Microscopy Image Analysis

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13 papers in the last four weeks, up 117% on the four weeks before. 0.1% of all new papers.

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  1. Detection of Virus and Small Cell Patches in Foci Images Using Switchable Convolution and Feature Pyramid Networks

    May 21, 2026Amrita Singh, Snehasis MukherjeeSmall Object DetectionObject Detection

  2. Virtual 3D H&E Staining from Phase-contrast Back-illumination Interference Tomography

    May 21, 2026Anthony Song, Boyan Zhou, Mayank Golhar +3Computational PathologyImage-to-Image Translation

    Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA · Department of Pathology, Johns Hopkins Hospital,2026 Baltimore, MD, USA

  3. A Human-in-the-Loop Framework for Efficient Prompt Selection in Microscopy Vision-Language Models

    May 19, 2026Abhiram Kandiyana, Ankur Mali, Lawrence O. Hall +2Vision-Language ModelsHuman-in-the-Loop Annotation

    University of South Florida, USA · SRC Biosciences, USA

  4. End-to-end plaque counting and virus titration from laboratory plate images with deep learning

    May 15, 2026Eugenia Moris, Alicia Costábile, Sebastián Rey +11Image SegmentationMicroscopy Image Analysis

    Arionkoder LLC, Boston, MA 02114, United States · Laboratory of Experimental Virus Evolution, Pasteur Institute of Montevideo, Montevideo, 11400, Uruguay · Laboratory of Molecular Virology, Faculty of Sciences, University of the Republic, Montevideo, 11400, Uruguay +3

  5. MorphoHELM: A Comprehensive Benchmark for Evaluating Representations for Microscopy-Based Morphology Assays

    May 14, 2026Emre Hayir, Lorin Crawford, Alex X. LuMicroscopy Image Analysis

    Microsoft Research New England

  6. MicroscopyMatching: Towards a Ready-to-use Framework for Microscopy Image Analysis in Diverse Conditions

    May 14, 2026Xiaofei Hui, Haoxuan Qu, Hossein Rahmani +3Image SegmentationImage Matching

    School of Computing and Communications, Lancaster University, Lancaster, LA1 4WA, UK. · Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA. · Department of Molecular and Cellular Biology, Center for Brain Science, Harvard University, Cambridge, MA 02138, USA.

  7. Towards Label-Free Single-Cell Phenotyping Using Multi-Task Learning

    May 14, 2026Saqib Nazir, Ardhendu BeheraMulti-Task LearningMicroscopy Image Analysis

    Department of Computer Science, Edge Hill University, UK

  8. DeepFilters: Scattering-Aware Pupil Engineering with Learned Digital Filter Reconstruction for Extended Depth of Field Microscopy

    May 13, 2026Joseph L. Greene, Suet YIng Chan, Qilin Deng +8Image ReconstructionMicroscopy Image Analysis

    Boston University, Department of Electrical and Computer Engineering, Boston, MA, 02215 · Current Address: Georgia Tech Research Institute, Electro-Optical Systems Lab, Atlanta, GA, 30332 · Boston University, Department of Biology, Boston, MA, 02215 +3

  9. Bayesian In Vivo Tracking of Synapses using Joint Poisson Deconvolution and Diffeomorphic Registration

    May 13, 2026Shashwat Kumar, Dominic M. Padova, Binish Narang +6Bayesian Inverse ProblemsLongitudinal Medical Image Analysis

    Department of Biomedical Engineering, Johns Hopkins University · Department of Neuroscience, Johns Hopkins University · Kavli Neuroscience Discovery Institute, Johns Hopkins University +2

  10. Automated Detection of Abnormalities in Zebrafish Development

    May 11, 2026Sarath Sivaprasad, Hui-Po Wang, Anna-Lisa Jäckel +4Toxicity DetectionMicroscopy Image Analysis

    CISPA Helmholtz Center for Information Security, Saarbrücken, Germany · Helmholtz Institute for Pharmaceutical Research Saarland, Saarbrücken, Germany

  11. MicroDiffuse3D: A Foundation Model for 3D Microscopy Imaging Restoration

    May 8, 2026Yongkang Li, Brian Wong, King Wai Chiu +5Image RestorationMicroscopy Image Analysis

    Paul G. Allen School of Computer Science and Engineering, University of Washington, Seattle, WA, USA. · Department of Chemistry, University of Washington, Seattle, WA, USA

