Thomas Walter

Documents

Research domains

Bioinformatics [q-bio.QM] Computer Vision and Pattern Recognition [cs.CV]

Publications

	Diagnosis with confidence: deep learning for reliable classification of laryngeal dysplasia Mélanie Lubrano , Yaëlle Bellahsen-Harrar , Sylvain Berlemont , Sarah Atallah , Emmanuelle Vaz Histopathology, 2023, 84 (2), pp.343-355. ⟨10.1111/his.15067⟩ Journal articles hal-04396387v1
	An interactive murine single-cell atlas of the lung responses to radiation injury Sandra Curras-Alonso , Juliette Soulier , Thomas Defard , Christian Weber , Sophie Heinrich Nature Communications, 2023, 14 (1), pp.2445. ⟨10.1038/s41467-023-38134-z⟩ Journal articles hal-04092147v1
	Utilisation de l’intelligence artificielle pour prédire le statut tumoral relatif à la recombinaison homologue Tristan Lazard , Guillaume Bataillon , Thomas Walter , Anne Vincent Salomon Médecine/Sciences, 2023, 39 (12), pp.926-928. ⟨10.1051/medsci/2023169⟩ Journal articles hal-04396381v1
	Spatial analyses of immune cell infiltration in cancer: current methods and future directions: A report of the International Immuno‐Oncology Biomarker Working Group on Breast Cancer David Page , Glenn Broeckx , Chowdhury Arif Jahangir , Sara Verbandt , Rajarsi Gupta Journal of Pathology, 2023, 260 (5), pp.514-532. ⟨10.1002/path.6165⟩ Journal articles hal-04209907v1
	Pitfalls in machine learning‐based assessment of tumor‐infiltrating lymphocytes in breast cancer: A report of the International Immuno‐Oncology Biomarker Working Group on Breast Cancer Jeppe Thagaard , Glenn Broeckx , David Page , Chowdhury Arif Jahangir , Sara Verbandt Journal of Pathology, 2023, 260 (5), pp.498-513. ⟨10.1002/path.6155⟩ Journal articles hal-04209913v1
	Cell segmentation in images without structural fluorescent labels Daniel Zyss , Susana A Ribeiro , Mary J C Ludlam , Thomas Walter , Amin Fehri Biological Imaging, 2023, 3, pp.e16. ⟨10.1017/S2633903X23000168⟩ Journal articles hal-04396484v1
	HT-smFISH: a cost effective and flexible workflow for high-throughput single molecule RNA imaging Adham Safieddine , Emeline Coleno , Frederic Lionneton , Abdel-Meneem Traboulsi , Soha Salloum Nature Protocols, 2023, 18, pp.157-187. ⟨10.1038/s41596-022-00750-2⟩ Journal articles hal-03834928v1
	Deep learning identifies morphological patterns of homologous recombination deficiency in luminal breast cancers from whole slide images Tristan Lazard , Guillaume Bataillon , Peter Naylor , Tatiana Popova , François-Clément Bidard Cell Reports Medicine, 2022, 3 (12), pp.100872. ⟨10.1016/j.xcrm.2022.100872⟩ Journal articles hal-03936608v1
	FISH-quant v2: a scalable and modular tool for smFISH image analysis Arthur Imbert , Wei Ouyang , Adham Safieddine , Emeline Coleno , Christophe Zimmer RNA, 2022, 28 (6), pp.786-795. ⟨10.1261/rna.079073.121⟩ Journal articles hal-03942851v2
	Neural network fast‐classifies biological images through features selecting to power automated microscopy Maël Balluet , Florian Sizaire , Youssef El Habouz , Thomas Walter , Jérémy Pont Journal of Microscopy, 2022, 285 (1), pp.3-19. ⟨10.1111/jmi.13062⟩ Journal articles hal-03408803v1
	Prediction of Treatment Response in Triple Negative Breast Cancer From Whole Slide Images Peter Naylor , Tristan Lazard , Guillaume Bataillon , Marick Laé , Anne Vincent-Salomon Frontiers in Signal Processing, 2022, 2, ⟨10.3389/frsip.2022.851809⟩ Journal articles hal-03942865v1
	Spatial transcriptomics for respiratory research and medicine Sandra Curras-Alonso , Juliette Soulier , Thomas Walter , Florian Mueller , Arturo Londoño-Vallejo European Respiratory Journal, 2021, 58 (1), pp.2004314. ⟨10.1183/13993003.04314-2020⟩ Journal articles hal-03376218v1
	Spatial transcriptomics for respiratory research and medicine Sandra Curras-Alonso , Juliette Soulier , Thomas Walter , Florian Mueller , Arturo Londoño-Vallejo European Respiratory Journal, 2021, 58 (1), pp.2004314. ⟨10.1183/13993003.04314-2020⟩ Journal articles hal-03633353v1
