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No Free Lunch in Annotation either: An objective evaluation of foundation models for streamlining annotation in animal tracking2025 arXiv (Cornell University) preprint Computer Science Video Surveillance and Tracking Methods Open access
Emil Mededovic, Valdy Laurentius, Yuli Wu, Marcin Kopaczka, Chen Zhu, Mareike Schulz, +2 more
0citations -
Large Language Model Hacking: Quantifying the Hidden Risks of Using LLMs for Text Annotation2025 arXiv (Cornell University) preprint Social Sciences Computational and Text Analysis Methods Open access
Paul Röttger, Aleksandra Urman, Albert Wendsjö, Flor Miriam Plaza-del-Arco, Johannes B. Gruber, Dirk Hovy
87citations -
TEtrimmer: a novel tool to automate the manual curation of transposable elements2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Agricultural and Biological Sciences Chromosomal and Genetic Variations Open access
Jiangzhao Qian, Hang Xue, Shujun Ou, Jessica M. Storer, Lisa Fürtauer, Mary C. Wildermuth, +2 more
7citations -
SwarmMAP: Swarm Learning for Decentralized Cell Type Annotation in Single Cell Sequencing Data2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Single-cell and spatial transcriptomics Open access
Oliver Lester Saldanha, Vivien Goepp, Hyojin Kim, Jie Ping Zhu, Rafael Kramann, Sikander Hayat, +1 more
1citations -
Annotating Data for Fine-Tuning a Neural Ranker? Current Active Learning Strategies are not Better than Random Selection2023 arXiv (Cornell University) preprint Computer Science Information Retrieval and Search Behavior Open access
Sophia Althammer, Guido Zuccon, Sebastian Hofstätter, Suzan Verberne, Allan Hanbury
0citations -
On distinguishing between canonical tRNA genes and tRNA gene fragments in prokaryotes2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology RNA and protein synthesis mechanisms Open access
Peter T. S. van der Gulik, Martijn Egas, Ken Kraaijeveld, Nina Dombrowski, Astrid T. Groot, Anja Spang, +2 more
0citations -
Genome-enabled insights into the biology of thrips as crop pests2020 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Insect Resistance and Genetics Open access
Dorith Rotenberg, Aaron A. Baumann, Sulley K. Ben-Mahmoud, Olivier Christiaens, Wannes Dermauw, Panagiotis Ioannidis, +50 more
15citations -
Evaluation of SURUS: a Named Entity Recognition System to Extract Knowledge from Interventional Study Records2024 medRxiv preprint Biochemistry, Genetics and Molecular Biology Biomedical Text Mining and Ontologies Open access
Casper Peeters, Koen Vijverberg, Marianne G. Pouwer, Bart A. Westerman, Maikel Boot, Suzan Verberne
1citations -
FERMO: a Dashboard for Automated Prioritization of Molecular Features from Mass Spectral Data2022 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Metabolomics and Mass Spectrometry Studies Open access
Mitja M. Zdouc, Hannah E. Augustijn, Nataliia V. Machushynets, Lina M. Bayona, Sylvia Soldatou, Niek De Jonge, +5 more
17citations -
UnitRefine: A Community Toolbox for Automated Spike Sorting Curation2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Neuroscience and Neural Engineering Open access
Anoushka Jain, Chris Halcrow, Alexander Kleinjohann, Federico Spurio, Severin Graff, Jüergen Gall, +3 more
12citations -
UTILE-Gen: Automated Image Analysis in Nanoscience Using Synthetic Dataset Generator and Deep Learning2023 ChemRxiv preprint Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access
André Colliard-Granero, Jenia Jitsev, Michael Hermann Eikerling, Kourosh Malek, Mohammad J. Eslamibidgoli
0citations -
Subcortical Segmentation of the Fetal Brain in 3D Ultrasound using Deep Learning2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Computer Science Medical Image Segmentation Techniques Open access
Linde S. Hesse, Moska Aliasi, Felipe A. Moser, Monique C. Haak, Weidi Xie, Mark Jenkinson, +1 more
4citations -
FLAG-X: Hybrid machine learning workflows for automated gating of clinical flow cytometry data2026 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access
Paul Martini, Marziyeh Mohammadi, Michael Christoph Thrun, David B. Blumenthal, Stefan W. Krause
1citations