baczko, I., Knosalla, C., Schapranow, M.-P., Dittmar, G., Gotthardt, M., Falcke, M., Regitz-Zagrosek, V., Kuehne, T., Mertins, P.: Disease- and sex-specific differences in patients with heart valve disease: A proteome study. Life Sci Alliance. 6, e202201411 (2023).
[ BibTeX ]
 
@article{s2022disease, author = {Nordmeyer, S and Kraus, M and Ziehm, M and Kirchner, M and Schafstedde, M and Kelm, M and Niquet, S and Stephen, MM and Baczko, I and Knosalla, C and Schapranow, M-P and Dittmar, G and Gotthardt, M and Falcke, M and Regitz-Zagrosek, V and Kuehne, T and Mertins, P}, journal = {Life Sci Alliance}, keywords = {myown SMART}, month = {jan}, number = 3, pages = {e202201411}, title = {Disease- and sex-specific differences in patients with heart valve disease: A proteome study.}, volume = 6, year = 2023 }
3.
Budde, K., Hiltawsky, K., Eskofier, B., Heismann, B., Kirchner, E., Klevesath, M., Lang, M., Loskill, H., Neumuth, T., Schapranow, M.-P., Schmidt-Rumposch, A., Susec, B., Welskop-Deffaa, E.M., Wolf-Ostermann, K.: KI für Gesundheitsfachkräfte: Chancen und Herausforderungen von medizinischen und pflegerischen KI-Anwendungen. Plattform Lernende Systeme (2023).
[ BibTeX ]
 
@techreport{budde2023gesundheitsfachkrfte, author = {Budde, Klemens and Hiltawsky, Karsten and Eskofier, Björn and Heismann, Björn and Kirchner, Elsa and Klevesath, Manfred and Lang, Maren and Loskill, Hannelore and Neumuth, Thomas and Schapranow, Matthieu-P. and Schmidt-Rumposch, Andrea and Susec, Barbara and Welskop-Deffaa, Eva Maria and Wolf-Ostermann, Karin}, institution = {Plattform Lernende Systeme}, keywords = {myown pls}, month = {apr}, number = 2, title = {KI für Gesundheitsfachkräfte: Chancen und Herausforderungen von medizinischen und pflegerischen KI-Anwendungen}, type = {Publication}, year = 2023 }
4.
Schapranow, M.-P., Borchert, F., Bougatf, N., Hund, H., Eils, R.: Software-Tool Support for Collaborative, Virtual, Multi-Site Molecular Tumor Boards. SN Computer Science. 4, 358 (2023).
[ BibTeX ]
 
@article{schapranow2023software, author = {Schapranow, Matthieu-P and Borchert, Florian and Bougatf, Nina and Hund, Hauke and Eils, Roland}, journal = {SN Computer Science}, keywords = {highmed fb-boettinger}, number = 4, pages = 358, publisher = {Springer}, title = {Software-Tool Support for Collaborative, Virtual, Multi-Site Molecular Tumor Boards}, volume = 4, year = 2023 }
5.
Kämmer, N., and Borchert, F., and Winkler, S., and de Melo, G., and Schapranow, M.-P.: Resolving Elliptical Compounds in German Medical Text. The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks. bll. 292–305. Association for Computational Linguistics, Toronto, Canada (2023).
[ BibTeX ]
 
@inproceedings{kammer2023resolving, address = {Toronto, Canada}, author = {Kämmer, Niklas and and Borchert, Florian and and Winkler, Silvia and and de Melo, Gerard and and Schapranow, Matthieu-P.}, booktitle = {The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks}, keywords = {nlp myown gemtex highmed nephrocage fb-boettinger}, pages = {292-305}, publisher = {Association for Computational Linguistics}, title = {Resolving Elliptical Compounds in German Medical Text}, year = 2023 }
6.
Llorca, I., Borchert, F., Schapranow, M.-P.: A Meta-dataset of German Medical Corpora: Harmonization of Annotations and Cross-corpus NER Evaluation. Proceedings of the 5th Clinical Natural Language Processing Workshop. bll. 171–181. Association for Computational Linguistics, Toronto, Canada (2023).
[ BibTeX ]
 
@inproceedings{llorca-etal-2023-meta, abstract = {Over the last years, an increasing number of publicly available, semantically annotated medical corpora have been released for the German language. While their annotations cover comparable semantic classes, the synergies of such efforts have not been explored, yet. This is due to substantial differences in the data schemas (syntax) and annotated entities (semantics), which hinder the creation of common meta-datasets. For instance, it is unclear whether named entity recognition (NER) taggers trained on one or more of such datasets are useful to detect entities in any of the other datasets. In this work, we create harmonized versions of German medical corpora using the BigBIO framework, and make them available to the community. Using these as a meta-dataset, we perform a series of cross-corpus evaluation experiments on two settings of aligned labels. These consist in fine-tuning various pre-trained Transformers on different combinations of training sets, and testing them against each dataset separately. We find that a) trained NER models generalize poorly, with F1 scores dropping approx. 20 pp. on unseen test data, and b) current pre-trained Transformer models for the German language do not systematically alleviate this issue. However, our results suggest that models benefit from additional training corpora in most cases, even if these belong to different medical fields or text genres.}, address = {Toronto, Canada}, author = {Llorca, Ignacio and Borchert, Florian and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 5th Clinical Natural Language Processing Workshop}, keywords = {nlp myown gemtex highmed nephrocage fb-boettinger}, month = {jul}, pages = {171--181}, publisher = {Association for Computational Linguistics}, title = {A Meta-dataset of {G}erman Medical Corpora: Harmonization of Annotations and Cross-corpus {NER} Evaluation}, year = 2023 }
7.
Steinwand, S., Borchert, F., Winkler, S., Schapranow, M.-P.: GGTWEAK: Gene Tagging with Weak Supervision for German Clinical Text. In: Juarez, J.M., Marcos, M., Stiglic, G., en Tucker, A. (reds.) Artificial Intelligence in Medicine. bll. 183–192. Springer Nature Switzerland, Cham (2023).
[ BibTeX ]
 
@inproceedings{10.1007/978-3-031-34344-5_22, address = {Cham}, author = {Steinwand, Sandro and Borchert, Florian and Winkler, Silvia and Schapranow, Matthieu-P.}, booktitle = {Artificial Intelligence in Medicine}, editor = {Juarez, Jose M. and Marcos, Mar and Stiglic, Gregor and Tucker, Allan}, keywords = {nlp myown highmed fb-boettinger}, pages = {183--192}, publisher = {Springer Nature Switzerland}, title = {GGTWEAK: Gene Tagging with Weak Supervision for German Clinical Text}, year = 2023 }
8.
Schapranow, M.-P.: Lernende Laborsysteme: Wie kann künstliche Intelligenz im Labor unterstützen?. In: Raem, A.M. en Rauch, P. (reds.) Immunoassays: ergänzende Methoden, Troubleshooting, regulatorische Anforderungen. bll. 755–775. Springer Berlin Heidelberg, Berlin, Heidelberg (2023).
[ BibTeX ]
 
@inbook{Schapranow2023, address = {Berlin, Heidelberg}, author = {Schapranow, Matthieu-P.}, booktitle = {Immunoassays: ergänzende Methoden, Troubleshooting, regulatorische Anforderungen}, editor = {Raem, Arnold Maria and Rauch, Peter}, keywords = {myown}, pages = {755--775}, publisher = {Springer Berlin Heidelberg}, title = {Lernende Laborsysteme: Wie kann künstliche Intelligenz im Labor unterstützen?}, year = 2023 }
9.
Borchert, F., Llorca, I., Roller, R., Arnrich, B., Schapranow, M.-P.: xMEN: A Modular Toolkit for Cross-Lingual Medical Entity Normalization. arXiv preprint arXiv:2310.11275. (2023).
[ BibTeX ]
 
@article{borchert2023xmen, author = {Borchert, Florian and Llorca, Ignacio and Roller, Roland and Arnrich, Bert and Schapranow, Matthieu-P.}, journal = {arXiv preprint arXiv:2310.11275}, keywords = {nlp gemtex fb-boettinger}, title = {xMEN: A Modular Toolkit for Cross-Lingual Medical Entity Normalization}, year = 2023 }
10.
Borchert, F., Llorca, I., Schapranow, M.-P.: HPI-DHC @ BC8 SympTEMIST Track: Detection and Normalization of Symptom Mentions with SpanMarker and xMEN. In: Islamaj, R., Arighi, C., Campbell, I., Gonzalez-Hernandez, G., Hirschman, L., Krallinger, M., Lima-López, S., Weissenbacher, D., en Lu, Z. (reds.) Proceedings of the BioCreative VIII Challenge and Workshop: Curation and Evaluation in the era of Generative Models. , New Orleans, LA (2023).
[ BibTeX ]
 
@inproceedings{borchert2023hpidhc, address = {New Orleans, LA}, author = {Borchert, Florian and Llorca, Ignacio and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the BioCreative VIII Challenge and Workshop: Curation and Evaluation in the era of Generative Models}, editor = {Islamaj, Rezarta and Arighi, Cecilia and Campbell, Ian and Gonzalez-Hernandez, Graciela and Hirschman, Lynette and Krallinger, Martin and Lima-López, Salvador and Weissenbacher, Davy and Lu, Zhiyong}, keywords = {nlp myown gemtex}, title = {HPI-DHC @ BC8 SympTEMIST Track: Detection and Normalization of Symptom Mentions with SpanMarker and xMEN}, year = 2023 }
11.
Fox, S., Preiß, M., Borchert, F., Rasheed, A., Schapranow, M.-P.: HPIDHC at NTCIR-17 MedNLP-SC: Data Augmentation and Ensemble Learning for Multilingual Adverse Drug Event Detection. NTCIR 17 Conference: Proceedings of the 17th NTCIR Conference on Evaluation of Information Access Technologies. bll. 185–192. , Tokyo, Japan (2023).
[ BibTeX ]
 
@inproceedings{fox2023hpidhc, address = {Tokyo, Japan}, author = {Fox, Smilla and Preiß, Martin and Borchert, Florian and Rasheed, Aadil and Schapranow, Matthieu-P.}, booktitle = {NTCIR 17 Conference: Proceedings of the 17th NTCIR Conference on Evaluation of Information Access Technologies}, keywords = {nlp myown gemtex}, month = {dec}, pages = {185-192}, title = {HPIDHC at NTCIR-17 MedNLP-SC: Data Augmentation and Ensemble Learning for Multilingual Adverse Drug Event Detection}, year = 2023 }
12.
Schapranow, M.-P., Bayat, M., Rasheed, A., Naik, M., Graf, V., Schmidt, D., Budde, K., Cardinal, H., Sapir-Pichhadze, R., Fenninger, F., Sherwood, K., Keown, P., Günther, O., Pandl, K., Leiser, F., Thiebes, S., Sunyaev, A., Niemann, M., Schimanski, A., Klein, T.: NephroCAGE—German-Canadian Consortium on AI for Improved Kidney Transplantation Outcome: Protocol for an Algorithm Development and Validation Study. JMIR Res Protoc 2023. 12, (2023).
[ BibTeX ]
 
