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1Automated Configuration of Schema Matching Tools: A Reinforcement Learning Approach
M. Miazga, D. Abitz, M. Täschner, and E. Rahm. Datenbanksysteme für Business, Technologie und Web (BTW 2025), Gesellschaft für Informatik, Bonn, (2025)
21 days ago by @scadsfct
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2Beyond the black box with biologically informed neural networks
D. Selby, M. Sprang, J. Ewald, and S. Vollmer. Nature Reviews Genetics, (Mar 4, 2025)
21 days ago by @scadsfct
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2Computational Engineering of siderocalin to modulate its binding affinity to the antihypertension drug candesartan
K. Vogel, J. Moeller, N. Bozhanova, M. Voehler, A. Penk, J. Meiler, and C. Schoeder. Journal of Structural Biology, 217 (1): 108180 (2025)
29 days ago by @scadsfct
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2Visible neural networks for multi-omics integration: a critical review
D. Selby, R. Jakhmola, M. Sprang, G. Grossmann, H. Raki, N. Maani, D. Pavliuk, J. Ewald, and S. Vollmer. bioRxiv, (2024)
a month ago by @scadsfct
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2Zero-Shot, Big-Shot, Active-Shot - How to estimate cell confluence, lazily
M. Joas, D. Freund, R. Haase, E. Rahm, and J. Ewald. bioRxiv, (2025)
a month ago by @scadsfct
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2Single-cell transcriptomics and epigenomics point to CD58-CD2 interaction in controlling primary melanoma growth and immunity
A. Stubenvoll, M. Schmidt, J. Moeller, M. Chango, C. Schultz, O. Antoniadou, H. Loeffler-Wirth, S. Bernhart, F. Große, B. Thier and 7 other author(s). Cancer Communications, (January 2025)
2 months ago by @scadsfct
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2Self-supervised learning in histopathology: New perspectives for prostate cancer grading
M. Bauer, and C. Augenstein. Lecture Notes in Computer Science, Springer Nature Switzerland, Cham, (2024)
3 months ago by @scadsfct
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1Metrics reloaded: recommendations for image analysis validation
L. Maier-Hein, A. Reinke, P. Godau, M. Tizabi, F. Buettner, E. Christodoulou, B. Glocker, F. Isensee, J. Kleesiek, M. Kozubek and 2 other author(s). Nature methods, 21 (2): 195--212 (2024)
4 months ago by @scadsfct
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1Gut Analysis Toolbox--automating quantitative analysis of enteric neurons
L. Sorensen, A. Humenick, S. Poon, M. Han, N. Mahdavian, M. Rowe, R. Hamnett, E. Gómez-de Mariscal, P. Neckel, A. Saito and 2 other author(s). Journal of Cell Science, (2024)
4 months ago by @scadsfct
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1A numerical solver for active hydrodynamics in three dimensions and its application to active turbulence
A. Singh, {. Suhrcke, P. Incardona, and {. Sbalzarini. Physics of fluids, (Oct 1, 2023)Publisher Copyright: © 2023 Author(s)..
4 months ago by @scadsfct
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1Adaptive weighting of Bayesian physics informed neural networks for multitask and multiscale forward and inverse problems
S. Perez, S. Maddu, {. Sbalzarini, and P. Poncet. Journal of computational physics, (Oct 15, 2023)Publisher Copyright: © 2023 The Author(s).
4 months ago by @scadsfct
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1Learning deterministic hydrodynamic equations from stochastic active particle dynamics
S. Maddu, Q. Vagne, and {. Sbalzarini. WorkingPaper, (Jan 21, 2022)
4 months ago by @scadsfct
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1STENCIL-NET for equation-free forecasting from data
S. Maddu, D. Sturm, {. Cheeseman, {. Müller, and {. Sbalzarini. Scientific reports, (December 2023)Publisher Copyright: © 2023, Springer Nature Limited..
4 months ago by @scadsfct
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1Inverse Dirichlet weighting enables reliable training of physics informed neural networks
S. Maddu, D. Sturm, {. Mueller, and {. Sbalzarini. Machine learning: science and technology, (Feb 15, 2022)Funding Information: This work was supported by the German Research Foundation (DFG) – EXC-2068, Cluster of Excellence ‘Physics of Life’, and by the Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI) Dresden/Leipzig, funded by the Federal Ministry of Education and Research (BMBF). The present work was also partly funded by the Center for Advanced Systems Understanding (CASUS), which is financed by Germany’s Federal Ministry of Education and Research (BMBF) and by the Saxon Ministry for Science, Culture and Tourism (SMWK) with tax funds on the basis of the budget approved by the Saxon State Parliament. Publisher Copyright: © 2022 The Author(s). Published by IOP Publishing Ltd..
4 months ago by @scadsfct
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1Spontaneous flow instabilities of active polar fluids in three dimensions
A. Singh, Q. Vagne, F. Jülicher, and {. Sbalzarini. Physical Review Research, (April 2023)Funding Information: Acknowledgments. This work was supported by the Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI) Dresden/Leipzig, funded by the Federal Ministry of Education and Research (BMBF, Bundesministerium für Bildung und Forschung). We thank the Scientific Computing Facility of MPI-CBG and the Center for Information Services and High Performance Computing (ZIH) of TU Dresden for providing the compute resources for the numerical simulations. We thank Philipp Suhrcke (Sbalzarini group) and the anonymous referees for their constructive comments. Publisher Copyright: © 2023 authors. Published by the American Physical Society..
4 months ago by @scadsfct
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1The Rad52 SSAP superfamily and new insight into homologous recombination
A. Al-Fatlawi, M. Schroeder, and {. Stewart. Communications biology, (Jan 23, 2023)Funding Information: We gratefully acknowledge support from ZIH of TU Dresden and the BMBF Project scads.ai..
4 months ago by @scadsfct
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1Is Protein BLAST a thing of the past?
A. Al-Fatlawi, M. Menzel, and M. Schroeder. Nature communications, (Dec 11, 2023)
4 months ago by @scadsfct
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1Diatom adhesive trail proteins acquired by horizontal gene transfer from bacteria serve as primers for marine biofilm formation
J. Zackova Suchanova, G. Bilcke, B. Romanowska, A. Fatlawi, M. Pippel, A. Skeffington, M. Schroeder, W. Vyverman, K. Vandepoele, N. Kröger and 1 other author(s). New Phytologist, 240 (2): 770--783 (Aug 7, 2023)Publisher Copyright: © 2023 The Authors New Phytologist © 2023 New Phytologist Foundation. We acknowledge the support of the Core Facility Mass Spectrometry & Proteomics, Light Microscopy Facility and the Dresden‐concept Genome Center of the Technology Platform of the Center for Molecular and Cellular Bioengineering (CMCB) of the TU Dresden..
4 months ago by @scadsfct
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1Word-based GWAS harnesses the rich potential of genomic data for E. coli quinolone resistance
N. Malekian, S. Sainath, A. Al-Fatlawi, and M. Schroeder. Frontiers in microbiology, (2023)Copyright © 2023 Malekian, Sainath, Al-Fatlawi and Schroeder..
4 months ago by @scadsfct
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1Netrank: network-based approach for biomarker discovery
A. Al-Fatlawi, E. Rusadze, A. Shmelkin, N. Malekian, C. Ozen, C. Pilarsky, and M. Schroeder. BMC bioinformatics, (Jul 29, 2023)Publisher Copyright: © 2023, The Author(s)..
4 months ago by @scadsfct
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publications (hide)28
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1Automated Configuration of Schema Matching Tools: A Reinforcement Learning Approach

