@misc{PerscheidFaberKrausetal.2018, author = {Perscheid, Cindy and Faber, Lukas and Kraus, Milena and Arndt, Paul and Janke, Michael and Rehfeldt, Sebastian and Schubotz, Antje and Slosarek, Tamara and Uflacker, Matthias}, title = {A tissue-aware gene selection approach for analyzing multi-tissue gene expression data}, series = {2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)}, journal = {2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)}, publisher = {IEEE}, address = {New York}, isbn = {978-1-5386-5488-0}, issn = {2156-1125}, doi = {10.1109/BIBM.2018.8621189}, pages = {2159 -- 2166}, year = {2018}, abstract = {High-throughput RNA sequencing (RNAseq) produces large data sets containing expression levels of thousands of genes. The analysis of RNAseq data leads to a better understanding of gene functions and interactions, which eventually helps to study diseases like cancer and develop effective treatments. Large-scale RNAseq expression studies on cancer comprise samples from multiple cancer types and aim to identify their distinct molecular characteristics. Analyzing samples from different cancer types implies analyzing samples from different tissue origin. Such multi-tissue RNAseq data sets require a meaningful analysis that accounts for the inherent tissue-related bias: The identified characteristics must not originate from the differences in tissue types, but from the actual differences in cancer types. However, current analysis procedures do not incorporate that aspect. As a result, we propose to integrate a tissue-awareness into the analysis of multi-tissue RNAseq data. We introduce an extension for gene selection that provides a tissue-wise context for every gene and can be flexibly combined with any existing gene selection approach. We suggest to expand conventional evaluation by additional metrics that are sensitive to the tissue-related bias. Evaluations show that especially low complexity gene selection approaches profit from introducing tissue-awareness.}, language = {en} } @misc{HesseMatthiesSinzigetal.2019, author = {Hesse, Guenter and Matthies, Christoph and Sinzig, Werner and Uflacker, Matthias}, title = {Adding Value by Combining Business and Sensor Data}, series = {Database Systems for Advanced Applications}, volume = {11448}, journal = {Database Systems for Advanced Applications}, publisher = {Springer}, address = {Cham}, isbn = {978-3-030-18590-9}, issn = {0302-9743}, doi = {10.1007/978-3-030-18590-9_80}, pages = {528 -- 532}, year = {2019}, abstract = {Industry 4.0 and the Internet of Things are recent developments that have lead to the creation of new kinds of manufacturing data. Linking this new kind of sensor data to traditional business information is crucial for enterprises to take advantage of the data's full potential. In this paper, we present a demo which allows experiencing this data integration, both vertically between technical and business contexts and horizontally along the value chain. The tool simulates a manufacturing company, continuously producing both business and sensor data, and supports issuing ad-hoc queries that answer specific questions related to the business. In order to adapt to different environments, users can configure sensor characteristics to their needs.}, language = {en} } @article{UflackerKowarkZeier2011, author = {Uflacker, Matthias and Kowark, Thomas and Zeier, Alexander}, title = {An instrument for real-time design interaction capture}, isbn = {978-3-642-13756-3}, year = {2011}, language = {en} } @misc{SerthPodlesnyBornsteinetal.2017, author = {Serth, Sebastian and Podlesny, Nikolai and Bornstein, Marvin and Lindemann, Jan and Latt, Johanna and Selke, Jan and Schlosser, Rainer and Boissier, Martin and Uflacker, Matthias}, title = {An interactive platform to simulate dynamic pricing competition on online marketplaces}, series = {2017 IEEE 21st International Enterprise Distributed Object Computing Conference (EDOC)}, journal = {2017 IEEE 21st International Enterprise Distributed Object Computing Conference (EDOC)}, publisher = {Institute of Electrical and Electronics Engineers}, address = {New York}, isbn = {978-1-5090-3045-3}, issn = {2325-6354}, doi = {10.1109/EDOC.2017.17}, pages = {61 -- 66}, year = {2017}, abstract = {E-commerce marketplaces are highly dynamic with constant competition. While this competition is challenging for many merchants, it also provides plenty of opportunities, e.g., by allowing them to automatically adjust prices in order to react to changing market situations. For practitioners however, testing automated pricing strategies is time-consuming and potentially hazardously when done in production. Researchers, on the other side, struggle to study how pricing strategies interact under heavy competition. As a consequence, we built an open continuous time framework to simulate dynamic pricing competition called Price Wars. The microservice-based architecture provides a scalable platform for large competitions with dozens of merchants and a large random stream of consumers. Our platform stores each event in a distributed log. This allows to provide different performance measures enabling users to compare profit and revenue of various repricing strategies in real-time. For researchers, price trajectories are shown which ease evaluating mutual price reactions of competing strategies. Furthermore, merchants can access historical marketplace data and apply machine learning. By providing a set of customizable, artificial merchants, users can easily simulate both simple rule-based strategies as well as sophisticated data-driven strategies using demand learning to optimize their pricing strategies.