	A choreography of centrosomal mRNAs reveals a conserved localization mechanism involving active polysome transport Adham Safieddine , Emeline Coleno , Soha Salloum , Arthur Imbert , Abdel-Meneem Traboulsi Nature Communications, 2021, 12 (1), pp.1352. ⟨10.1038/s41467-021-21585-7⟩ Journal articles hal-03014936v2
	The kinesin KIF1C transports APC-dependent mRNAs to cell protrusions Xavier Pichon , Konstadinos Moissoglu , Emeline Coleno , Tianhong Wang , Arthur Imbert RNA, 2021, pp.rna.078576.120. ⟨10.1261/rna.078576.120⟩ Journal articles hal-03371977v1
	A Dual Protein-mRNA Localization Screen Reveals Compartmentalized Translation and Widespread Co-translational RNA Targeting Racha Chouaib , Adham Safieddine , Xavier Pichon , Arthur Imbert , Oh Sung Kwon Developmental Cell, 2020, 54 (6), pp.773 - 791.e5. ⟨10.1016/j.devcel.2020.07.010⟩ Journal articles pasteur-02925687v1
	Prognosis and chemosensitivity of non-V600E BRAF mutations in metastatic colorectal carcinoma (mCRC): An AGEO French multicenter retrospective cohort. Aline Derosiere , Vincent Nicolai , David Malka , Astrid Pozet , Julien Lazartigues Journal of Clinical Oncology, 2019, 37 (15, S), ⟨10.1200/JCO.2019.37.15\_suppl.3575⟩ Journal articles hal-03606012v1
	Domain-invariant features for mechanism of action prediction in a multi-cell-line drug screen Joseph Boyd , Alice Pinheiro , Elaine Del Nery , Fabien Reyal , Thomas Walter Bioinformatics, 2019, ⟨10.1093/bioinformatics/btz774⟩ Journal articles hal-02440603v1
	Human lymphoid organ cDC2 and macrophages play complementary roles in T follicular helper responses Mélanie Durand , Thomas Walter , Tiphène Pirnay , Thomas Naessens , Paul Guéguen Journal of Experimental Medicine, 2019, 216 (7), pp.1561-1581. ⟨10.1084/jem.20181994⟩ Journal articles hal-02440608v1
	A computational framework to study sub-cellular RNA localization Aubin Samacoits , Racha Chouaib , Adham Safieddine , Abdel-Meneem Traboulsi , Christophe Zimmer Nature Communications, 2018, 9 (1), pp.4584. ⟨10.1038/s41467-018-06868-w⟩ Journal articles hal-01984014v1
	Segmentation of Nuclei in Histopathology Images by deep regression of the distance map Peter Naylor , Marick Lae , Fabien Reyal , Thomas Walter IEEE Transactions on Medical Imaging, 2018, pp.1-12 Journal articles hal-01984033v1
	Kernel Multitask Regression for Toxicogenetics Elsa Bernard , Yunlong Jiao , Erwan Scornet , Véronique Stoven , Thomas Walter Molecular Informatics, 2017, 36 (10), ⟨10.1002/minf.201700053⟩ Journal articles hal-01679030v1
	ARHGEF17 is an essential spindle assembly checkpoint factor that targets Mps1 to kinetochores. Mayumi Isokane , Thomas Walter , Robert Mahen , Bianca Nijmeijer , Jean-Karim Hériché Journal of Cell Biology, 2016, 212 (6), pp.647-59. ⟨10.1083/jcb.201408089⟩ Journal articles hal-01427937v1
	smiFISH and FISH-quant - a flexible single RNA detection approach with super-resolution capability. Nikolay Tsanov , Aubin Samacoits , Racha Chouaib , Abdel-Meneem Traboulsi , Thierry Gostan Nucleic Acids Research, 2016, ⟨10.1093/nar/gkw784⟩ Journal articles pasteur-01375913v1
	A generic methodological framework for studying single cell motility in high-throughput time-lapse data Alice Schoenauer Sebag , Sandra Plancade , Céline Raulet-Tomkiewicz , Robert Barouki , Jean-Philippe Vert Bioinformatics, 2015, 31 (12), pp.i320-i328. ⟨10.1093/bioinformatics/btv225⟩ Journal articles hal-01246689v1
	Waterpixels Vaïa Machairas , Matthieu Faessel , David Cárdenas-Peña , Théodore Chabardes , Thomas Walter IEEE Transactions on Image Processing, 2015, 24 (11), pp.3707 - 3716. ⟨10.1109/TIP.2015.2451011⟩ Journal articles hal-01212760v1