@article{noauthororeditor2023nephrocagegermancanadian, author = {Schapranow, Matthieu-P. and Bayat, M and Rasheed, A and Naik, M and Graf, V and Schmidt, D and Budde, K and Cardinal, H and Sapir-Pichhadze, R and Fenninger, F and Sherwood, K and Keown, P and Günther, O and Pandl, K and Leiser, F and Thiebes, S and Sunyaev, A and Niemann, M and Schimanski, A and Klein, T}, journal = {JMIR Res Protoc 2023}, keywords = {myown nephrocage}, month = {dec}, number = {e48892}, title = {NephroCAGE—German-Canadian Consortium on AI for Improved Kidney Transplantation Outcome: Protocol for an Algorithm Development and Validation Study}, volume = 12, year = 2023 }
13.
Schapranow, M.-P.: Kann uns ChatGPT bei der Digitalisierung der Medizin helfen?. Management & Krankenhaus. 42, 10 (2023).
[ BibTeX ]
 
@article{schapranow2023chatgpt, author = {Schapranow, Matthieu-P.}, journal = {Management & Krankenhaus}, keywords = {myown pls}, month = {june}, number = 6, pages = 10, title = {Kann uns ChatGPT bei der Digitalisierung der Medizin helfen?}, volume = 42, year = 2023 }
14.
Schapranow, M.-P.: NephroCAGE: Wie Künstliche Intelligenz bei Nierenversagen unterstützen kann. Gesundhyte: Forschung neu vernetzen. 15, 100—102 (2023).
[ BibTeX ]
 
@article{schapranow2023nephrocage, author = {Schapranow, Matthieu-P.}, journal = {Gesundhyte: Forschung neu vernetzen.}, keywords = {myown nephrocage}, pages = {100—102}, title = {NephroCAGE: Wie Künstliche Intelligenz bei Nierenversagen unterstützen kann.}, volume = 15, year = 2023 }

2022

1.
Borchert, F., Schapranow, M.-P.: HPI-DHC @ BioASQ DisTEMIST: Spanish Biomedical Entity Linking with Pre-trained Transformers and Cross-lingual Candidate Retrieval. Proceedings of the Working Notes of CLEF 2022 - Conference and Labs of the Evaluation Forum. bll. 244–258. , Bologna, Italy (2022).
[ BibTeX ]
 
@inproceedings{borchert2022clef, address = {Bologna, Italy}, author = {Borchert, Florian and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the Working Notes of CLEF 2022 - Conference and Labs of the Evaluation Forum}, keywords = {nlp myown highmed fb-boettinger}, month = {September}, pages = {244-258}, title = {HPI-DHC @ BioASQ DisTEMIST: Spanish Biomedical Entity Linking with Pre-trained Transformers and Cross-lingual Candidate Retrieval}, year = 2022 }
2.
Borchert, F., Lohr, C., Modersohn, L., Witt, J., Langer, T., Follmann, M., Gietzelt, M., Arnrich, B., Hahn, U., Schapranow, M.-P.: GGPONC 2.0 - The German Clinical Guideline Corpus for Oncology: Curation Workflow, Annotation Policy, Baseline NER Taggers. Proceedings of the Language Resources and Evaluation Conference. bll. 3650–3660. European Language Resources Association, Marseille, France (2022).
[ BibTeX ]
 
@inproceedings{borchert-EtAl:2022:LREC, abstract = {Despite remarkable advances in the development of language resources over the recent years, there is still a shortage of annotated, publicly available corpora covering (German) medical language. With the initial release of the German Guideline Program in Oncology NLP Corpus (GGPONC), we have demonstrated how such corpora can be built upon clinical guidelines, a widely available resource in many natural languages with a reasonable coverage of medical terminology. In this work, we describe a major new release for GGPONC. The corpus has been substantially extended in size and re-annotated with a new annotation scheme based on SNOMED CT top level hierarchies, reaching high inter-annotator agreement (γ=.94). Moreover, we annotated elliptical coordinated noun phrases and their resolutions, a common language phenomenon in (not only German) scientific documents. We also trained BERT-based named entity recognition models on this new data set, which achieve high performance on short, coarse-grained entity spans (F1=.89), while the rate of boundary errors increases for long entity spans. GGPONC is freely available through a data use agreement. The trained named entity recognition models, as well as the detailed annotation guide, are also made publicly available.}, address = {Marseille, France}, author = {Borchert, Florian and Lohr, Christina and Modersohn, Luise and Witt, Jonas and Langer, Thomas and Follmann, Markus and Gietzelt, Matthias and Arnrich, Bert and Hahn, Udo and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the Language Resources and Evaluation Conference}, keywords = {nlp highmed fb-boettinger}, month = {June}, pages = {3650--3660}, publisher = {European Language Resources Association}, title = {GGPONC 2.0 - The German Clinical Guideline Corpus for Oncology: Curation Workflow, Annotation Policy, Baseline NER Taggers}, year = 2022 }
3.
Budde, K., Hiltawsky, K., Kirchner, E., Klevesath, M., Lenarz, T., Neumuth, T., Melzer, A., Schapranow, M.-P., Wolf-Ostermann, K., Löbker, W., Rad, A.J., Zapf, C., Heismann, B., Kara, G., Buttjes, D., Boll, S., Faisst, W., Piller, F.T., Gülpen, C., Susec, B., Nicolay, K.: KI-Geschäftsmodelle für die Gesundheit. Plattform Lernende Systeme (2022).
[ BibTeX ]
 
@techreport{budde2022kigeschftsmodelle, author = {Budde, Klemens and Hiltawsky, Karsten and Kirchner, Elsa and Klevesath, Manfred and Lenarz, Thomas and Neumuth, Thomas and Melzer, Andreas and Schapranow, Matthieu-P. and Wolf-Ostermann, Karin and Löbker, Wiebke and Rad, Abtin J. and Zapf, Christian and Heismann, Björn and Kara, Güngör and Buttjes, Daniel and Boll, Susanne and Faisst, Wolfgang and Piller, Frank T. and Gülpen, Christian and Susec, Barbara and Nicolay, Katharina}, institution = {Plattform Lernende Systeme}, keywords = {myown pls}, month = {apr}, number = 3, title = {KI-Geschäftsmodelle für die Gesundheit}, type = {https://doi.org/10.48669/pls_2022-3}, year = 2022 }
4.
Beyerer, J., Müller-Quade, J., Albers, A., Houdeau, D., Tchouchenkov, I., Dzaack, J., Schapranow, M.-P., Reiner, N., Neuburger, R., Stowasser, S., Rapp, S., Terstegen, S.: KI-Systeme schützen, Missbrauch verhindern: Maßnahmen und Szenarien in fünf Anwendungsgebieten. Plattform Lernende Systeme (2022).
[ BibTeX ]
 
@techreport{beyerer2022kisysteme, author = {Beyerer, Jürgen and Müller-Quade, Jörn and Albers, Albert and Houdeau, Detlef and Tchouchenkov, Igor and Dzaack, Jeronimo and Schapranow, Matthieu-P. and Reiner, Nadine and Neuburger, Railed and Stowasser, Sascha and Rapp, Simon and Terstegen, Sebastian}, howpublished = {https://doi.org/10.48669/pls_2022-2}, institution = {Plattform Lernende Systeme}, keywords = {myown pls}, month = {mar}, number = 2, title = {KI-Systeme schützen, Missbrauch verhindern: Maßnahmen und Szenarien in fünf Anwendungsgebieten}, year = 2022 }
5.
Henkenjohann, R., Bergner, B., Borchert, F., Bougatf, N., Hund, H., Eils, R., Schapranow, M.-P.: An Engineering Approach towards Multi-Site Virtual Molecular Tumor Board Software Support. In: Pissaloux, E., Papadopoulos, G., Achilleos, A., en Velázquez, R. (reds.) ICT for Health, Accessibility and Wellbeing. IHAW 2021. bll. 156–170. Springer, Cham (2022).
[ BibTeX ]
 
@inproceedings{henkenjohann2021mtb, author = {Henkenjohann, Richard and Bergner, Benjamin and Borchert, Florian and Bougatf, Nina and Hund, Hauke and Eils, Roland and Schapranow, Matthieu-P.}, booktitle = {ICT for Health, Accessibility and Wellbeing. IHAW 2021}, editor = {Pissaloux, E. and Papadopoulos, G.A. and Achilleos, A. and Velázquez, R.}, keywords = {myown highmed mtb}, month = {mar}, pages = {156-170}, publisher = {Springer, Cham.}, series = {Communications in Computer and Information Science}, title = {An Engineering Approach towards Multi-Site Virtual Molecular Tumor Board Software Support}, volume = 1538, year = 2022 }

2021

1.
Borchert, F., Meister, L., Langer, T., Follmann, M., Arnrich, B., Schapranow, M.-P.: Controversial Trials First: Identifying Disagreement Between Clinical Guidelines and New Evidence. AMIA Annual Symposium Proceedings. bll. 237–246. American Medical Informatics Association (2021).
[ BibTeX ]
 
@inproceedings{borchert_amia2021, author = {Borchert, Florian and Meister, Laura and Langer, Thomas and Follmann, Markus and Arnrich, Bert and Schapranow, Matthieu-P.}, booktitle = {AMIA Annual Symposium Proceedings}, keywords = {nlp myown highmed fb-boettinger}, organization = {American Medical Informatics Association}, pages = {237-246}, title = {Controversial Trials First: Identifying Disagreement Between Clinical Guidelines and New Evidence}, volume = 2021, year = 2021 }
2.
Ganzinger, M., Glaab, E., Kerssemakers, J., Nahnsen, S., Sax, U., Schaadt, N.S., Schapranow, M.-P., Tiede, T.: Biomedical and Clinical Research Data Management. In: Wolkenhauer, O. (red.) Systems Medicine. bll. 532–543. Academic Press, Oxford (2021).
[ BibTeX ]
 
@incollection{GANZINGER2021532, abstract = {Systems medicine is an interdisciplinary approach in medicine that relies on computational models based on data from a variety of sources. Typically, such sources include clinical and biomedical data with heterogeneous data definitions that are sometimes not even structured in a useful way. Consequently, the systematic management of data is an important element for the successful implementation of systems medicine in both research and clinical application. In this article, we provide an overview over the following selected aspects of data management:•Integration of multiple data sources•IT infrastructures•Data protection regulations•Data history and data quality•Data sharing/FAIR principles•Use and access policies The presented best practices and experiences result from several systems medicine projects in which the authors have participated. They can be considered as recommendations for future projects in order to quickly set up data management infrastructures for systems medicine.}, address = {Oxford}, author = {Ganzinger, Matthias and Glaab, Enrico and Kerssemakers, Jules and Nahnsen, Sven and Sax, Ulrich and Schaadt, Nadine Sarah and Schapranow, Matthieu-P. and Tiede, Thorsten}, booktitle = {Systems Medicine}, editor = {Wolkenhauer, Olaf}, keywords = {myown}, pages = {532 - 543}, publisher = {Academic Press}, title = {Biomedical and Clinical Research Data Management}, year = 2021 }
3.
Schapranow, M.-P.: Schneller Impfen dank Digitalisierung?. Tagesspiegel Background. (2021).
[ BibTeX ]
 
@article{schapranow2021schneller, author = {Schapranow, Matthieu-P.}, journal = {Tagesspiegel Background}, keywords = {myown}, month = {apr}, title = {Schneller Impfen dank Digitalisierung?}, year = 2021 }
4.
Borchert, F., Mock, A., Tomczak, A., Hügel, J., Alkarkoukly, S., Knurr, A., Volckmar, A.-L., Stenzinger, A., Schirmacher, P., Debus, J., Jäger, D., Longerich, T., Fröhling, S., Eils, R., Bougatf, N., Sax, U., Schapranow, M.-P.: Knowledge bases and software support for variant interpretation in precision oncology. Briefings in Bioinformatics. 22, (2021).
[ BibTeX ]
 