  12. Enhancing Cryo-EM Density Map Segmentation in Phenix for Improved Atomic Model Building

    May 6, 2026Chenwei ZhangAI-Assisted Scientific ResearchCryo-Electron Microscopy

    Department of Computer Science The University of British Columbia Vancouver, Canada

  13. Continuous quantification of viral plaque dynamics using ultra-large-area label-free imaging enables rapid antiviral susceptibility testing

    May 3, 2026Merve Eryilmaz, Yuzhu Li, Xiao Wang +8Microscopy Image Analysis

    Department of Electrical and Computer Engineering, University of California, Los Angeles, CA, USA, 90095 · Department of Bioengineering, University of California, Los Angeles, CA, USA, 90095 · 3California NanoSystems Institute (CNSI), University of California, Los Angeles, CA, USA, 90095 +5

  14. Multi-frame Restoration for High-rate Lissajous Confocal Laser Endomicroscopy

    May 1, 2026Minhee Lee, Sangyoon Lee, Jiwook Lee +4EndoscopyMedical Imaging

    POSTECH, Pohang, Republic of Korea · VPIX Medical, Seoul, Republic of Korea

  15. MTCurv: Deep learning for direct microtubule curvature mapping in noisy fluorescence microscopy images

    Apr 29, 2026Achraf Ait Laydi, Sidi Mohamed Sid'El Moctar, Yousef El Mourabit +1Convolutional Neural NetworksMicroscopy Image Analysis

    TIAD Laboratory, Sciences and Technology Faculty, Sultan Moulay Slimane Univ., Beni Mellal, Morocco. · CNRS, Univ. Rennes, IGDR (Institut de Génétique et Développement de Rennes), UMR6290, 35000 Rennes, France

  16. A Data-Centric Framework for Intraoperative Fluorescence Lifetime Imaging for Glioma Surgical Guidance

    Apr 28, 2026Silvia Noble Anbunesan, Mohamed Abul Hassan, Jinyi Qi +4Medical Image AnalysisMedical Image Classification

    University of California, Davis · Department of Biomedical Engineering · Department of Pathology and Laboratory Medicine +1

  17. Contrastive Image-Metadata Pre-Training for Materials Transmission Electron Microscopy

    Apr 27, 2026Georgia Channing, Debora Keller, Marta D. Rossell +3Cross-Modal AlignmentMultimodal Contrastive Learning

    Hugging Face · University of Oxford · Empa Dübendorf +1

  18. Aycromo: An Open-Source Platform for Automatic Chromosome Detection in Metaphase Images Based on Deep Learning

    Apr 27, 2026Jorge L. A. Lima, Filipe R. CordeiroMedical DiagnosisMicroscopy Image Analysis

    Visual Computing Lab, Department of Computing, Universidade Federal Rural de Pernambuco (UFRPE), Brazil

  19. Multimodal Diffusion to Mutually Enhance Polarized Light and Low Resolution EBSD Data

    Apr 24, 2026Harry Dong, Timofey Efimov, Megna Shah +4Diffusion Models for Image RestorationMaterials Science

    Department of Electrical and Computer Engineering, Carnegie Mellon University, USA · Materials and Manufacturing Directorate, Air Force Research Laboratory, USA · Department of Materials Science and Engineering, Carnegie Mellon University, USA +1

  20. InVitroVision: a Multi-Modal AI Model for Automated Description of Embryo Development using Natural Language

    Apr 22, 2026Nicklas Neu, Thomas Ebner, Jasmin Primus +4VLM AdaptationMedical VLMs

    Software Competence Center Hagenberg GmbH,Softwarepark 32a,Hagenberg, 4232, Upper Austria, Austria · Kinderwunsch Zentrum Kepler Universitätsklinikum,Krankenhausstraße 26, Linz, 4021 Upper Austria, Austria · Wunschkind Klinik Dr. Brunbauer, Ebendorferstraße 6/4 Vienna, 1010, Vienna, Austria

  21. Learning to count small and clustered objects with application to bacterial colonies

    Apr 21, 2026Minghua Zheng, Na Helian, Peter C. R. Lane +2Object CountingCross-Domain Generalization

    King’s College London, St Thomas Street, London, SE1 1UL, United Kingdom · University of Hertfordshire, College Lane, Hatfield, AL10 9AB, United Kingdom · Synoptics Ltd, Beacon House, Nuffield Road, Cambridge, CB4 1TF, United Kingdom