}, language = {en} } @article{SchlosserWaltherBoissieretal.2019, author = {Schlosser, Rainer and Walther, Carsten and Boissier, Martin and Uflacker, Matthias}, title = {Automated repricing and ordering strategies in competitive markets}, series = {AI communications : AICOM ; the European journal on artificial intelligence}, volume = {32}, journal = {AI communications : AICOM ; the European journal on artificial intelligence}, number = {1}, publisher = {IOS Press}, address = {Amsterdam}, issn = {0921-7126}, doi = {10.3233/AIC-180603}, pages = {15 -- 29}, year = {2019}, abstract = {Merchants on modern e-commerce platforms face a highly competitive environment. They compete against each other using automated dynamic pricing and ordering strategies. Successfully managing both inventory levels as well as offer prices is a challenging task as (i) demand is uncertain, (ii) competitors strategically interact, and (iii) optimized pricing and ordering decisions are mutually dependent. We show how to derive optimized data-driven pricing and ordering strategies which are based on demand learning techniques and efficient dynamic optimization models. We verify the superior performance of our self-adaptive strategies by comparing them to different rule-based as well as data-driven strategies in duopoly and oligopoly settings. Further, to study and to optimize joint dynamic ordering and pricing strategies on online marketplaces, we built an interactive simulation platform. To be both flexible and scalable, the platform has a microservice-based architecture and allows handling dozens of competing merchants and streams of consumers with configurable characteristics.}, language = {en} } @article{Uflacker2010, author = {Uflacker, Matthias}, title = {Computational analysis of virtual team collaboration in teh early stages of engineering design}, isbn = {978-3-86956-036-6}, year = {2010}, language = {en} } @book{RanaMohapatraSidorovaetal.2022, author = {Rana, Kaushik and Mohapatra, Durga Prasad and Sidorova, Julia and Lundberg, Lars and Sk{\"o}ld, Lars and Lopes Grim, Lu{\´i}s Fernando and Sampaio Gradvohl, Andr{\´e} Leon and Cremerius, Jonas and Siegert, Simon and Weltzien, Anton von and Baldi, Annika and Klessascheck, Finn and Kalancha, Svitlana and Lichtenstein, Tom and Shaabani, Nuhad and Meinel, Christoph and Friedrich, Tobias and Lenzner, Pascal and Schumann, David and Wiese, Ingmar and Sarna, Nicole and Wiese, Lena and Tashkandi, Araek Sami and van der Walt, Est{\´e}e and Eloff, Jan H. P. and Schmidt, Christopher and H{\"u}gle, Johannes and Horschig, Siegfried and Uflacker, Matthias and Najafi, Pejman and Sapegin, Andrey and Cheng, Feng and Stojanovic, Dragan and Stojnev Ilić, Aleksandra and Djordjevic, Igor and Stojanovic, Natalija and Predic, Bratislav and Gonz{\´a}lez-Jim{\´e}nez, Mario and de Lara, Juan and Mischkewitz, Sven and Kainz, Bernhard and van Hoorn, Andr{\´e} and Ferme, Vincenzo and Schulz, Henning and Knigge, Marlene and Hecht, Sonja and Prifti, Loina and Krcmar, Helmut and Fabian, Benjamin and Ermakova, Tatiana and Kelkel, Stefan and Baumann, Annika and Morgenstern, Laura and Plauth, Max and Eberhard, Felix and Wolff, Felix and Polze, Andreas and Cech, Tim and Danz, Noel and Noack, Nele Sina and Pirl, Lukas and Beilharz, Jossekin Jakob and De Oliveira, Roberto C. L. and Soares, F{\´a}bio Mendes and Juiz, Carlos and Bermejo, Belen and M{\"u}hle, Alexander and Gr{\"u}ner, Andreas and Saxena, Vageesh and Gayvoronskaya, Tatiana and Weyand, Christopher and Krause, Mirko and Frank, Markus and Bischoff, Sebastian and Behrens, Freya and R{\"u}ckin, Julius and Ziegler, Adrian and Vogel, Thomas and Tran, Chinh and Moser, Irene and Grunske, Lars and Sz{\´a}rnyas, G{\´a}bor and Marton, J{\´o}zsef and Maginecz, J{\´a}nos and Varr{\´o}, D{\´a}niel and Antal, J{\´a}nos Benjamin}, title = {HPI Future SOC Lab - Proceedings 2018}, number = {151}, editor = {Meinel, Christoph and Polze, Andreas and Beins, Karsten and Strotmann, Rolf and Seibold, Ulrich and R{\"o}dszus, Kurt and M{\"u}ller, J{\"u}rgen}, publisher = {Universit{\"a}tsverlag Potsdam}, address = {Potsdam}, isbn = {978-3-86956-547-7}, issn = {1613-5652}, doi = {10.25932/publishup-56371}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-563712}, publisher = {Universit{\"a}t Potsdam}, pages = {x, 277}, year = {2022}, abstract = {The "HPI Future SOC Lab" is a cooperation of the Hasso Plattner Institute (HPI) and industry partners. Its mission is to enable and promote exchange and interaction between the research community and the industry partners. The HPI Future SOC Lab provides researchers with free of charge access to a complete infrastructure of state of the art hard and software. This infrastructure includes components, which might be too expensive for an ordinary research environment, such as servers with up to 64 cores and 2 TB main memory. The offerings address researchers particularly from but not limited to the areas of computer science and business information systems. Main areas of research include cloud computing, parallelization, and In-Memory technologies. This technical report presents results of research projects executed in 2018. Selected projects have presented their results on April 17th and November 14th 2017 at the Future SOC Lab Day events.