@article{10.1093/bib/bbab134, abstract = {Precision oncology is a rapidly evolving interdisciplinary medical specialty. Comprehensive cancer panels are becoming increasingly available at pathology departments worldwide, creating the urgent need for scalable cancer variant annotation and molecularly informed treatment recommendations. A wealth of mainly academia-driven knowledge bases calls for software tools supporting the multi-step diagnostic process. We derive a comprehensive list of knowledge bases relevant for variant interpretation by a review of existing literature followed by a survey among medical experts from university hospitals in Germany. In addition, we review cancer variant interpretation tools, which integrate multiple knowledge bases. We categorize the knowledge bases along the diagnostic process in precision oncology and analyze programmatic access options as well as the integration of knowledge bases into software tools. The most commonly used knowledge bases provide good programmatic access options and have been integrated into a range of software tools. For the wider set of knowledge bases, access options vary across different parts of the diagnostic process. Programmatic access is limited for information regarding clinical classifications of variants and for therapy recommendations. The main issue for databases used for biological classification of pathogenic variants and pathway context information is the lack of standardized interfaces. There is no single cancer variant interpretation tool that integrates all identified knowledge bases. Specialized tools are available and need to be further developed for different steps in the diagnostic process.}, author = {Borchert, Florian and Mock, Andreas and Tomczak, Aurelie and Hügel, Jonas and Alkarkoukly, Samer and Knurr, Alexander and Volckmar, Anna-Lena and Stenzinger, Albrecht and Schirmacher, Peter and Debus, Jürgen and Jäger, Dirk and Longerich, Thomas and Fröhling, Stefan and Eils, Roland and Bougatf, Nina and Sax, Ulrich and Schapranow, Matthieu-P}, journal = {Briefings in Bioinformatics}, keywords = {HiGHmed myown fb-boettinger}, month = {05}, note = {bbab134}, number = 6, title = {Knowledge bases and software support for variant interpretation in precision oncology}, volume = 22, year = 2021 }
5.
Schapranow, M.-P., Loskill, H., Budde, K.: Gibt es ein Recht auf medizinische Behandlung mittels KI?. Management & Krankenhaus. 40, 1 (2021).
[ BibTeX ]
 
@article{schapranow2021recht, author = {Schapranow, Matthieu-P. and Loskill, Hannelore and Budde, Klemens}, journal = {Management & Krankenhaus}, keywords = {myown pls}, month = {dec}, number = 10, pages = 1, title = {Gibt es ein Recht auf medizinische Behandlung mittels KI?}, volume = 40, year = 2021 }
6.
Rasheed, A., Borchert, F., Kohlmeyer, L., Henkenjohann, R., Schapranow, M.-P.: A Comparison of Concept Embeddings for German Clinical Corpora. 2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). bll. 2314–2321 (2021).
[ BibTeX ]
 
@inproceedings{rasheed_concept_embeddings, abstract = {Clinical concept embeddings enable unsupervised learning of relationships among medical concepts. A range of benchmarks quantifies the degree to which learned representations capture medical semantics. However, training and evaluation of embeddings require a large amount of data. In addition, embeddings’ benchmark score varies in different languages because it differs with the size of the available corpora. Multi-modal data increases the corpus size, but data protection regulations limit access to clinical multi-modal data. We present an extendable pipeline for training clinical concept embeddings on various text corpora and evaluating the quality of trained embeddings on selected benchmark tasks. Our work provides different ways to identify clinical concepts in textual corpora. We train embeddings on selected German clinical text corpora and evaluate them on various benchmark scores. Our work can be extended to train embeddings in other languages in which a large multi-modal dataset is not available.}, author = {Rasheed, Aadil and Borchert, Florian and Kohlmeyer, Lasse and Henkenjohann, Richard and Schapranow, Matthieu-P.}, booktitle = {2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)}, keywords = {nlp myown highmed fb-boettinger}, pages = {2314-2321}, title = {A Comparison of Concept Embeddings for German Clinical Corpora}, year = 2021 }
7.
Ganzinger, M., Schapranow, M.-P.: FAIRe Datennutzung: Erfahrungen aus Verbundprojekten. gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland. 14, 57–61 (2021).
[ BibTeX ]
 
@article{ganzinger2021faire, author = {Ganzinger, Matthias and Schapranow, Matthieu-P.}, journal = {gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland.}, keywords = {myown highmed sahra}, month = {dec}, pages = {57-61}, title = {FAIRe Datennutzung: Erfahrungen aus Verbundprojekten}, volume = 14, year = 2021 }
8.
Budde, K., Schapranow, M.-P., Kirchner, E., Zahn, T.: Zwischen individualisierten Therapieoptionen und gläsernen Patienten. gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland. 14, 32–36 (2021).
[ BibTeX ]
 
@article{budde2021zwischen, author = {Budde, Klemens and Schapranow, Matthieu-P. and Kirchner, Elsa and Zahn, Thomas}, journal = {gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland}, keywords = {myown}, month = {dec}, pages = {32–36}, title = {Zwischen individualisierten Therapieoptionen und gläsernen Patienten}, volume = 14, year = 2021 }
9.
da Cruz, H.F., Pfahringer, B., Martensen, T., Schneider, F., Meyer, A., Bottinger, E., Schapranow, M.-P.: Using interpretability approaches to update textquotedblleftblack-boxtextquotedblright clinical prediction models: an external validation study in nephrology. Artificial Intelligence in Medicine. 111, 101982 (2021).
[ BibTeX ]
 
@article{daCruz2021, author = {da Cruz, Harry Freitas and Pfahringer, Boris and Martensen, Tom and Schneider, Frederic and Meyer, Alexander and Bottinger, Erwin and Schapranow, Matthieu-P.}, journal = {Artificial Intelligence in Medicine}, keywords = {boettinger fb-boettinger}, month = {jan}, pages = 101982, publisher = {Elsevier {BV}}, title = {Using interpretability approaches to update {\textquotedblleft}black-box{\textquotedblright} clinical prediction models: an external validation study in nephrology}, volume = 111, year = 2021 }
10.
Schapranow, M.-P., Loskill, H., Budde, K.: Streitsache: Gibt es ein Recht auf medizinische Behandlung mit KI?. gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland. 14, 96–97 (2021).
[ BibTeX ]
 
@article{schapranow2021streitsache, author = {Schapranow, Matthieu-P. and Loskill, Hannelore and Budde, Klemens}, journal = {gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland}, keywords = {myown pls}, month = {dec}, pages = {96–97}, title = {Streitsache: Gibt es ein Recht auf medizinische Behandlung mit KI?}, volume = 14, year = 2021 }

2020

1.
Kraus, M., Mathew Stephen, M., Schapranow, M.-P.: Eatomics: Shiny exploration of quantitative proteomics data. Journal of Proteome Research. (2020).
[ BibTeX ]
 
@article{kraus2020eatomics, author = {Kraus, Milena and Mathew Stephen, Mariet and Schapranow, Matthieu-P}, editor = {Weintraub, Susan}, journal = {Journal of Proteome Research}, keywords = {myown fb-boettinger smart}, publisher = {American Chemical Society}, title = {Eatomics: Shiny exploration of quantitative proteomics data}, year = 2020 }
2.
Stegbauer, J.S., Kraus, M., Nordmeyer, S., Kirchner, M., Ziehm, M.Z., Dommisch, H., Kelle, S., Kelm, M., Baczko, I., Landmesser, U., Tschope, C., Knosalla, C., Falcke, M., Schapranow, M.-P., Regitz-Zagrosek, V., Mertins, P., Kühne, T.: Proteomic analysis reveals upregulation of ACE2, the putative SARS-CoV-2 receptor in pressure- but not volume-overloaded human hearts. Hypertension. (2020).
[ BibTeX ]
 
@article{stegbauer2020proteomic, author = {Stegbauer, Johannes Stegbauer and Kraus, Milena and Nordmeyer, Sarah and Kirchner, Marieluise and Ziehm, Matthias Ziehm and Dommisch, Henrik and Kelle, Sebastian and Kelm, Marcus and Baczko, Istvan and Landmesser, Ulf and Tschope, Carsten and Knosalla, Christoph and Falcke, Martin and Schapranow, Matthieu-P. and Regitz-Zagrosek, Vera and Mertins, Philipp and Kühne, Titus}, journal = {Hypertension}, keywords = {myown}, title = {Proteomic analysis reveals upregulation of ACE2, the putative SARS-CoV-2 receptor in pressure- but not volume-overloaded human hearts}, year = 2020 }
3.
da Cruz, H.F., Pfahringer, B., Martensen, T., Schneider, F., Meyer, A., Bottinger, E., Schapranow, M.-P.: Using Interpretability Approaches to Update Black-Box Clinical Prediction Models: an External Validation Study in Nephrology. Artificial Intelligence in Medicine. 101982 (2020).
[ BibTeX ]
 
@article{daCruz2020, author = {da Cruz, Harry Freitas and Pfahringer, Boris and Martensen, Tom and Schneider, Frederic and Meyer, Alexander and Bottinger, Erwin and Schapranow, Matthieu-P.}, journal = {Artificial Intelligence in Medicine}, keywords = {boettinger fb-boettinger}, month = {nov}, pages = 101982, publisher = {Elsevier {BV}}, title = {Using Interpretability Approaches to Update Black-Box Clinical Prediction Models: an External Validation Study in Nephrology}, year = 2020 }
4.
Borchert, F., Lohr, C., Modersohn, L., Langer, T., Follmann, M., Sachs, J.P., Hahn, U., Schapranow, M.-P.: GGPONC: A Corpus of German Medical Text with Rich Metadata Based on Clinical Practice Guidelines. Proceedings of the 11th International Workshop on Health Text Mining and Information Analysis. bll. 38–48. Association for Computational Linguistics, Online (2020).
[ BibTeX ]
 
@inproceedings{borchert-etal-2020-ggponc, abstract = {The lack of publicly accessible text corpora is a major obstacle for progress in natural language processing. For medical applications, unfortunately, all language communities other than English are low-resourced. In this work, we present GGPONC (German Guideline Program in Oncology NLP Corpus), a freely distributable German language corpus based on clinical practice guidelines for oncology. This corpus is one of the largest ever built from German medical documents. Unlike clinical documents, clinical guidelines do not contain any patient-related information and can therefore be used without data protection restrictions. Moreover, GGPONC is the first corpus for the German language covering diverse conditions in a large medical subfield and provides a variety of metadata, such as literature references and evidence levels. By applying and evaluating existing medical information extraction pipelines for German text, we are able to draw comparisons for the use of medical language to other corpora, medical and non-medical ones.}, address = {Online}, author = {Borchert, Florian and Lohr, Christina and Modersohn, Luise and Langer, Thomas and Follmann, Markus and Sachs, Jan Philipp and Hahn, Udo and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 11th International Workshop on Health Text Mining and Information Analysis}, keywords = {nlp HiGHmed myown fb-boettinger}, month = {nov}, pages = {38--48}, publisher = {Association for Computational Linguistics}, title = {{GGPONC}: A Corpus of {G}erman Medical Text with Rich Metadata Based on Clinical Practice Guidelines}, year = 2020 }
5.
Borchert, F., Lohr, C., Modersohn, L., Hahn, U., Langer, T., Wenzel, G., Follmann, M., Schapranow, M.-P.: "Herr Doktor, verstehen Sie mich?“: Wie lernende Systeme helfen medizinische Fachsprache zu verstehen und welche Rolle klinische Leitlinien dabei spielen. gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland. 13, 19–22 (2020).
[ BibTeX ]
 
