@proceedings {7110,
	title = {The Algebraic Path Problem for Graph Metrics},
	volume = {162},
	year = {2022},
	pages = {19178-19204},
	author = {Fita , E and Damrich, S. and Hamprecht, F A}
}
@phdthesis {7109,
	title = {Discovering Structure without Labels},
	year = {2022},
	author = {Damrich, S}
}
@article {7049,
	title = {Visualizing hierarchies in scRNA-seq data using a density tree-biased autoencoder},
	journal = {Bioinformatics},
	volume = {38 (Suppl 1)},
	number = { arXiv:2102.05892},
	year = {2022},
	pages = {i316-i324},
	publisher = {arXiv preprint},
	doi = {10.1093/bioinformatics/btac249 },
	author = {Garrido, Q and Damrich, S and J{\"a}ger, A and Cerletti, D and Claassen, M and Najman, L and Hamprecht, F A}
}
@article {7080,
	title = {Assignment Flow For Order-Constrained OCT Segmentation},
	journal = {Int J Computer Vision},
	volume = {129},
	year = {2021},
	chapter = {3088-3118},
	author = {Sitenko, D and Boll, B and Schn{\"o}rr, C}
}
@proceedings {7079,
	title = {Assignment Flows and Nonlocal PDEs on Graphs},
	year = {2021},
	author = {Gonzalez-Alvarado, D and Zeilmann, A and Schn{\"o}rr, C}
}
@proceedings {7078,
	title = {Assignment Flows and Nonlocal PDEs on Graphs},
	year = {2021},
	author = {Sitenko, D and Boll, B and Schn{\"o}rr, C}
}
@phdthesis {7074,
	title = {Bayesian Neural Networks for Probabilistic Machine Learning},
	year = {2021},
	publisher = {Heidelberg University},
	author = {Hau{\ss}mann, M}
}
@mastersthesis {7075,
	title = {Deep k-segments: a generalization of k-means},
	year = {2021},
	school = {Heidelberg University},
	author = {Ruiz, A}
}
@phdthesis {7066,
	title = {Deep Learning for Graph-Based Image Instance Segmentation},
	year = {2021},
	publisher = {Heidelberg University},
	author = {Bailoni, A}
}
@article {7032,
	title = {A Digital 3D Reference Atlas Reveals Cellular Growth Patterns Shaping the Arabidopsis Ovule},
	journal = {eLife},
	year = {2021},
	doi = {10.7554/eLife.63262},
	author = {Vijayan, A. and Tofanelli, R and Strauss, S and Cerrone, L and Wolny, A and Strohmeier, J and Kreshuk, A and Fred A. Hamprecht and Smith, R S and Schneitz, K}
}
@proceedings {7084,
	title = {Directed Probabilistic Watershed},
	volume = {34},
	year = {2021},
	author = {Fita, E and Damrich, S and Hamprecht, FA}
}
@unpublished {7061,
	title = {Evidential Turing Processes},
	number = {https://arxiv.org/abs/2106.01216},
	year = {2021},
	publisher = {arXiv preprint},
	url = {https://arxiv.org/abs/2106.01216},
	author = {Kandemir, M and Agk{\"u}l, A and Hau{\ss}mann, M and {\"U}nal, G}
}
@proceedings {7087,
	title = {Extensions of Karger{\textquoteright}s Algorithm: Why They Fail in Theory and How They Are Useful in Practice},
	year = {2021},
	pages = {4602-4611},
	author = {Jenner, E and Fita, E and Hamprecht, FA}
}
@article {7086,
	title = {Integration of Cell Growth and Asymmetric Division during Lateral Root Initiation in Arabidopsis thaliana},
	journal = {Plant and Cell Physiology},
	volume = {62},
	year = {2021},
	pages = {1269-1279},
	doi = {10.1093/pcp/pcab038},
	author = {Sch{\"u}tz, LM and Louveaux, M and Vilches-Barro, A and Bouziri, S and Cerrone, L and Wolny, A and Kreshuk, A and Hamprecht, FA and Maizel, A}
}
@techreport {7050,
	title = {ISTDECO: In Situ Transcriptomics Decoding by Deconvolution},
	year = {2021},
	institution = {bioRxiv},
	author = {Andersson, A and Diego, F and Hamprecht, F A and W{\"a}hlby, C}
}
@proceedings {7060,
	title = {Learning Partially Known Stochastic Dynamics with Empirical PAC Bayes},
	volume = {PMLR 130},
	year = {2021},
	pages = {478-486},
	author = {Manuel Hau{\ss}mann and Gerwinn, S and Look, A and Rakitsch, B and Kandemir, M}
}
@article {7022,
	title = {Microscopy-based assay for semi-quantitative detection of SARS-CoV-2 specific antibodies in human sera},
	journal = {BioEssays},
	volume = {43},
	year = {2021},
	doi = {10.1002/bies.202000257},
	author = {Pape, C and Remme, R and Wolny, A and Olberg, S and Wolf, S and Cerrone, L and Cortese, M and Klaus, S and Lucic, B and Ullrich, S and Anders-{\"O}sswein, M and Wolf, S and Cerikan, B and Neufeldt, C J and Ganter, M and Schnitzler, P and Merle, U and Lusic, M and Boulant, S and Stanifer, M and Bartenschlager, R and Hamprecht, F A and Kreshuk, A and Tischer, C and Kr{\"a}usslich, H.-G. and M{\"u}ller, B and Laketa, V}
}
@proceedings {7033,
	title = {MultiStar: Instance Segmentation of Overlapping Objects with Star-Convex Polygons},
	year = {2021},
	pages = {295-298},
	doi = {10.1109/ISBI48211.2021.9433769},
	author = {Walter, F C and Damrich, S and Hamprecht, FA}