  22. Investigation of cardinality classification for bacterial colony counting using explainable artificial intelligence

    Apr 21, 2026Minghua Zheng, Na Helian, Peter C. R. Lane +2Object CountingClassification

    King’s College London, St Thomas Street, London, SE1 1UL, United Kingdom · University of Hertfordshire, College Lane, Hatfield, AL10 9AB, United Kingdom · Synoptics Ltd, Beacon House, Nuffield Road, Cambridge, CB4 1TF, United Kingdom

  23. Bridging Foundation Models and ASTM Metallurgical Standards for Automated Grain Size Estimation from Microscopy Images

    Apr 21, 2026Abdul Mueez, Shruti VyasVision Foundation ModelsInstance Segmentation

    University of Central Florida

  24. Rabies diagnosis in low-data settings: A comparative study on the impact of data augmentation and transfer learning

    Apr 20, 2026Khalil Akremi, Mariem Handous, Zied Bouslama +4Data AugmentationMedical Diagnosis

    University of Carthage, Engineering School of Statistics and Information Analysis, Tunis, Tunisia. · University of Tunis-El-Manar, Rabies Laboratory, Institut Pasteur de Tunis, Tunis, Tunisia. · World Health Organization, Country Office Tunisia. +1

  25. PlankFormer: Robust Plankton Instance Segmentation via MAE-Pretrained Vision Transformers and Pseudo Community Image Generation

    Apr 20, 2026Masaharu Miyazaki, Yurie Otake, Koichi Ito +3Instance SegmentationSynthetic Data Generation

    Graduate School of Information Sciences, Tohoku University 6-6-05, Aramaki Aza Aoba, Sendai, 9808579, Japan. · The Center for Ecological Research, Kyoto University, 2–509–3, Hirano, Otsu-shi, Shiga-ken, 5202113, Japan. · Graduate School of Life Sciences, Tohoku University, 6–3, Aramaki Aza Aoba, Aoba-ku, Sendai-shi, 9808578, Japan.

  26. Applications of deep generative models to DNA reaction kinetics and to cryogenic electron microscopy

    Apr 18, 2026Chenwei ZhangImage ReconstructionCryo-Electron Microscopy

    THE UNIVERSITY OF BRITISH COLUMBIA (Vancouver)

  27. Automated Palynological Analysis System: Integrating Deep Metric Learning, Detection and Classification in Bright Field Microscopy

    Apr 17, 2026J. Staforelli-Vivanco, R. Jofré, P. Coelho +12Salient Object DetectionExplainable Image Classification

    Facultad de Ingeniería, Universidad Andres Bello, Talcahuano, CCP-THNO 7100 Chile · Universidad Arturo Prat, Sede Victoria, Chile · Laboratory of Palynology and Plant Ecology, School of Sciences and Technologies, University of Concepción, Los Angeles Campus

  28. From Boundaries to Semantics: Prompt-Guided Multi-Task Learning for Petrographic Thin-section Segmentation

    Apr 16, 2026Yili Ren, Shiqi Wen, Li Hou +8Image SegmentationPromptable Image Segmentation

    Research Institute of Petroleum Exploration and Development (RIPED) · The Hong Kong University of Science and Technology (Guangzhou) · The Hong Kong University of Science and Technology +1

  29. Using Deep Learning Models Pretrained by Self-Supervised Learning for Protein Localization

    Apr 13, 2026Ben Isselmann, Dilara Göksu, Heinz Neumann +1Supervised Fine-TuningSelf-Supervised Pre-Training

    Department of Mathematics and Natural Sciences, Hochschule Darmstadt, Schoefferstraße 3, Darmstadt, 64295, Hessen, Germany. · Department of Chemical Engineering and Biotechnology, Hochschule Darmstadt, Stephanstrasse 7, Darmstadt, 64295, Hessen, Germany. · European University of Technology, European Union. +1

  30. Evaluating Vision Foundation Models for Pixel and Object Classification in Microscopy

    Mar 20, 2026Carolin Teuber, Anwai Archit, Tobias Boothe +3Vision Foundation ModelsSemantic Segmentation

    Georg-August-University Göttingen, Institute of Computer Science · Department of Tissue Dynamics and Regeneration, Max Planck Institute for Multidisciplinary Sciences, Göttingen · Georg-August-University Göttingen, Faculty of Biology and Psychology +3