@article{borchert2020doktor, author = {Borchert, Florian and Lohr, Christina and Modersohn, Luise and Hahn, Udo and Langer, Thomas and Wenzel, Gregor and Follmann, Markus and Schapranow, Matthieu-P.}, journal = {gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland}, keywords = {HiGHmed myown}, month = {dec}, pages = {19--22}, title = {"Herr Doktor, verstehen Sie mich?“: Wie lernende Systeme helfen medizinische Fachsprache zu verstehen und welche Rolle klinische Leitlinien dabei spielen}, volume = 13, year = 2020 }
6.
Schapranow, M.-P.: #nCoVStats: Wie Data Science hilft die Coronavirus-Pandemie zu verstehen. gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland. 13, 34–37 (2020).
[ BibTeX ]
 
@article{schapranow2020ncovstats, author = {Schapranow, Matthieu-P.}, journal = {gesundhyte.de: Das Magazin für Digitale Gesundheit in Deutschland}, keywords = {myown}, month = {dec}, pages = {34--37}, title = {#nCoVStats: Wie Data Science hilft die Coronavirus-Pandemie zu verstehen}, volume = 13, year = 2020 }
7.
Schapranow, M.-P.: Good News: Wie Data Science dabei hilft, die Corona-Pandemie besser zu verstehen. Portal Wissen: Das Forschungsmagazin der Universität Potsdam. 9, 14–19 (2020).
[ BibTeX ]
 
@article{schapranow2020science, author = {Schapranow, Matthieu-P.}, journal = {Portal Wissen: Das Forschungsmagazin der Universität Potsdam}, keywords = {myown}, month = {sep}, number = 2, pages = {14--19}, title = {Good News: Wie Data Science dabei hilft, die Corona-Pandemie besser zu verstehen}, volume = 9, year = 2020 }
8.
Schapranow, M.-P.: Good news: How data science helps us to better understand the Coronavirus pandemic. Portal Wissen: The research magazine of the University of Potsdam. 2, 14–19 (2020).
[ BibTeX ]
 
@article{schapranow2020science, author = {Schapranow, Matthieu-P.}, journal = {Portal Wissen: The research magazine of the University of Potsdam}, keywords = {myown}, month = {nov}, number = 9, pages = {14--19}, title = {Good news: How data science helps us to better understand the Coronavirus pandemic}, volume = 2, year = 2020 }
9.
Schapranow, M.-P.: Schöne neue Ärzte-Welt: Kümmern sich kluge Computer bald um unsere Gesundheitsprobleme?. F.A.Z. Sonderbeliage Gesundheit. B2 (2020).
[ BibTeX ]
 
@article{schapranow2020aerztewelt, author = {Schapranow, Matthieu-P.}, journal = {F.A.Z. Sonderbeliage Gesundheit}, keywords = {myown}, month = {feb}, number = 48, pages = {B2}, title = {Schöne neue Ärzte-Welt: Kümmern sich kluge Computer bald um unsere Gesundheitsprobleme?}, year = 2020 }
10.
Schapranow, M.-P.: Hand in Hand: Wie KI und Ärzte in der Onkologie zusammenarbeiten. Konkrete Anwendungsfälle von KI & Big-Data in der Industrie. 69–74 (2020).
[ BibTeX ]
 
@article{noauthororeditor2020onkologie, author = {Schapranow, Matthieu-P.}, journal = {Konkrete Anwendungsfälle von KI & Big-Data in der Industrie}, keywords = {myown}, month = {feb}, pages = {69--74}, title = {Hand in Hand: Wie KI und Ärzte in der Onkologie zusammenarbeiten}, year = 2020 }

2019

1.
Slosarek, T., Kraus, M., Schapranow, M.-P., Bottinger, E.: Qualitative Comparison of Selected Indel Detection Methods for RNA-Seq Data. International Work-Conference on Bioinformatics and Biomedical Engineering. bll. 166–177. Springer (2019).
[ BibTeX ]
 
@inproceedings{slosarek2019qualitative, author = {Slosarek, Tamara and Kraus, Milena and Schapranow, Matthieu-P and Bottinger, Erwin}, booktitle = {International Work-Conference on Bioinformatics and Biomedical Engineering}, keywords = {myown fb-boettinger smart}, organization = {Springer}, pages = {166-177}, title = {Qualitative Comparison of Selected Indel Detection Methods for RNA-Seq Data}, year = 2019 }
2.
Freitas da Cruz, H., Pfahringer, B., Schneider, F., Meyer, A., Schapranow, M.-P.: External Validation of a Black-Box Clinical Predictive Model in Nephrology: Can Interpretability Methods Help Illuminate Performance Differences?. Proceedings of 17th Conference on Artificial Intelligence in Medicine. bll. 191–201 (2019).
[ BibTeX ]
 
@inproceedings{freitasdacruzprediction, author = {Freitas da Cruz, Harry and Pfahringer, Boris and Schneider, Frederic and Meyer, Alexander and Schapranow, Matthieu-P.}, booktitle = {Proceedings of 17th Conference on Artificial Intelligence in Medicine}, keywords = {BigMedilytics fb-boettinger}, pages = {191-201}, title = {External Validation of a Black-Box Clinical Predictive Model in Nephrology: Can Interpretability Methods Help Illuminate Performance Differences?}, year = 2019 }
3.
Konak, O., Freitas Da Cruz, H., Thiele, M., Golla, D., Schapranow, M.-P.: An Information and Communication Platform Supporting Analytics for Elderly Care. 5th International Conference on Information for Ageing Well, Communication Technologies e Health (2019).
[ BibTeX ]
 
@inproceedings{konak2019information, author = {Konak, Orhan and Freitas Da Cruz, Harry and Thiele, Marvin and Golla, David and Schapranow, Matthieu-P.}, booktitle = {5th International Conference on Information for Ageing Well, Communication Technologies e Health}, keywords = {myown SAHRA fb-boettinger}, title = {An Information and Communication Platform Supporting Analytics for Elderly Care}, year = 2019 }
4.
Freitas da Cruz, H., Schneider, F., Schapranow, M.-P.: Prediction of Acute Kidney Injury in Cardiac Surgery Patients: Interpretation using Local Interpretable Model-agnostic Explanations. Proceedings of the 12th International Conference on Biomedical Engineering Systems and Technologies. bll. 380–387. , Prague, Czech Republic (2019).
[ BibTeX ]
 
@conference{Cruz2018, author = {Freitas da Cruz, Harry and Schneider, Frederic and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 12th International Conference on Biomedical Engineering Systems and Technologies}, keywords = {myown SAHRA fb-boettinger}, pages = {380-387}, title = {Prediction of Acute Kidney Injury in Cardiac Surgery Patients: Interpretation using Local Interpretable Model-agnostic Explanations}, volume = 5, year = 2019 }
5.
Schapranow, M.-P., others, and: A Federated In-memory Database System for Life Sciences. In: Castellanos, M., Chrysanthis, P., en Pelechrinis, K. (reds.) Real-Time Business Intelligence and Analytics. BIRTE 2015, BIRTE 2016, BIRTE 2017. Springer, Cham (2019).
[ BibTeX ]
 
@incollection{schapranow2019federated, author = {Schapranow, Matthieu-P. and and others}, booktitle = {Real-Time Business Intelligence and Analytics. BIRTE 2015, BIRTE 2016, BIRTE 2017}, editor = {Castellanos, M. and Chrysanthis, P. and Pelechrinis, K.}, keywords = {myown}, publisher = {Springer, Cham}, series = {Lecture Notes in Business Information Processing}, title = {A Federated In-memory Database System for Life Sciences}, volume = 337, year = 2019 }
6.
Freitas da Cruz, H., Horschig, S., Nusshag, C., Schapranow, M.-P.: Knowledge Distillation from Machine Learning Models for Prediction of Hemodialysis Outcomes. International Journal On Advances in Life Sciences. 11, 33–43 (2019).
[ BibTeX ]
 
@article{freitasdacruz2019knowledge, abstract = {In order to compensate severe impairments of renal function, artificial, extracorporeal devices, so called dialyzers, have been developed to enable renal replacement therapy. The parameters utilized in this form of therapy and the specific patient characteristics substantially affect individual patient outcomes and overall disease progression. In this paper, we present a clinical prediction model for outcomes of critically ill patients that underwent a specific form of renal replacement, hemodialysis. For this purpose, we employed two categories of machine learning models: interpretable (Bayesian rule lists and logistic regression) and non-interpretable (multilayer perceptron and random forest). To provide more transparency to the latter category, we applied mimic learning and feature importance metrics. Results show that non-interpretable models outperform the rule-based classifier (c-statistic ≥ 0.9). Despite this result, the use of interpretability methods enables more thorough model scrutiny by a medical experts, revealing possible model biases, which might have been otherwise disregarded.}, author = {Freitas da Cruz, Harry and Horschig, Siegfried and Nusshag, Christian and Schapranow, Matthieu-P.}, journal = {International Journal On Advances in Life Sciences}, keywords = {myown bigmedilytics fb-boettinger}, month = {June}, number = {1-2}, pages = {33-43}, title = {Knowledge Distillation from Machine Learning Models for Prediction of Hemodialysis Outcomes}, volume = 11, year = 2019 }
7.
Freitas da Cruz, H., Bergner, B., Konak, O., Schneider, F., Bode, P., Lempert, C., Schapranow, M.-P.: MORPHER – A Platform to Support Modeling of Outcome and Risk Prediction in Health Research. Proceedings of the 19th IEEE International Conference on Bioinformatics and Biomedicine (2019).
[ BibTeX ]
 
@conference{freitasdacruz2019morpher, author = {Freitas da Cruz, Harry and Bergner, Benjamin and Konak, Orhan and Schneider, Frederic and Bode, Philipp and Lempert, Conrad and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 19th IEEE International Conference on Bioinformatics and Biomedicine}, keywords = {orhankonak}, title = {MORPHER – A Platform to Support Modeling of Outcome and Risk Prediction in Health Research}, year = 2019 }
8.
Freitas da Cruz, H., Bergner, B., Konak, O., Schneider, F., Bode, P., Lempert, C., Schapranow, M.-P.: MORPHER – A Platform to Support Modeling of Outcome and Risk Prediction in Health Research. Proceedings of the 19th IEEE International Conference on Bioinformatics and Biomedicine. , Athens, Greece (2019).
[ BibTeX ]
 
@conference{freitasdacruz2019morpher, author = {Freitas da Cruz, Harry and Bergner, Benjamin and Konak, Orhan and Schneider, Frederic and Bode, Philipp and Lempert, Conrad and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 19th IEEE International Conference on Bioinformatics and Biomedicine}, keywords = {myown bigmedilytics fb-boettinger}, title = {MORPHER – A Platform to Support Modeling of Outcome and Risk Prediction in Health Research}, year = 2019 }
9.
Schapranow, M.-P.: Für bessere Diagnosen und Therapien: Wie Ärzte und KI in der Krebsbehandlung zusammenarbeiten, https://www.wissenschaftsjahr.de/2019/neues-aus-der-wissenschaft/das-sagt-die-wissenschaft/wie-kuenstliche-intelligenz-das-gesundheitswesen-nachhaltig-unterstuetzt/, (2019).
[ BibTeX ]
 
@misc{schapranow2019bessere, author = {Schapranow, Matthieu-P.}, howpublished = {publicly published}, keywords = {myown}, month = {dec}, title = {Für bessere Diagnosen und Therapien: Wie Ärzte und KI in der Krebsbehandlung zusammenarbeiten}, year = 2019 }
10.
Konak, O., Freitas Da Cruz, H., Thiele, M., Golla, D., Schapranow, M.-P.: An Information and Communication Platform Supporting Analytics for Elderly Care. 5th International Conference on Information for Ageing Well, Communication Technologies e Health (2019).
[ BibTeX ]
 