2Beyond the black box with biologically informed neural networks

2Computational Engineering of siderocalin to modulate its binding affinity to the antihypertension drug candesartan

2Visible neural networks for multi-omics integration: a critical review

2Zero-Shot, Big-Shot, Active-Shot - How to estimate cell confluence, lazily

2Single-cell transcriptomics and epigenomics point to CD58-CD2 interaction in controlling primary melanoma growth and immunity

2Self-supervised learning in histopathology: New perspectives for prostate cancer grading

1Metrics reloaded: recommendations for image analysis validation

1Gut Analysis Toolbox--automating quantitative analysis of enteric neurons

1A numerical solver for active hydrodynamics in three dimensions and its application to active turbulence

1Adaptive weighting of Bayesian physics informed neural networks for multitask and multiscale forward and inverse problems

1Learning deterministic hydrodynamic equations from stochastic active particle dynamics

1STENCIL-NET for equation-free forecasting from data

1Inverse Dirichlet weighting enables reliable training of physics informed neural networks

1Spontaneous flow instabilities of active polar fluids in three dimensions

1The Rad52 SSAP superfamily and new insight into homologous recombination

1Is Protein BLAST a thing of the past?

1Diatom adhesive trail proteins acquired by horizontal gene transfer from bacteria serve as primers for marine biofilm formation

1Word-based GWAS harnesses the rich potential of genomic data for E. coli quinolone resistance

1Netrank: network-based approach for biomarker discovery

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