}, language = {en} } @misc{PerscheidUflacker2019, author = {Perscheid, Cindy and Uflacker, Matthias}, title = {Integrating Biological Context into the Analysis of Gene Expression Data}, series = {Distributed Computing and Artificial Intelligence, Special Sessions, 15th International Conference}, volume = {801}, journal = {Distributed Computing and Artificial Intelligence, Special Sessions, 15th International Conference}, publisher = {Springer}, address = {Cham}, isbn = {978-3-319-99608-0}, issn = {2194-5357}, doi = {10.1007/978-3-319-99608-0_41}, pages = {339 -- 343}, year = {2019}, abstract = {High-throughput RNA sequencing produces large gene expression datasets whose analysis leads to a better understanding of diseases like cancer. The nature of RNA-Seq data poses challenges to its analysis in terms of its high dimensionality, noise, and complexity of the underlying biological processes. Researchers apply traditional machine learning approaches, e. g. hierarchical clustering, to analyze this data. Until it comes to validation of the results, the analysis is based on the provided data only and completely misses the biological context. However, gene expression data follows particular patterns - the underlying biological processes. In our research, we aim to integrate the available biological knowledge earlier in the analysis process. We want to adapt state-of-the-art data mining algorithms to consider the biological context in their computations and deliver meaningful results for researchers.}, language = {en} } @article{PerscheidGrasnickUflacker2019, author = {Perscheid, Cindy and Grasnick, Bastien and Uflacker, Matthias}, title = {Integrative Gene Selection on Gene Expression Data}, series = {Journal of Integrative Bioinformatics}, volume = {16}, journal = {Journal of Integrative Bioinformatics}, number = {1}, publisher = {De Gruyter}, address = {Berlin}, issn = {1613-4516}, doi = {10.1515/jib-2018-0064}, pages = {17}, year = {2019}, abstract = {The advance of high-throughput RNA-Sequencing techniques enables researchers to analyze the complete gene activity in particular cells. From the insights of such analyses, researchers can identify disease-specific expression profiles, thus understand complex diseases like cancer, and eventually develop effective measures for diagnosis and treatment. The high dimensionality of gene expression data poses challenges to its computational analysis, which is addressed with measures of gene selection. Traditional gene selection approaches base their findings on statistical analyses of the actual expression levels, which implies several drawbacks when it comes to accurately identifying the underlying biological processes. In turn, integrative approaches include curated information on biological processes from external knowledge bases during gene selection, which promises to lead to better interpretability and improved predictive performance. Our work compares the performance of traditional and integrative gene selection approaches. Moreover, we propose a straightforward approach to integrate external knowledge with traditional gene selection approaches. We introduce a framework enabling the automatic external knowledge integration, gene selection, and evaluation. Evaluation results prove our framework to be a useful tool for evaluation and show that integration of external knowledge improves overall analysis results.}, language = {en} } @misc{PodlesnyKayemvonSchorlemeretal.2018, author = {Podlesny, Nikolai Jannik and Kayem, Anne V. D. M. and von Schorlemer, Stephan and Uflacker, Matthias}, title = {Minimising Information Loss on Anonymised High Dimensional Data with Greedy In-Memory Processing}, series = {Database and Expert Systems Applications, DEXA 2018, PT I}, volume = {11029}, journal = {Database and Expert Systems Applications, DEXA 2018, PT I}, publisher = {Springer}, address = {Cham}, isbn = {978-3-319-98809-2}, issn = {0302-9743}, doi = {10.1007/978-3-319-98809-2_6}, pages = {85 -- 100}, year = {2018}, abstract = {Minimising information loss on anonymised high dimensional data is important for data utility. Syntactic data anonymisation algorithms address this issue by generating datasets that are neither use-case specific nor dependent on runtime specifications. This results in anonymised datasets that can be re-used in different scenarios which is performance efficient. However, syntactic data anonymisation algorithms incur high information loss on high dimensional data, making the data unusable for analytics. In this paper, we propose an optimised exact quasi-identifier identification scheme, based on the notion of k-anonymity, to generate anonymised high dimensional datasets efficiently, and with low information loss. The optimised exact quasi-identifier identification scheme works by identifying and eliminating maximal partial unique column combination (mpUCC) attributes that endanger anonymity. By using in-memory processing to handle the attribute selection procedure, we significantly reduce the processing time required. We evaluated the effectiveness of our proposed approach with an enriched dataset drawn from multiple real-world data sources, and augmented with synthetic values generated in close alignment with the real-world data distributions. Our results indicate that in-memory processing drops attribute selection time for the mpUCC candidates from 400s to 100s, while significantly reducing information loss. In addition, we achieve a time complexity speed-up of O(3(n/3)) approximate to O(1.4422(n)).}, language = {en} }