}
@phdthesis {7065,
	title = {Scalable Instance Segmentation for Microscopy},
	year = {2021},
	publisher = {Heidelberg University},
	type = {PhD Thesis},
	author = {Pape, C}
}
@unpublished {7088,
	title = {Seipin forms a flexible cage at lipid droplet formation sites},
	year = {2021},
	publisher = {bioRxiv},
	doi = {10.1101/2021.08.05.45527},
	author = {Arlt, H and Sui, X and Folger, B and Adams, C and Chen, X and Remme, R and Hamprecht, FA and DiMaio, F and Liao, M and Goodman, JM and Farese, RV and Walther, TC}
}
@article {7048,
	title = {UMAP does not reproduce high-dimensional similarities due to negative sampling},
	number = {arXiv:2103.14608},
	year = {2021},
	publisher = {arXiv preprint},
	author = {Damrich, S and Hamprecht, F.H.}
}
@proceedings {7085,
	title = {On UMAP{\textquoteright}s True Loss Function},
	volume = {34},
	year = {2021},
	author = {Damrich, S and Hamprecht, FA}
}
@unpublished {7062,
	title = {Understanding Event-Generation Networks via Uncertainties},
	year = {2021},
	publisher = {arXiv preprint},
	url = {https://arxiv.org/abs/2104.04543v1},
	author = {Bellagente, M and Hau{\ss}mann, M and Luchmann, M and Plehn, T}
}
@article {7090,
	title = {Accurate and Versatile 3D Segmentation of Plant Tissues at Cellular Resolution},
	journal = {eLife},
	volume = {9},
	year = {2020},
	doi = {10.7554/eLife.57613},
	author = {Wolny, A and Cerrone, L and Vijayan, A and Tofanelli, R and Vilches-Barro, A and Louveaux, M and Wenzel, C and Strauss, S and Wilson-Sanchez, D and Lymbouridou, R and Steigleder, SS and Pape, C and Bailoni, A and Duran-Nebreda, S and Bassel, GW and Lohmann, JU and Tsiantis, M and Hamprecht, FA and Schneitz, K and Maizel, A and Kreshuk, A}
}
@proceedings {7059,
	title = {Bayesian Evidential Deep Learning with PAC Regularization },
	year = {2020},
	author = {Manuel Hau{\ss}mann and Gerwinn, S and Kandemir, M}
}
@proceedings {7089,
	title = {DISCo: Deep Learning, Instance Segmentation, and Correlations for Cell Segmentation in Calcium Imaging},
	year = {2020},
	pages = {151-162},
	author = {Kirschbaum, E and Bailoni, A and Hamprecht, FA}
}
@proceedings {7001,
	title = {Inpainting Networks Learn to Separate Cells in Microscopy Images},
	year = {2020},
	author = {Wolf, S. and Hamprecht, F A and Funke, J.}
}
@article {7092,
	title = {Instance Separation Emerges from Inpainting},
	journal = {arXiv preprint arXiv:2003.00891},
	year = {2020},
	author = {Wolf, S and Hamprecht, FA and Funke, J}
}
@phdthesis {6935,
	title = {Machine Learning for Instance Segmentation},
	year = {2020},
	publisher = {Heidelberg University},
	type = {PhD Thesis},
	author = {Wolf, S}
}
@proceedings {7005,
	title = {Proposal-Free Volumetric Instance Segmentation from Latent Single-Instance Masks},
	volume = {12544},
	year = {2020},
	pages = {331-344},
	publisher = {Springer},
	edition = {LNCS},
	doi = {10.1007/978-3-030-71278-5_24},
	author = {Bailoni, A and Pape, C and Wolf, S and Kreshuk, A. and Hamprecht, F A}
}
@proceedings {6990,
	title = {The Semantic Mutex Watershed for Efficient Bottom-Up Semantic Instance Segmentation},
	year = {2020},
	pages = {208-224},
	doi = {doi.org/10.1007/978-3-030-58539-6_13},
	author = {Wolf, S and Li, Y and Pape, C and Bailoni, A and Kreshuk, A and Hamprecht, F A}
}
@article {7083,
	title = {Experimental and computational analyses reveal that environmental restrictions shape HIV-1 spread in 3D cultures},
	journal = {Nature Communications},
	volume = {13;10(1)},
	year = {2019},
	doi = {10.1038/s41467-019-09879-3},
	author = {Imle, A and Kumberger, P and Schnellb{\"a}cher, ND and Fehr, J and Carillo-Bustamente, P and Ales, J and Schmidt, P and Ritter, C and Godinez, WJ and M{\"u}ller, B and Rohr, K and Hamprecht, FA and Schwarz, US and Graw, F and Fackler, OT}
}
@article {6348,
	title = {Fast Multivariate Log-Concave Density Estimation},
	journal = {Comp. Statistics \& Data Analysis},
	volume = {140},
	year = {2019},
	pages = {41-58},
	doi = {10.1016/j.csda.2019.04.005},
	author = {Rathke, F and Schn{\"o}rr, C}
}
@phdthesis {6991,
	title = {Machine learning under test-time budget constraints},
	year = {2019},
	publisher = {Heidelberg University},
	author = {Peter, S}
}
@mastersthesis {6936,
	title = {Novel Deep Learning-based Instance Segmentation Using Mutex Watershed for Microscopy Cell Images},
	year = {2019},
	school = {Heidelberg University},
	author = {Ravindran, A}
}
@mastersthesis {6937,
	title = {Tracking Dividing Cells Using Spatio-Temporal Embeddings},
	year = {2019},
	school = {Heidelberg University},
	author = {Xiao, S}
}