@inproceedings{konak2019information, author = {Konak, Orhan and Freitas Da Cruz, Harry and Thiele, Marvin and Golla, David and Schapranow, Matthieu-P.}, booktitle = {5th International Conference on Information for Ageing Well, Communication Technologies e Health}, keywords = {orhankonak}, title = {An Information and Communication Platform Supporting Analytics for Elderly Care}, year = 2019 }

2018

1.
Kraus, M., Hesse, G., Slosarek, T., Danner, M., Kesar, A., Bhushan, A., Schapranow, M.-P.: DEAME-Differential Expression Analysis Made Easy. Heterogeneous Data Management, Polystores, and Analytics for Healthcare. bll. 162–174. Springer (2018).
[ BibTeX ]
 
@incollection{kraus2018deame, author = {Kraus, Milena and Hesse, Guenter and Slosarek, Tamara and Danner, Marius and Kesar, Ajay and Bhushan, Akshay and Schapranow, Matthieu-P}, booktitle = {Heterogeneous Data Management, Polystores, and Analytics for Healthcare}, keywords = {myown fb-boettinger smart}, pages = {162--174}, publisher = {Springer}, title = {DEAME-Differential Expression Analysis Made Easy}, type = {Publication}, year = 2018 }
2.
Freitas da Cruz, H., Horschig, S., Nusshag, C., Schapranow, M.-P.: Prediction of Patient Outcomes after Renal Replacement Therapy in Intensive Care. Proceedings of the 3rd International Conference on Informatics and Assistive Technologies for Health-Care, Medical Support and Wellbeing (2018).
[ BibTeX ]
 
@inproceedings{dacruz2018, author = {Freitas da Cruz, Harry and Horschig, Siegfried and Nusshag, Christian and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 3rd International Conference on Informatics and Assistive Technologies for Health-Care, Medical Support and Wellbeing}, keywords = {myown SAHRA fb-boettinger}, title = {Prediction of Patient Outcomes after Renal Replacement Therapy in Intensive Care}, year = 2018 }
3.
Freitas da Cruz, H., Gebhardt, M., Becher, F., Schapranow, M.-P.: Interactive Data Exploration Supporting Elderly Care Planning. Proceedings of the 10th International Conference on eHealth, Telemedicine, and Social Medicine (2018).
[ BibTeX ]
 
@conference{hcruz2018healthinfo, author = {Freitas da Cruz, Harry and Gebhardt, Marie and Becher, Felix and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 10th International Conference on eHealth, Telemedicine, and Social Medicine}, keywords = {myown SAHRA fb-boettinger}, title = {Interactive Data Exploration Supporting Elderly Care Planning}, year = 2018 }

2017

1.
Schapranow, M.-P.: Die digitale Transformation mitgestalten — Der Datenspendeausweis: Souveräner Umgang mit persönlichen Gesundheitsdaten. Plattform Life Sciences. 38–39 (2017).
[ BibTeX ]
 
@article{schapranow2017digitale, author = {Schapranow, Matthieu-P.}, editor = {Garbs, Holger}, journal = {Plattform Life Sciences}, keywords = {myown SAHRA}, month = {mar}, number = 1, pages = {38--39}, title = {Die digitale Transformation mitgestalten — Der Datenspendeausweis: Souveräner Umgang mit persönlichen Gesundheitsdaten}, year = 2017 }
2.
Kraus, M., Schapranow, M.-P.: An In-Memory Database Platform for Systems Medicine. Proceedings of the International Conference on Bioinformatics and Computational Biology. bll. 93–100. The International Society for Computers and Their Applications (ISCA) (2017).
[ BibTeX ]
 
@inproceedings{kraus2017inmemory, author = {Kraus, Milena and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the International Conference on Bioinformatics and Computational Biology}, keywords = {myown SMART}, number = 9, organization = {The International Society for Computers and Their Applications (ISCA)}, pages = {93--100}, title = {An In-Memory Database Platform for Systems Medicine}, year = 2017 }
3.
Schapranow, M.-P., Brauer, J., Plattner, H.: The Data Donation Pass: Enabling Sovereign Control of Personal Healthcare Data. Proceedings of the World Congress in Computer Science, Computer Engineering, and Applied Computing. CSCE (2017).
[ BibTeX ]
 
@inproceedings{schapranow2017donation, author = {Schapranow, Matthieu-P. and Brauer, Janos and Plattner, Hasso}, booktitle = {Proceedings of the World Congress in Computer Science, Computer Engineering, and Applied Computing}, keywords = {myown}, month = {07}, publisher = {CSCE}, title = {The Data Donation Pass: Enabling Sovereign Control of Personal Healthcare Data}, year = 2017 }

2016

1.
Schapranow, M.-P., Kraus, M., Danner, M., Plattner, H.: IMDBfs: Bridging the Gap between In-Memory Database Technology and File-Based Tools for Life Sciences. Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine. bll. 1133–1139. IEEE (2016).
[ BibTeX ]
 
@conference{Matthieu-P.2016a, author = {Schapranow, Matthieu-P. and Kraus, Milena and Danner, Marius and Plattner, Hasso}, booktitle = {Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine}, keywords = {myown SMART smart}, organization = {IEEE}, pages = {1133--1139}, title = {IMDBfs: Bridging the Gap between In-Memory Database Technology and File-Based Tools for Life Sciences}, year = 2016 }
2.
Schapranow, M.-P.: Die In-Memory-Technologie in der personalisierten Medizin, https://news.sap.com/germany/die-in-memory-technologie-in-der-personalisierten-medizin/, (2016).
[ BibTeX ]
 
@misc{schapranow2016inmemorytechnologie, author = {Schapranow, Matthieu-P.}, journal = {SAP News}, keywords = {myown}, month = {feb}, title = {Die In-Memory-Technologie in der personalisierten Medizin}, year = 2016 }
3.
Schapranow, M.-P., Uflacker, M., Sariyar, M., Semler, S., Fichte, J., Schielke, D., Ekinci, K., Zahn, T.: Towards An Integrated Health Research Process: A Cloud-based Approach. Proceedings of The IEEE International Conference on Big Data. 2813–2818 (2016).
[ BibTeX ]
 
@article{noauthororeditortowards, abstract = {Today, health research and health care generate a steadily increasing amount of data. Making these available for secondary use cases is essential for efficiency gains in health research, e.g. by reducing time-and costs-intensive acquisition of data. In this contribution, we introduce our SAHRA software platform enabling reproducible research, e.g. by combining multiple data sources, performing data de-identification, and content filtering. We define an innovative research process combining retrospective and prospective research for the first time. Thus, authorized users, e.g. clinical researchers, are able to gain access through our system relevant research data and to perform interactive analyses. As a result, existing sensitive health data is securely transformed into de-identified research data, which can be used to improve future health research.}, author = {Schapranow, Matthieu-P. and Uflacker, Matthias and Sariyar, Murat and Semler, Sebastian and Fichte, Johannes and Schielke, Dietmar and Ekinci, Kismet and Zahn, Thomas}, journal = {Proceedings of The IEEE International Conference on Big Data}, keywords = {SAHRA}, pages = {2813--2818}, title = {Towards An Integrated Health Research Process: A Cloud-based Approach}, year = 2016 }
4.
Schapranow, M.-P.: Datenspendeausweis für ­Bürger: Ein Plädoyer für mündige Patienten, die die eigenen Gesundheitsdaten am besten verstehen. Management & Krankenhaus. (2016).
[ BibTeX ]
 
@article{schapranow2016datenspendeausweis, author = {Schapranow, Matthieu-P.}, journal = {Management & Krankenhaus}, keywords = {myown SAHRA}, month = {sep}, number = 9, title = {Datenspendeausweis für ­Bürger: Ein Plädoyer für mündige Patienten, die die eigenen Gesundheitsdaten am besten verstehen.}, year = 2016 }

2015

1.
Fähnrich, C., Denecke, K., Adeoye, O., Benzler, J., Claus, H., Kirchner, G., Mall, S., Richter, R., Schapranow, M.-P., Schwarz, N.G., Tom-Aba, D., Uflacker, M., Poggensee, G., Krause, G.: Surveillance and Outbreak Response Management System (SORMAS) to support the control of the Ebola virus disease outbreak in West Africa. Euro Surveillance. (2015).
[ BibTeX ]
 
@article{Cindy2015a, author = {Fähnrich, Cindy and Denecke, Kerstin and Adeoye, Olawunmi and Benzler, Justus and Claus, Hermann and Kirchner, Göran and Mall, Sabine and Richter, Ralph and Schapranow, Matthieu-P. and Schwarz, Norbert G. and Tom-Aba, Daniel and Uflacker, Matthias and Poggensee, Gabriele and Krause, Gerard}, journal = {Euro Surveillance}, keywords = {myown}, title = {Surveillance and Outbreak Response Management System (SORMAS) to support the control of the Ebola virus disease outbreak in West Africa}, year = 2015 }
2.
Schapranow, M.-P., Perscheid, C., Wachsmann, A., Siegert, M., Bock, C., Horschig, F., Liedke, F., Brauer, J., Plattner, H.: A Federated In-Memory Database System For Life Sciences. Proceedings of the 9th International Workshop on Business Intelligence for the Real Time Enterprise (BIRTE) (2015).
[ BibTeX ]
 
@inproceedings{Matthieu-P.2015a, author = {Schapranow, Matthieu-P. and Perscheid, Cindy and Wachsmann, Alf and Siegert, Martin and Bock, Cornelius and Horschig, Friedrich and Liedke, Franz and Brauer, Janos and Plattner, Hasso}, booktitle = {Proceedings of the 9th International Workshop on Business Intelligence for the Real Time Enterprise (BIRTE)}, keywords = {myown}, title = {A Federated In-Memory Database System For Life Sciences}, year = 2015 }
3.
Schapranow, M.-P., Perscheid, C., Plattner, H.: IT-Aided Business Process Enabling Real-time Analysis of Candidates for Clinical Trials. Proceedings of the 4th International Conference on Global Health Challenges. bll. 67–73. IARIA (2015).
[ BibTeX ]
 
@inproceedings{Matthieu-P.2015b, abstract = {Recruitment of participants for clinical trials is a complex task involving screening of hundreds of thousands of candidates, e.g., testing for trial-specific inclusion and exclusion criteria. Today, a significant amount of time is spent on manual screening as improper selected candidates have impact on the overall study results. We introduce a candidate eligibility metric, which allows systematic ranking and classification of candidates based on trial-specific filter criteria in an automatic way. It is implemented as part of our web application, which enables real-time analysis of patient data and assessment of candidates. Thus, the time for identification of eligible candidates is tremendously reduced whilst additional degrees of freedom for assessing the relevance of individual candidates are available.}, author = {Schapranow, Matthieu-P. and Perscheid, Cindy and Plattner, Hasso}, booktitle = {Proceedings of the 4th International Conference on Global Health Challenges}, keywords = {myown}, pages = {67-73}, publisher = {IARIA}, title = {IT-Aided Business Process Enabling Real-time Analysis of Candidates for Clinical Trials}, year = 2015 }
4.
Fähnrich, C., Schapranow, M.-P., Plattner, H.: Facing the Genome Data Deluge: Efficiently Identifying Genetic Variants with In-Memory Database Technology. Proceedings of the ACM Symposium on Applied Computing (2015).
[ BibTeX ]
 