	Assessment of algorithms for mitosis detection in breast cancer histopathology images Mitko Veta , Paul J. Van Diest , Stefan M. Willems , Haibo Wang , Anant Madabhushi Medical Image Analysis, 2015, 20 (1), pp.237-248. ⟨10.1016/j.media.2014.11.010⟩ Journal articles hal-01246695v1
	Prediction of human population responses to toxic compounds by a collaborative competition. Federica Eduati , Lara M Mangravite , Tao Wang , Hao Tang , J Christopher Bare Nature Biotechnology, 2015, 33 (9), pp.933-40. ⟨10.1038/nbt.3299⟩ Journal articles hal-01428019v1
	MAP1S controls microtubule stability throughout the cell cycle in human cells Justus Tegha-Dunghu , Elena Bausch , Beate Neumann , Annelie Wuensche , Thomas Walter Journal of Cell Science, 2014, 127, pp.5007-5013. ⟨10.1242/jcs.136457⟩ Journal articles hal-01101879v1
	A community effort to assess and improve drug sensitivity prediction algorithms James C Costello , Laura M Heiser , Elisabeth Georgii , Mehmet Gönen , Michael P Menden Nature Biotechnology, 2014, 32, pp.1202-1212. ⟨10.1038/nbt.2877⟩ Journal articles hal-01101874v1
	A Genomic Multiprocess Survey of Machineries that Control and Link Cell Shape, Microtubule Organization, and Cell-Cycle Progression Veronika Graml , Xenia Studera , Jonathan L.D. Lawson , Anatole Chessel , Marco Geymonat Developmental Cell, 2014, 31 (2), pp.227-239. ⟨10.1016/j.devcel.2014.09.005⟩ Journal articles hal-01101880v1
	Integration of biological data by kernels on graph nodes allows prediction of new genes involved in mitotic chromosome condensation Jean-Karim Hériché , Jon G. Lees , Ian Morilla , Thomas Walter , Boryana Petrova Molecular Biology of the Cell, 2014, 25 (16), pp.2522-2536. ⟨10.1091/mbc.E13-04-0221⟩ Journal articles hal-01101877v1
	Dynamical modelling of phenotypes in a genome-wide RNAi live-cell imaging assay. Gregoire Pau , Thomas Walter , Beate Neumann , Jean-Karim Hériché , Jan Ellenberg BMC Bioinformatics, 2013, 14 (1), pp.308. ⟨10.1186/1471-2105-14-308⟩ Journal articles inserm-00880889v1
	Mitotic lamin disassembly is triggered by lipid-mediated signaling. Moritz Mall , Thomas Walter , Mátyás Gorjánácz , Iain F Davidson , Thi Bach Nga Ly-Hartig Journal of Cell Biology, 2012, 198 (6), pp.981-90 Journal articles hal-01428007v1
	Micropilot: automation of fluorescence microscopy-based imaging for systems biology. Christian Conrad , Annelie Wünsche , Tze Heng Tan , Jutta Bulkescher , Frank Sieckmann Nature Methods, 2011, 8 (3), pp.246-9 Journal articles hal-01430280v1
	CellCognition: time-resolved phenotype annotation in high-throughput live cell imaging Michael W Held , Michael W Schmitz , Bernd H Fischer , Thomas Walter , Beate H Neumann Nature Methods, 2010, 7, pp.747 - 754. ⟨10.1038/nmeth.1486⟩ Journal articles hal-01431427v1
	Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes Beate Neumann , Thomas Walter , Jean-Karim Hériché , Jutta Bulkescher , Holger Erfle Nature, 2010, 464 (7289), pp.721. ⟨10.1038/nature08869⟩ Journal articles hal-01144034v1
	Evaluation of automated fundus photograph analysis algorithms for detecting microaneurysms, haemorrhages and exudates, and of a computer-assisted diagnostic system for grading diabetic retinopathy Bénédicte Dupas , Thomas R. Walter , Ali Erginay , Richard Ordonez , Nilanjana Deb-Joardar Diabetes & Metabolism, 2010, 36 (3), pp.213-220. ⟨10.1016/j.diabet.2010.01.002⟩ Journal articles hal-00836043v1
	Automatic identification and clustering of chromosome phenotypes in a genome wide RNAi screen by time-lapse imaging. Thomas Walter , Michael Held , Beate Neumann , Jean-Karim Hériché , Christian Conrad Journal of Structural Biology, 2010, 170 (1), pp.1-9 Journal articles hal-01427996v1
	Anti-angiogenic properties of myo-inositol trispyrophosphate in ovo and growth reduction of implanted glioma J.-M. Lehn , G. Sihn , T. Walter , J.-C. Klein , I. Queguiner FEBS Letters, 2007, 581, pp.962-966. ⟨10.1016/j.febslet.2007.01.079⟩ Journal articles hal-00166409v1

