Stephan Preibisch

Publications

• Cap-dependent translation initiation monitored in living cells
• RS-FISH: Precise, interactive, fast, and scalable FISH spot detection
• Light sheet fluorescence microscopy
• FRC-QE: A robust and comparable 3D microscopy image quality metric for cleared organoids
• Image-based representation of massive spatial transcriptomics datasets
• Dual-view light-sheet imaging through tilted glass interface using a deformable mirror
• Brain-wide circuit interrogation at the cellular level guided by online analysis of neuronal function
• Bioimage Informatics in the context of Drosophila research
• Efficient Bayesian-based multiview deconvolution
• MTrack: Automated Detection, Tracking, and Analysis of Dynamic Microtubules
• Architecture and dynamics of a novel desmosome-endoplasmic reticulum organelle
• Stochastic transcription in the p53-mediated response to DNA damage is modulated by burst frequency
• Automated Reconstruction of Whole-Embryo Cell Lineages by Learning from Sparse Annotations
• Dual-view light-sheet imaging through a tilted glass interface using a deformable mirror
• Long-term imaging reveals behavioral plasticity during C. elegans dauer exit
• RS-FISH: Precise, interactive, fast, and scalable FISH spot detection
• Calibration of Microarray Gene-Expression Data
• BigDataViewer: visualization and processing for large image data sets
• Specific and Nonspecific Hybridization of Oligonucleotide Probes on Microarrays
• Bead-based mosaicing of single plane illumination microscopy images using geometric local descriptor matching
• TrakEM2 Software for Neural Circuit Reconstruction
• "Hook"-calibration of GeneChip-microarrays: Chip characteristics and expression measures
• Mosaicing of single plane illumination microscopy images using groupwise registration and fast content-based image fusion
• Using Light Sheet Fluorescence Microscopy to Image Zebrafish Eye Development
• An automated workflow for parallel processing of large multiview SPIM recordings
• "Hook"-calibration of GeneChip-microarrays: Theory and algorithm
• Fiji: an open-source platform for biological-image analysis
• Software for bead-based registration of selective plane illumination microscopy data
• ImgLib2--generic image processing in Java
• Base Pair Interactions and Hybridization Isotherms of Matched and Mismatched Oligonucleotide Probes on Microarrays
• GeneChip microarrays—signal intensities, RNA concentrations and probe sequences
• OpenSPIM: an open-access light-sheet microscopy platform
• Global Analysis of Nascent RNA Reveals Transcriptional Pausing in Terminal Exons
• Gene expression divergence recapitulates the developmental hourglass model
• Restoration of Uneven Illumination in Light Sheet Microscopy Images
• Globally optimal stitching of tiled 3D microscopic image acquisitions
• An Integrated Micro- and Macroarchitectural Analysis of the Drosophila Brain by Computer-Assisted Serial Section Electron Microscopy
• Nuclear accessibility of β-actin mRNA is measured by 3D single-molecule real-time tracking
• Planar cell polarity signalling regulates cell adhesion properties in progenitors of the zebrafish laterality organ
• FRC-QE: a robust and comparable 3D microscopy image quality metric for cleared organoids
• Automated reconstruction of whole-embryo cell lineages by learning from sparse annotations
• Tracking by Weakly-Supervised Learning and Graph Optimization for Whole-Embryo C. elegans lineages
• A scalable implementation of the recursive least-squares algorithm for training spiking neural networks
• A Connectome of the MaleDrosophilaVentral Nerve Cord
• Architecture and dynamics of a desmosome–endoplasmic reticulum complex
• Visualizing sarcomere and cellular dynamics in skeletal muscle to improve cell therapies
• Author Correction: Architecture and dynamics of a desmosome–endoplasmic reticulum complex
• PEELing: an integrated and user-centric platform for spatially-resolved proteomics data analysis
• Analysis of developmental gene expression using smFISH and in silico staging of C. elegans embryos
• A Connectome of the Male Drosophila Ventral Nerve Cord
• A Connectome of the Male Drosophila Ventral Nerve Cord
• Data Release: High-Resolution Imaging and Segmentation of P7 Mouse Tissue Microarchitecture Using FIB-SEM and Machine Learning