@conference{Cindy2015a, author = {Fähnrich, Cindy and Schapranow, Matthieu-P. and Plattner, Hasso}, booktitle = {Proceedings of the ACM Symposium on Applied Computing}, keywords = {myown}, title = {Facing the Genome Data Deluge: Efficiently Identifying Genetic Variants with In-Memory Database Technology}, year = 2015 }
5.
Denecke, K., Mall, S., Fähnrich, C., Perscheid, C., Adeoye, O.O., Benzler, J., Claus, H., Kirchner, G., Richter, R., Schapranow, M.-P., Schwarz, N., Reigl, L., Tom-Aba, D., Gidado, S., Waziri, N.E., Uflacker, M., Krause, G., Poggensee, G.: „Surveillance and Outbreak Response Management and Analysis System (SORMAS)“ ermöglicht Kontrolle von Ebola-Infizierten in Westafrika. 10. Jahrestagung der Deutschen Gesellschaft für Epidemiologie (DGEpi) (2015).
[ BibTeX ]
 
@conference{Kerstin2015a, author = {Denecke, Kerstin and Mall, Sabine and Fähnrich, Cindy and Perscheid, Cindy and Adeoye, Olawunmi Olubunmi and Benzler, Justus and Claus, Hermann and Kirchner, Göran and Richter, Ralph and Schapranow, Matthieu-P. and Schwarz, Norbert and Reigl, Lisa and Tom-Aba, Daniel and Gidado, Saheed and Waziri, Ndadilnasiya Endie and Uflacker, Matthias and Krause, Gérard and Poggensee, Gabriele}, booktitle = {10. Jahrestagung der Deutschen Gesellschaft für Epidemiologie (DGEpi)}, keywords = {myown}, month = 9, title = {„Surveillance and Outbreak Response Management and Analysis System (SORMAS)“ ermöglicht Kontrolle von Ebola-Infizierten in Westafrika}, year = 2015 }
6.
Schapranow, M.-P., Kraus, M., Perscheid, C., Bock, C., Liedtke, F., Plattner, H.: The Medical Knowledge Cockpit: Real-time Analysis of Big Medical Data Enabling Precision Medicine. Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM). bll. 770–775 (2015).
[ BibTeX ]
 
@inproceedings{Matthieu2015a, author = {Schapranow, Matthieu-P. and Kraus, Milena and Perscheid, Cindy and Bock, Cornelius and Liedtke, Franz and Plattner, Hasso}, booktitle = {Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM)}, keywords = {myown}, pages = {770-775}, title = {The Medical Knowledge Cockpit: Real-time Analysis of Big Medical Data Enabling Precision Medicine}, year = 2015 }

2014

1.
Fähnrich, C., Schapranow, M.-P., Plattner, H.: Towards Integrating the Detection of Genetic Variants into an In-Memory Database. Proceedings of the International Conference on Big Data (2014).
[ BibTeX ]
 
@conference{Cindy2014a, author = {Fähnrich, Cindy and Schapranow, Matthieu-P. and Plattner, Hasso}, booktitle = {Proceedings of the International Conference on Big Data}, keywords = {myown}, title = {Towards Integrating the Detection of Genetic Variants into an In-Memory Database}, year = 2014 }
2.
Schapranow, M.-P., Klinghammer, K., Fähnrich, C., Plattner, H.: In-Memory Technology Enables Interactive Drug Response Analysis. 16th International Conference on e-Health Networking, Applications and Services (Healthcom 2014) (2014).
[ BibTeX ]
 
@conference{Matthieu-P.2014a, author = {Schapranow, Matthieu-P. and Klinghammer, Konrad and Fähnrich, Cindy and Plattner, Hasso}, booktitle = {16th International Conference on e-Health Networking, Applications and Services (Healthcom 2014)}, keywords = {myown}, title = {In-Memory Technology Enables Interactive Drug Response Analysis}, year = 2014 }
3.
Herbst, K., Fähnrich, C., Neves, M., Schapranow, M.-P.: Applying In-Memory Technology for Automatic Template Filling in the Clinical Domain. CLEF 2014 Evaluation Labs and Workshop, Online Working Notes (2014).
[ BibTeX ]
 
@conference{Konrad2014a, author = {Herbst, Konrad and Fähnrich, Cindy and Neves, Mariana and Schapranow, Matthieu-P.}, booktitle = {CLEF 2014 Evaluation Labs and Workshop, Online Working Notes}, keywords = {myown}, title = {Applying In-Memory Technology for Automatic Template Filling in the Clinical Domain}, year = 2014 }
4.
Haeger, F., Schapranow, M.-P., Fähnrich, C., Ziegler, E., Plattner, H.: In-Memory Computing Enabling Real-time Genome Data Analysis. International Journal on Advances in Life Sciences, Vol 6, Nr 1-2. (2014).
[ BibTeX ]
 
@article{Franziska2014a, author = {Haeger, Franziska and Schapranow, Matthieu-P. and Fähnrich, Cindy and Ziegler, Emanuel and Plattner, Hasso}, journal = {International Journal on Advances in Life Sciences, Vol 6, Nr 1-2}, keywords = {myown}, title = {In-Memory Computing Enabling Real-time Genome Data Analysis}, year = 2014 }
5.
Schapranow, M.-P., Klinghammer, K., Fähnrich, C., Plattner, H.: An Optimized Research Process for Real-time Drug Response Analysis. The Third International Conference on Global Health Challenges (2014).
[ BibTeX ]
 
@conference{Matthieu-P.2014b, author = {Schapranow, Matthieu-P. and Klinghammer, Konrad and Fähnrich, Cindy and Plattner, Hasso}, booktitle = {The Third International Conference on Global Health Challenges}, keywords = {myown}, title = {An Optimized Research Process for Real-time Drug Response Analysis}, year = 2014 }
6.
Schapranow, M.-P., Plattner, H.: High-Performance In-Memory Genome Data Analysis: How In-Memory Database Technology Accelerates Personalized Medicine. Springer (2014).
[ BibTeX ]
 
@book{Matthieu-P.2014a, author = {Schapranow, Matthieu-P. and Plattner, Hasso}, keywords = {myown}, pages = 123, publisher = {Springer}, title = {High-Performance In-Memory Genome Data Analysis: How In-Memory Database Technology Accelerates Personalized Medicine}, year = 2014 }

2013

1.
Schapranow, M.-P., Meinel, C., Plattner, H.: Big Data soll Genom-Analysen schneller voranbringen. Krankenhaus-IT Journal, p. 26. (2013).
[ BibTeX ]
 
@article{Matthieu-P.2013a, author = {Schapranow, Matthieu-P. and Meinel, Christoph and Plattner, Hasso}, journal = {Krankenhaus-IT Journal, p. 26}, keywords = {myown}, title = {Big Data soll Genom-Analysen schneller voranbringen}, year = 2013 }
2.
Schapranow, M.-P., Plattner, H.: In-Memory Technology Enables History-Based Access Control for RFID-Aided Supply Chains. The Secure Information Society: Ethical, Legal and Political Challenges, pp. 187-213 (2013).
[ BibTeX ]
 
@inbook{Matthieu-P.2013a, author = {Schapranow, Matthieu-P. and Plattner, Hasso}, keywords = {myown}, series = {The Secure Information Society: Ethical, Legal and Political Challenges, pp. 187-213}, title = {In-Memory Technology Enables History-Based Access Control for RFID-Aided Supply Chains}, year = 2013 }
3.
Schapranow, M.-P., Meinel, C., Plattner, H.: Applied In-Memory Technology to High Throughput Genome Data Processing. Proceedings of XXI Winter Course of the CATAI (CATAI 2013). bll. 35–42. , Canary Islands, Spain (2013).
[ BibTeX ]
 
@inproceedings{2013_Meinel_CATAI, address = {Canary Islands, Spain}, author = {Schapranow, Matthieu-P. and Meinel, Christoph and Plattner, Hasso}, booktitle = {Proceedings of XXI Winter Course of the CATAI (CATAI 2013)}, keywords = {myown}, month = 3, pages = {35-42}, title = {Applied In-Memory Technology to High Throughput Genome Data Processing}, year = 2013 }
4.
Schapranow, M.-P., Plattner, H., Meinel, C.: Applied In-Memory Technology for High-Throughput Genome Data Processing and Real-time Analysis. System on Chip (!SoC) Devices in Telemedicine from !LABoC to High Resolution Images, pp. 35-42 (2013).
[ BibTeX ]
 
@conference{Matthieu-P.2013a, author = {Schapranow, Matthieu-P. and Plattner, Hasso and Meinel, Christoph}, booktitle = {System on Chip (!SoC) Devices in Telemedicine from !LABoC to High Resolution Images, pp. 35-42}, keywords = {myown}, title = {Applied In-Memory Technology for High-Throughput Genome Data Processing and Real-time Analysis}, year = 2013 }
5.
Schapranow, M.-P.: Krebsdatenbank auf Tablet und Smartphone. Best Practice Wireless in der Hauptstadtregion Berlin-Brandenburg, pp. 48-49 (2013).
[ BibTeX ]
 
@inbook{Matthieu-P.2013b, author = {Schapranow, Matthieu-P.}, keywords = {myown}, series = {Best Practice Wireless in der Hauptstadtregion Berlin-Brandenburg, pp. 48-49}, title = {Krebsdatenbank auf Tablet und Smartphone}, year = 2013 }
6.
Schapranow, M.-P., Plattner, H., Tosun, C., Regenbrecht, C.: Mobile Real-time Analysis of Patient Data for Advanced Decision Support in Personalized Medicine. The 5th International Conference on eHealth, Telemedicine, and Social Medicine, pp. 129-136 (2013).
[ BibTeX ]
 
@conference{Matthieu-P.2013a, author = {Schapranow, Matthieu-P. and Plattner, Hasso and Tosun, Cafer and Regenbrecht, Christian}, booktitle = {The 5th International Conference on eHealth, Telemedicine, and Social Medicine, pp. 129-136}, keywords = {myown}, title = {Mobile Real-time Analysis of Patient Data for Advanced Decision Support in Personalized Medicine}, year = 2013 }
7.
Schapranow, M.-P., Plattner, H.: HIG – An In-memory Database Platform Enabling Real-time Analyses of Genome Data. Proceedings of the International Conference on Big Data. bll. 691–696 (2013).
[ BibTeX ]
 
@conference{Matthieu-P.2013a, author = {Schapranow, Matthieu-P. and Plattner, Hasso}, booktitle = {Proceedings of the International Conference on Big Data}, keywords = {myown}, pages = {691-696}, title = {HIG – An In-memory Database Platform Enabling Real-time Analyses of Genome Data}, year = 2013 }
8.
Schapranow, M.-P.: Real-time Security Extensions for EPCglobal Networks: Case Study for the Pharmaceutical Industry. In-Memory Data Management Research, Springer (2013).
[ BibTeX ]
 
@book{Matthieu-P.2013a, author = {Schapranow, Matthieu-P.}, keywords = {myown}, publisher = {In-Memory Data Management Research, Springer}, title = {Real-time Security Extensions for EPCglobal Networks: Case Study for the Pharmaceutical Industry}, year = 2013 }
9.
Haeger, F., Plattner, H., Schapranow, M.-P.: High-Performance In-Memory Genome Project: A Platform for Integrated Real-Time Genome Data Analysis. Proceedings of the 2nd International Conference on Global Health Challenges. bll. 5–10 (2013).
[ BibTeX ]
 
@conference{Franziska2013a, author = {Haeger, Franziska and Plattner, Hasso and Schapranow, Matthieu-P.}, booktitle = {Proceedings of the 2nd International Conference on Global Health Challenges}, keywords = {myown}, pages = {5-10}, title = {High-Performance In-Memory Genome Project: A Platform for Integrated Real-Time Genome Data Analysis}, year = 2013 }