	EXPERIMENTALLY-GENERATED GROUND TRUTH FOR DETECTING CELL TYPES IN AN IMAGE-BASED IMMUNOTHERAPY SCREEN Joseph Boyd , Zelia Gouveia , Franck Perez , Thomas Walter 2020 IEEE 17th International Symposium on Biomedical Imaging (ISBI), Apr 2020, Iowa City, United States. pp.886-890, ⟨10.1109/ISBI45749.2020.9098696⟩ Conference papers hal-02976141v1
	Predicting Residual Cancer Burden in a triple negative breast cancer cohort Peter Naylor , Joseph Boyd , Marick Lae , Fabien Reyal , Thomas Walter 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI), Apr 2019, Venice, Italy. pp.933-937, ⟨10.1109/ISBI.2019.8759205⟩ Conference papers hal-02440647v1
	A Deep Learning Approach To Identify MRNA Localization Patterns Rémy Dubois , Arthur Imbert , Aubin Samacoits , Marion Peter , Edouard Bertrand 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI), Apr 2019, Venice, France. pp.1386-1390, ⟨10.1109/ISBI.2019.8759235⟩ Conference papers hal-02343547v1
	ANALYSING DOUBLE-STRAND BREAKS IN CULTURED CELLS FOR DRUG SCREENING APPLICATIONS BY CAUSAL INFERENCE Joseph Boyd , Alice Pinhiero , Elaine Del Nery , Fabien Reyal , Thomas Walter IEEE International Symposium on Biomedical Imaging, Apr 2018, Washington, United States Conference papers hal-01984323v1
	Nuclei segmentation in histopathology images using deep neural networks Peter Naylor , Marik Laé , Fabien Reyal , Thomas Walter 2017 IEEE 14th International Symposium on Biomedical Imaging (ISBI 2017), 2017, Melbourne, Australia Conference papers hal-01683969v1
	NEW GENERAL FEATURES BASED ON SUPERPIXELS FOR IMAGE SEGMENTATION LEARNING V Machairas , T Baldeweck , T Walter , Etienne Decencière International Symposium on Biomedical Imaging, Apr 2016, Prague, Czech Republic Conference papers hal-01276132v1
	Infering an ontology of single cell motions from high-throughput microscopy data Alice Schoenauer Sebag , Sandra Plancade , Céline Raulet-Tomkiewicz , Robert Barouki , Jean-Philippe Vert IEEE 12th International Symposium on Biomedical Imaging, Apr 2015, New York, United States. pp.4, ⟨10.1109/ISBI.2015.7163840⟩ Conference papers hal-02742630v1
	Spatial Repulsion Between Markers Improves Watershed Performance Vaïa Machairas , Etienne Decencière , Thomas Walter 12th International Symposium, ISMM 2015, Reykjavik, Iceland, May 27-29, 2015, May 2015, Reykjavik, Iceland. pp.194-202, ⟨10.1007/978-3-319-18720-4_17⟩ Conference papers hal-01246692v1
	Waterpixels: Superpixels based on the watershed transformation Vaïa Machairas , Etienne Decencière , Thomas Walter IEEE International Conference On Image Processing, Oct 2014, Paris, France. ⟨10.1109/ICIP.2014.7025882⟩ Conference papers hal-01139797v1

