@inproceedings{annanias:2021, title={Report on the Correction of Erroneous Geometry Data in Land Reuse Projects}, author={Annanias, Yves and Wahsner, Marc and Scheuermann, Gerik and Wiegreffe, Daniel}, year={2021}, booktitle = {Workshop on Systems to Support Renaturation Projects} }

@inproceedings{schroder2021mining, title={Supporting Land Reuse of Former Open Pit Mining Sitesusing Text Classification and Active Learning}, author={Schröder, Christopher and Bürgl, Kim and Annanias, Yves and Niekler, Andreas and Müller, Lydia and Wiegreffe, Daniel and Bender, Christian and Mengs, Christoph and Scheuermann, Gerik and Heyer, Gerhard}, journal={ACL-IJCNLP 2021}, year={2021} }

@article{Zeckzer_2020, DOI = {10.1186/s12859-020-03761-6}, author = {Dirk Zeckzer and Alrik Hausdorf and Nicole Hinzmann and Lydia Müller and Daniel Wiegreffe}, title = {Masakari: visualization supported statistical analysis of genome segmentations}, journal = {BMC Bioinformatics}, URL = {https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-03761-6}, year={2020} }

@inproceedings{HNWLevia2019, author = {Alrik Hausdorf and Andreas Niekler and Daniel Wiegreffe}, title = {LocalCompanies: Visual Analytics of spatial aligned regional companies}, booktitle = {LEVIA 2019: Leipzig Symposium on Visualization in Applications}, DOI={10.31219/osf.io/tsdfh}, url={https://osf.io/tsdfh}, year={2019} }

@article{wasserbau:2020, title={Einsatz von Künstlicher Intelligenz (KI) für die Optimierung von Planungsprozessen im Wasserbau}, author={Sankowska, P. and Kumbruck, N. and Möller, T. R. and Leyh, C. and Niekler, A. and Wiegreffe, D. }, journal={Wasserbauliche Mitteilungen 63}, pages={31--40}, publisher={Technische Universit\"at Dresden}, year={2020}, ISBN = {978-3-86780-627-5} }

@phdthesis{thesis, author = {Daniel Wiegreffe}, title = {Visual Analysis of Form and Function in Computational Biology}, school = {Leipzig University}, year = 2019, URL = {https://nbn-resolving.org/urn:nbn:de:bsz:15-qucosa2-344026}, }

@article{scads, title={Big Data Competence Center ScaDS Dresden/Leipzig: Overview and selected research activities}, author={Rahm, Erhard and Nagel, Wolfgang E and Peukert, Eric and J{\"a}kel, Ren{\'e} and G{\"a}rtner, Fabian and Stadler, Peter F and Wiegreffe, Daniel and Zeckzer, Dirk and Lehner, Wolfgang}, journal={Datenbank-Spektrum}, pages={1--12}, publisher={Springer}, year={2018}, URL = {https://doi.org/10.1007/s13222-018-00303-6} }

@article{doi:10.1093/bioinformatics/bty817, author = {Wiegreffe, Daniel and Alexander, Daniel and Stadler, Peter F and Zeckzer, Dirk}, title = {RNApuzzler: Efficient Outerplanar Drawing of RNA-Secondary Structures}, journal = {Bioinformatics}, volume = {}, number = {}, pages = {bty817}, year = {2018}, doi = {10.1093/bioinformatics/bty817}, URL = {http://dx.doi.org/10.1093/bioinformatics/bty817}, eprint = {/oup/backfile/content_public/journal/bioinformatics/pap/10.1093_bioinformatics_bty817/2/bty817.pdf} } @article {771, title = {The Sierra Platinum Service for generating peak-calls for replicated ChIP-seq experiments}, journal = {BMC Research Notes}, year = {2018}, month = {07/2018}, type = {Research Note}, abstract = { Objective

Sierra Platinum is a fast and robust peak-caller for replicated ChIP-seq experiments with visual quality-control and -steering. The required computing resources are optimized but still may exceed the resources available to researchers at biological research institutes. Results