2012

1.
Müller, J., Schapranow, M.-P., Zeier, A., Plattner, H.: Secure RFID-Enablement in Modern Companies: A Case Study of the Pharmaceutical Industry. Handbook of Research on Industrial Informatics and Manufacturing Intelligence: Innovations and Solutions, pp. 507-539, IGI Global (2012).
[ BibTeX ]
 
@inbook{Jürgen2012a, author = {Müller, Jürgen and Schapranow, Matthieu-P. and Zeier, Alexander and Plattner, Hasso}, keywords = {myown}, series = {Handbook of Research on Industrial Informatics and Manufacturing Intelligence: Innovations and Solutions, pp. 507-539, IGI Global}, title = {Secure RFID-Enablement in Modern Companies: A Case Study of the Pharmaceutical Industry}, year = 2012 }
2.
Schapranow, M.-P., Meinel, C., Plattner, H.: Datenbanktechnologie beflügelt personalisierte Medizin. Laborwelt Nr. 4/2012, 13. Jahrgang. (2012).
[ BibTeX ]
 
@article{Matthieu-P.2012a, author = {Schapranow, Matthieu-P. and Meinel, Christoph and Plattner, Hasso}, journal = {Laborwelt Nr. 4/2012, 13. Jahrgang}, keywords = {myown}, title = {Datenbanktechnologie beflügelt personalisierte Medizin}, year = 2012 }
3.
Plattner, H., Meinel, C., Schapranow, M.-P.: Blitzschnelle Datenanalysen für die personalisierte Medizin der Zukunft – Interdisziplinäre Impulse aus Potsdam und Berlin. Themenbroschüre 2012 Gesundheitsstandort Berlin-Brandenburg. (2012).
[ BibTeX ]
 
@article{Hasso2012a, author = {Plattner, Hasso and Meinel, Christoph and Schapranow, Matthieu-P.}, journal = {Themenbroschüre 2012 Gesundheitsstandort Berlin-Brandenburg}, keywords = {myown}, title = {Blitzschnelle Datenanalysen für die personalisierte Medizin der Zukunft – Interdisziplinäre Impulse aus Potsdam und Berlin}, year = 2012 }

2011

1.
Lorenz, M., Müller, J., Schapranow, M.-P., Zeier, A.: A Distributed EPC Discovery Service based on Peer-to-peer Technology. Proceedings of the RFID SysTech 2011, 7th European Workshop on Smart Objects: Systems, Technologies and Applications, Dresden. bll. 1–7. VDE (2011).
[ BibTeX ]
 
@conference{Martin2011a, author = {Lorenz, Martin and Müller, Jürgen and Schapranow, Matthieu-P. and Zeier, Alexander}, booktitle = {Proceedings of the RFID SysTech 2011, 7th European Workshop on Smart Objects: Systems, Technologies and Applications, Dresden}, keywords = {myown}, pages = {1 - 7}, publisher = {VDE}, title = {A Distributed EPC Discovery Service based on Peer-to-peer Technology}, year = 2011 }
2.
Schapranow, M.-P., Zeier, A., Plattner, H.: Security Extensions for Improving Data Security of Event Repositories in EPCglobal Networks. The 9th International Conference on Embedded and Ubiquitous Computing pp. 213-220 (2011).
[ BibTeX ]
 
@conference{Matthieu-P.2011b, author = {Schapranow, Matthieu-P. and Zeier, Alexander and Plattner, Hasso}, booktitle = {The 9th International Conference on Embedded and Ubiquitous Computing pp. 213-220}, keywords = {myown}, title = {Security Extensions for Improving Data Security of Event Repositories in EPCglobal Networks}, year = 2011 }
3.
Schapranow, M.-P., Lorenz, M., Zeier, A., Plattner, H.: License-based Access Control in EPCglobal Networks. The 7th European Workshop on RFID Systems and Technologies, pp. 1-7 (2011).
[ BibTeX ]
 
@conference{Matthieu-P.2011a, author = {Schapranow, Matthieu-P. and Lorenz, Martin and Zeier, Alexander and Plattner, Hasso}, booktitle = {The 7th European Workshop on RFID Systems and Technologies, pp. 1-7}, keywords = {myown}, title = {License-based Access Control in EPCglobal Networks}, year = 2011 }
4.
Schapranow, M.-P., Zeier, A., Plattner, H., Müller, J., Lorenz, M.: Discovery Services in the EPC Network. Designing and Deploying RFID Applications, pp. 109-130, INTECH Press (2011).
[ BibTeX ]
 
@inbook{Matthieu-P.2011a, author = {Schapranow, Matthieu-P. and Zeier, Alexander and Plattner, Hasso and Müller, Jürgen and Lorenz, Martin}, keywords = {myown}, series = {Designing and Deploying RFID Applications, pp. 109-130, INTECH Press}, title = {Discovery Services in the EPC Network}, year = 2011 }
5.
Schapranow, M.-P., Zeier, A., Plattner, H.: A Formal Model for Enabling RFID in Pharmaceutical Supply Chains. 44th Hawaii International Conference on System Sciences (HICSS). IEEE (2011).
[ BibTeX ]
 
@conference{Matthieu-P.2011a, author = {Schapranow, Matthieu-P. and Zeier, Alexander and Plattner, Hasso}, booktitle = {44th Hawaii International Conference on System Sciences (HICSS)}, keywords = {myown}, publisher = {IEEE}, title = {A Formal Model for Enabling RFID in Pharmaceutical Supply Chains}, year = 2011 }
6.
Zeier, A., Plattner, H., Schapranow, M.-P., Müller, J.: Costs of Authentic Pharmaceuticals: Research on Qualitative and Quantitative Aspects of Enabling Anti-counterfeiting in RFID-aided Supply Chains. Personal and Ubiquitous Computing, Volume 16, Issue 3. 271–289 (2011).
[ BibTeX ]
 
@article{Alexander2011a, author = {Zeier, Alexander and Plattner, Hasso and Schapranow, Matthieu-P. and Müller, Jürgen}, journal = {Personal and Ubiquitous Computing, Volume 16, Issue 3}, keywords = {myown}, pages = {271-289}, publisher = {Springer}, title = {Costs of Authentic Pharmaceuticals: Research on Qualitative and Quantitative Aspects of Enabling Anti-counterfeiting in RFID-aided Supply Chains}, year = 2011 }
7.
Schapranow, M.-P., Zeier, A., Leupold, F., Schubotz, T.: Securing EPCglobal Object Name Service -- Privacy Enhancements for Anti-counterfeiting. 2nd International Conference on Intelligent Systems, Modeling and Simulation, pp. 332-337 (2011).
[ BibTeX ]
 
@conference{Matthieu-P.2011a, author = {Schapranow, Matthieu-P. and Zeier, Alexander and Leupold, Felix and Schubotz, Tobias}, booktitle = {2nd International Conference on Intelligent Systems, Modeling and Simulation, pp. 332-337}, keywords = {myown}, title = {Securing EPCglobal Object Name Service -- Privacy Enhancements for Anti-counterfeiting}, year = 2011 }
8.
Schapranow, M.-P., Müller, J., Zeier, A., Plattner, H.: What are Authentic Pharmaceuticals Worth?. Designing and Deploying RFID Applications, pp. 204-220, INTECH Press (2011).
[ BibTeX ]
 
@inbook{Matthieu-P.2011b, author = {Schapranow, Matthieu-P. and Müller, Jürgen and Zeier, Alexander and Plattner, Hasso}, keywords = {myown}, series = {Designing and Deploying RFID Applications, pp. 204-220, INTECH Press}, title = {What are Authentic Pharmaceuticals Worth?}, year = 2011 }
9.
Schapranow, M.-P., Fähnrich, C., Zeier, A., Plattner, H.: Simulation of RFID-aided Supply Chains: Case Study of the Pharmaceutical Supply Chain. Third International Conference on Computational Intelligence, Modelling and Simulation, pp. 340-345 (2011).
[ BibTeX ]
 
@conference{Matthieu-P.2011a, author = {Schapranow, Matthieu-P. and Fähnrich, Cindy and Zeier, Alexander and Plattner, Hasso}, booktitle = {Third International Conference on Computational Intelligence, Modelling and Simulation, pp. 340-345}, keywords = {myown}, title = {Simulation of RFID-aided Supply Chains: Case Study of the Pharmaceutical Supply Chain}, year = 2011 }

2010

1.
Schapranow, M.-P., Nagora, M., Zeier, A.: CoMoSeR: Cost Model for Security-Enhanced RFID-Aided Supply Chains. The 18th International Conference on Software, Telecommunication and Computer Networks, pp. 11-16 (2010).
[ BibTeX ]
 
@conference{Matthieu-P.2010c, author = {Schapranow, Matthieu-P. and Nagora, Mike and Zeier, Alexander}, booktitle = {The 18th International Conference on Software, Telecommunication and Computer Networks, pp. 11-16}, keywords = {myown}, title = {CoMoSeR: Cost Model for Security-Enhanced RFID-Aided Supply Chains}, year = 2010 }
2.
Schapranow, M.-P., Kühne, R., Zeier, A.: Real-Time Billing in Smart Grid Infrastructures. Power and Energy Student Summit 2010 - Integration of Renewable Energies into the Grid (2010).
[ BibTeX ]
 
@conference{Matthieu-P.2010a, author = {Schapranow, Matthieu-P. and Kühne, Ralph and Zeier, Alexander}, booktitle = {Power and Energy Student Summit 2010 - Integration of Renewable Energies into the Grid}, keywords = {myown}, title = {Real-Time Billing in Smart Grid Infrastructures}, year = 2010 }
3.
Müller, J., Schapranow, M.-P., Pöpke, C., Urbat, M., Zeier, A., Plattner, H.: Best Practices for Rigorous Evaluation of RFID Software Components. Proceedings of the 6th European Workshop on RFID Systems and Technologies (RFID !SysTech’10), Ciudad Real, Spain (2010).
[ BibTeX ]
 
@conference{Jürgen2010a, author = {Müller, Jürgen and Schapranow, Matthieu-P. and Pöpke, Conrad and Urbat, Michaela and Zeier, Alexander and Plattner, Hasso}, booktitle = {Proceedings of the 6th European Workshop on RFID Systems and Technologies (RFID !SysTech'10), Ciudad Real, Spain}, keywords = {myown}, title = {Best Practices for Rigorous Evaluation of RFID Software Components}, year = 2010 }
4.
Schapranow, M.-P., Zeier, A., Plattner, H.: A Dynamic Mutual RFID Authentication Model Preventing Unauthorized Third Party Access. The 4th International Conference on Network and System Security, , pp. 371-376 (2010).
[ BibTeX ]
 
@conference{Matthieu-P.2010a, author = {Schapranow, Matthieu-P. and Zeier, Alexander and Plattner, Hasso}, booktitle = {The 4th International Conference on Network and System Security, , pp. 371-376}, keywords = {myown}, title = {A Dynamic Mutual RFID Authentication Model Preventing Unauthorized Third Party Access}, year = 2010 }
5.
Schapranow, M.-P., Geller, F., Lorenz, M., Müller, J., Kowark, T., Zeier, A.: Assessment of Communication Protocols in the EPC Network: Replacing Textual SOAP and XML with Binary Google Protocol Buffers Encoding. 17th IEEE International Conference on Industrial Engineering and Engineering Management (IE&EM), Xiamen, China (2010).
[ BibTeX ]
 