	Learning with minimal effort: leveraging in silico labeling for cell and nucleus segmentation Thomas Bonte , Maxence Philbert , Emeline Coleno , Edouard Bertrand , Arthur Imbert 2024 Preprints, Working Papers, ... hal-04396531v1
	A point cloud segmentation framework for image-based spatial transcriptomics Thomas Defard , Hugo Laporte , Mallick Ayan , Soulier Juliette , Sandra Curras-Alonso 2024 Preprints, Working Papers, ... hal-04396330v1
	Choquet Capacity networks for random point process classification Mehran Mohammadi , Santiago Velasco-Forero , François Willot , Mateus Sangalli , Thomas Walter 2024 Preprints, Working Papers, ... hal-04250560v2
	AI-Augmented Pathology for Head and Neck Squamous Lesions Improves Non-HN Pathologist Agreement to Expert Level Yaëlle Bellahsen-Harrar , Mélanie Lubrano , Charles Lépine , Aurélie Beaufrère , Claire Bocciarelli 2024 Preprints, Working Papers, ... hal-04396487v1
	Democratizing computational pathology: optimized Whole Slide Image representations for The Cancer Genome Atlas Tristan Lazard , Marvin Lerousseau , Sophie Gardrat , Anne Vincent-Salomon , Marc-Henri Stern 2024 Preprints, Working Papers, ... hal-04396311v1
	PointFISH -- learning point cloud representations for RNA localization patterns Arthur Imbert , Florian Mueller , Thomas Walter 2023 Preprints, Working Papers, ... hal-04029994v1
	Giga-SSL: Self-Supervised Learning for Gigapixel Images Tristan Lazard , Marvin Lerousseau , Etienne Decencière , Thomas Walter 2023 Preprints, Working Papers, ... hal-04030020v1
	Simple and Efficient Confidence Score for Grading Whole Slide Images Mélanie Lubrano , Yaëlle Bellahsen-Harrar , Rutger Fick , Cécile Badoual , Thomas Walter 2023 Preprints, Working Papers, ... hal-04030031v1
	Diagnosis with Confidence: Deep Learning for Reliable Classification of Squamous Lesions of the Upper Aerodigestive Tract Mélanie Lubrano , Yaëlle Bellahsen-Harrar , Sylvain Berlemont , Sarah Atallah , Emmanuelle Vaz 2023 Preprints, Working Papers, ... hal-03942781v1
	Neural network for the prediction of treatment response in Triple Negative Breast Cancer * Peter Naylor , Tristan Lazard , Guillaume Bataillon , Marick Lae , Anne Vincent-Salomon 2022 Preprints, Working Papers, ... hal-03633354v1
	Automatic grading of cervical biopsies by combining full and self-supervision Melanie Lubrano Di Scandalea , Tristan Lazard , Guillaume Balezo , Yaëlle Bellahsen-Harrar , Cécile Badoual 2022 Preprints, Working Papers, ... hal-03533712v1
	Deep Learning identifies new morphological patterns of Homologous Recombination Deficiency in luminal breast cancers from whole slide images Tristan Lazard , Guillaume Bataillon , Peter Naylor , Tatiana Popova , François-Clément Bidard 2021 Preprints, Working Papers, ... hal-03533688v1
	The kinesin KIF1C transports APC-dependent mRNAs to cell protrusions Xavier Pichon , Konstadinos Moissoglu , Emeline Coleno , Tianhong Wang , Arthur Imbert 2021 Preprints, Working Papers, ... hal-03116720v1
	A localization screen reveals translation factories and widespread co-translational RNA targeting Racha Chouaib , Adham Safieddine , Xavier Pichon , Arthur Imbert , Oh Sung Kwon 2020 Preprints, Working Papers, ... pasteur-02873144v1
	Neural network fast-classifies biological images using features selected after their random-forests-importance to power smart microscopy Maël Balluet , Florian Sizaire , Thomas Walter , Jérémy Pont , Baptiste Giroux 2020 Preprints, Working Papers, ... hal-03065051v1