Sierra Platinum Service provides the full functionality of Sierra Platinum: using a web interface, a new instance of the service can be generated. Then experimental data is uploaded and the computation of the peaks is started. Upon completion, the results can be inspected interactively and then downloaded for further analysis, at which point the service terminates. }, keywords = {ChIP-seq, Histone modifications, Peak-caller, Replicate analysis}, URL = {https://doi.org/10.1186/s13104-018-3633-x}, author = {Daniel Wiegreffe and Lydia Müller and Jens Steuck and Dirk Zeckzer and Peter F. Stadler} }

@article{zeckzer2018tibind, title={Analyzing Histone Modifications Using Tiled Binned Clustering and 3D Scatter Plots}, author={Dirk Zeckzer and Daniel Wiegreffe and Lydia Müller}, journal={Journal of WSCG}, volume={26}, year={2018}, URL = {https://doi.org/10.24132/JWSCG.2018.26.1.1}, publisher={Computer Science Research Notes} } @inproceedings{gerighausen2017idotter, title={iDotter - an interactive dot plot viewer}, author={Daniel Gerighausen and Alrik Hausdorf and Sebastian Zänker and Dirk Zeckzer}, booktitle={25th International Conference in Central Europe on Computer Graphics, Visualization and Computer Vision 2017}, year={2017}, organization={WSCG} } @article{berto2016consensus, title={A consensus network of gene regulatory factors in the human frontal lobe}, author={Stefano Berto and Alvaro Perdomo-Sabogal and Daniel Gerighausen and Jing Qin and Katja Nowick}, journal={Frontiers in genetics}, volume={7}, year={2016}, publisher={Frontiers Media SA}, URL = {https://doi.org/10.3389/fgene.2016.00031} }

@article{zeckzer2014analyzing, title={Analyzing Chromatin Using Tiled Binned Scatterplot Matrices}, author={Dirk Zeckzer and Daniel Gerighausen and Lydia Steiner and Sonja J. Prohaska}, journal={IEEE BioVis 2014}, year={2014} }

@inproceedings{zeckzer2016analyzing, title={Analyzing Histone Modifications in iPS Cells Using Tiled Binned 3D Scatter Plots}, author={Dirk Zeckzer and Daniel Gerighausen and Lydia Müller}, booktitle={Big Data Visual Analytics (BDVA), 2016}, pages={1--8}, year={2016}, organization={IEEE}, URL = {https://doi.org/10.1109/BDVA.2016.7787042} } @article{muller2016sierra, title={Sierra platinum: a fast and robust peak-caller for replicated ChIP-seq experiments with visual quality-control and-steering}, author={Lydia Müller and Daniel Gerighausen and Mariam Farman and Dirk Zeckzer}, journal={BMC Bioinformatics}, volume={17}, number={1}, pages={377}, year={2016}, publisher={BioMed Central}, URL = {https://doi.org/10.1186/s12859-016-1248-6} } @article{feist2014using, title={Using Significant Word Co-occurences for the Lexical Access Problem}, author={Rico Feist and Daniel Gerighausen and Manuel Konrad and Georg Richter and Thomas Eckart and Dirk Goldhahn and Uwe Quasthoff}, journal={COLING 2014}, pages={46}, year={2014}, URL = {http://dx.doi.org/10.3115/v1/W14-4706}, publisher={Citeseer} } @book{gerighausen2013kombination, title={Kombination von K-means++ Clustering und PCA zur Analyse von Chromatin-Daten}, author={Daniel Gerighausen}, year={2013}, URL = {https://nbn-resolving.org/urn:nbn:de:bsz:15-qucosa2-171486} } @book{gerighausen2015tibi3d, title={TiBi-3D – a Guide through the World of Epigenetics}, author={Daniel Gerighausen}, year={2015}, URL = {https://nbn-resolving.org/urn:nbn:de:bsz:15-qucosa2-172276} }