@conference{Matthieu-P.2010a, author = {Schapranow, Matthieu-P. and Geller, Felix and Lorenz, Martin and Müller, Jürgen and Kowark, Thomas and Zeier, Alexander}, booktitle = {17th IEEE International Conference on Industrial Engineering and Engineering Management (IE&EM), Xiamen, China}, keywords = {myown}, title = {Assessment of Communication Protocols in the EPC Network: Replacing Textual SOAP and XML with Binary Google Protocol Buffers Encoding}, year = 2010 }
6.
Schapranow, M.-P., Kühne, R., Zeier, A.: Enabling Real-Time Charging for Smart Grid Infrastructures using In-Memory Databases. 1st IEEE LCN Workshop on Smart Grid Networking Infrastructure (2010).
[ BibTeX ]
 
@conference{Matthieu-P.2010b, author = {Schapranow, Matthieu-P. and Kühne, Ralph and Zeier, Alexander}, booktitle = {1st IEEE LCN Workshop on Smart Grid Networking Infrastructure}, keywords = {myown}, title = {Enabling Real-Time Charging for Smart Grid Infrastructures using In-Memory Databases}, year = 2010 }
7.
Schapranow, M.-P., Müller, J., Zeier, A., Plattner, H.: RFID Event Data Processing -- An Architecture for Storing and Searching. Proceedings of the 4th International Workshop on RFID Technology - Concepts, Applications, Challenges, Funchal, Madeira, Portugal (2010).
[ BibTeX ]
 
@conference{Matthieu-P.2010a, author = {Schapranow, Matthieu-P. and Müller, Jürgen and Zeier, Alexander and Plattner, Hasso}, booktitle = {Proceedings of the 4th International Workshop on RFID Technology - Concepts, Applications, Challenges, Funchal, Madeira, Portugal}, keywords = {myown}, title = {RFID Event Data Processing -- An Architecture for Storing and Searching}, year = 2010 }

2009

1.
Müller, J., Schapranow, M.-P., Helmich, M., Enderlein, S., Zeier, A.: RFID Middleware as a Service - Enabling Small and Medium-sized Enterprises to Participate in the EPC Network. 16th International Conference on Industrial Engineering and Engineering Management (IE&EM), Beijing, China (2009).
[ BibTeX ]
 
@conference{Jürgen2009a, author = {Müller, Jürgen and Schapranow, Matthieu-P. and Helmich, Marco and Enderlein, Sebastian and Zeier, Alexander}, booktitle = {16th International Conference on Industrial Engineering and Engineering Management (IE&EM), Beijing, China}, keywords = {myown}, title = {RFID Middleware as a Service - Enabling Small and Medium-sized Enterprises to Participate in the EPC Network}, year = 2009 }
2.
Borovskiy, V., Müller, J., Schapranow, M.-P., Zeier, A.: Ensuring Service Backwards Compatibility with Generic Web Services. Proceedings of ICSE 2009, PESOS Workshop, Vancouver, Canada (2009).
[ BibTeX ]
 
@conference{Vadym2009a, author = {Borovskiy, Vadym and Müller, Jürgen and Schapranow, Matthieu-P. and Zeier, Alexander}, booktitle = {Proceedings of ICSE 2009, PESOS Workshop, Vancouver, Canada}, keywords = {myown}, title = {Ensuring Service Backwards Compatibility with Generic Web Services}, year = 2009 }
3.
Schapranow, M.-P., Müller, J., Krüger, J., Hofmann, P., Zeier, A.: Integration of RFID Technology is a Key Enabler for Demand-Driven Supply Network. The IUP Journal of Supply Chain Management, Volume 6, Nos. 3 & 4, pp. 57-74. (2009).
[ BibTeX ]
 
@article{Matthieu-P.2009a, author = {Schapranow, Matthieu-P. and Müller, Jürgen and Krüger, Jens and Hofmann, Paul and Zeier, Alexander}, journal = {The IUP Journal of Supply Chain Management, Volume 6, Nos. 3 & 4, pp. 57-74}, keywords = {myown}, title = {Integration of RFID Technology is a Key Enabler for Demand-Driven Supply Network}, year = 2009 }
4.
Schapranow, M.-P., Müller, J., Zeier, A., Plattner, H.: Security Aspects in Vulnerable RFID-Aided Supply Chains. Proceedings of the 5th European Workshop on RFID Systems and Technologies, Bremen (2009).
[ BibTeX ]
 
@conference{Matthieu-P.2009a, author = {Schapranow, Matthieu-P. and Müller, Jürgen and Zeier, Alexander and Plattner, Hasso}, booktitle = {Proceedings of the 5th European Workshop on RFID Systems and Technologies, Bremen}, keywords = {myown}, title = {Security Aspects in Vulnerable RFID-Aided Supply Chains}, year = 2009 }
5.
Schapranow, M.-P., Müller, J., Enderlein, S., Helmich, M., Zeier, A.: Low-Cost Mutual RFID Authentication Model Using Predefined Password Lists. The 16th International Conference on Industrial Engineering and Engineering Management, pp. 889-893 (2009).
[ BibTeX ]
 
@conference{Matthieu-P.2009a, author = {Schapranow, Matthieu-P. and Müller, Jürgen and Enderlein, Sebastian and Helmich, Marco and Zeier, Alexander}, booktitle = {The 16th International Conference on Industrial Engineering and Engineering Management, pp. 889-893}, keywords = {myown}, title = {Low-Cost Mutual RFID Authentication Model Using Predefined Password Lists}, year = 2009 }
6.
Zeier, A., Schapranow, M.-P., Krüger, J., Uflacker, M., Müller, J.: noFilis CrossTalk 2.0 as Device Management Solution, Experiences while Integrating RFID Hardware into SAP Auto-ID Infrastructure. Proceedings of the 16th International Conference on Industrial Engineering and Engineering Management (IE&EM), Beijing, China (2009).
[ BibTeX ]
 
@conference{Alexander2009a, author = {Zeier, Alexander and Schapranow, Matthieu-P. and Krüger, Jens and Uflacker, Matthias and Müller, Jürgen}, booktitle = {Proceedings of the 16th International Conference on Industrial Engineering and Engineering Management (IE&EM), Beijing, China}, keywords = {myown}, title = {noFilis CrossTalk 2.0 as Device Management Solution, Experiences while Integrating RFID Hardware into SAP Auto-ID Infrastructure}, year = 2009 }
7.
Schapranow, M.-P., Krüger, J., Borovskiy, V., Zeier, A., Plattner, H.: Data Loading & Caching Strategies in Service-Oriented Enterprise Applications. Proceedings of IEEE Congress on Services (SERVICES 2009), Los Angeles, CA, USA (2009).
[ BibTeX ]
 
@conference{Matthieu-P.2009b, author = {Schapranow, Matthieu-P. and Krüger, Jens and Borovskiy, Vadym and Zeier, Alexander and Plattner, Hasso}, booktitle = {Proceedings of IEEE Congress on Services (SERVICES 2009), Los Angeles, CA, USA}, keywords = {myown}, title = {Data Loading & Caching Strategies in Service-Oriented Enterprise Applications}, year = 2009 }
8.
Müller, J., Faust, M., Schwalb, D., Schapranow, M.-P., Zeier, A., Plattner, H.: A Software as a Service RFID Middleware for Small and Medium-sized Enterprises. Proceedings of the 5th European Workshop on RFID Systems and Technologies (RFID !SysTech’09), Bremen, Germany (2009).
[ BibTeX ]
 
@conference{Jürgen2009a, author = {Müller, Jürgen and Faust, Martin and Schwalb, David and Schapranow, Matthieu-P. and Zeier, Alexander and Plattner, Hasso}, booktitle = {Proceedings of the 5th European Workshop on RFID Systems and Technologies (RFID !SysTech'09), Bremen, Germany}, keywords = {myown}, title = {A Software as a Service RFID Middleware for Small and Medium-sized Enterprises}, year = 2009 }
9.
Schapranow, M.-P., Zeier, A., Borovskiy, V., Müller, J.: Binary Search Tree Visualization Algorithm. 16th International Conference on Industrial Engineering and Engineering Management (IE&EM), Beijing, China (2009).
[ BibTeX ]
 
@conference{Matthieu-P.2009a, author = {Schapranow, Matthieu-P. and Zeier, Alexander and Borovskiy, Vadym and Müller, Jürgen}, booktitle = {16th International Conference on Industrial Engineering and Engineering Management (IE&EM), Beijing, China}, keywords = {myown}, title = {Binary Search Tree Visualization Algorithm}, year = 2009 }

2008

1.
Schapranow, M.-P., Grund, M., Krüger, J., Schaffner, J., Bog, A.: Combining Advantages - Unified Data Stores in Global Enterprises. IEEE Symposium on Advanced Management of Information for Globalized Enterprises (AMIGE’08), Tianjin, China (2008).
[ BibTeX ]
 
@conference{Matthieu-P.2008a, author = {Schapranow, Matthieu-P. and Grund, Martin and Krüger, Jens and Schaffner, Jan and Bog, Anja}, booktitle = {IEEE Symposium on Advanced Management of Information for Globalized Enterprises (AMIGE'08), Tianjin, China}, keywords = {myown}, title = {Combining Advantages - Unified Data Stores in Global Enterprises}, year = 2008 }
2.
Grund, M., Schaffner, J., Schapranow, M.-P., Bog, A., Krüger, J.: Operational Reporting Using Navigational SQL. IEEE Symposium on Advanced Management of Information for Globalized Enterprises (AMIGE’08), Tianjin, China (2008).
[ BibTeX ]
 
@conference{Martin2008a, author = {Grund, Martin and Schaffner, Jan and Schapranow, Matthieu-P. and Bog, Anja and Krüger, Jens}, booktitle = {IEEE Symposium on Advanced Management of Information for Globalized Enterprises (AMIGE'08), Tianjin, China}, keywords = {myown}, title = {Operational Reporting Using Navigational SQL}, year = 2008 }
3.
Schapranow, M.-P., Krüger, J.: HPI Students Learn with SAP Enterprise Services. SAP INFO (online). (2008).
[ BibTeX ]
 
@article{Matthieu-P.2008b, author = {Schapranow, Matthieu-P. and Krüger, Jens}, journal = {SAP INFO (online)}, keywords = {myown}, title = {HPI Students Learn with SAP Enterprise Services}, year = 2008 }
4.
Krüger, J., Grund, M., Schaffner, J., Schapranow, M.-P., Bog, A.: Shared Table Access Pattern Analysis for Multi-Tenant Applications. IEEE Symposium on Advanced Management of Information for Globalized Enterprises (AMIGE’08), Tianjin, China (2008).
[ BibTeX ]
 
@conference{Jens2008a, author = {Krüger, Jens and Grund, Martin and Schaffner, Jan and Schapranow, Matthieu-P. and Bog, Anja}, booktitle = {IEEE Symposium on Advanced Management of Information for Globalized Enterprises (AMIGE'08), Tianjin, China}, keywords = {myown}, title = {Shared Table Access Pattern Analysis for Multi-Tenant Applications}, year = 2008 }
5.
Schapranow, M.-P., Krüger, J., Müller, J.: Smart Enterprise Widgets: Little Helpers with a Big Impact. SAP INFO (online). (2008).
[ BibTeX ]
 
@article{Matthieu-P.2008a, author = {Schapranow, Matthieu-P. and Krüger, Jens and Müller, Jürgen}, journal = {SAP INFO (online)}, keywords = {myown}, title = {Smart Enterprise Widgets: Little Helpers with a Big Impact}, year = 2008 }