	Bioimage Informatics for Phenomics Thomas Walter Bioinformatics [q-bio.QM]. Sorbonne Université, 2020 Habilitation à diriger des recherches tel-02981391v1

	Learning with minimal effort: leveraging in silico labeling for cell and nucleus segmentation Thomas Bonte , Maxence Philbert , Emeline Coleno , Edouard Bertrand , Arthur Imbert ECCV 2022 proceedings (Bio-image computing workshop), ECCV 2022 proceedings (Bio-image computing workshop), 2023 Proceedings hal-03935104v1
	Automatic Grading of Cervical Biopsies by Combining Full and Self-supervision Mélanie Lubrano , Tristan Lazard , Guillaume Balezo , Yaëlle Bellahsen-Harrar , Cécile Badoual 13807, Springer Nature Switzerland, pp.408-423, 2023, Lecture Notes in Computer Science, ⟨10.1007/978-3-031-25082-8_27⟩ Proceedings hal-04029228v1
	PointFISH: Learning Point Cloud Representations for RNA Localization Patterns Arthur Imbert , Florian Mueller , Thomas Walter European Conference on Computer Vision, ECCV 2022 Workshops. Lecture Notes in Computer Science, 13804, Springer Nature, pp.487-502, 2023, Lecture Notes in Computer Science, 978-3-031-25069-9. ⟨10.1007/978-3-031-25069-9_32⟩ Proceedings hal-04029169v1
	Learning with Minimal Effort: Leveraging in Silico Labeling for Cell and Nucleus Segmentation Thomas Bonte , Maxence Philbert , Emeline Coleno , Edouard Bertrand , Arthur Imbert ECCV 2022 Workshops. Lecture Notes in Computer Science, 13804, Springer Nature Switzerland, pp.423-436, 2023, Lecture Notes in Computer Science, 978-3-031-25068-2. ⟨10.1007/978-3-031-25069-9_28⟩ Proceedings hal-04029154v1

Thomas Walter

Research domains

Publications

Diagnosis with confidence: deep learning for reliable classification of laryngeal dysplasia

An interactive murine single-cell atlas of the lung responses to radiation injury

Utilisation de l’intelligence artificielle pour prédire le statut tumoral relatif à la recombinaison homologue

Spatial analyses of immune cell infiltration in cancer: current methods and future directions: A report of the International Immuno‐Oncology Biomarker Working Group on Breast Cancer

Pitfalls in machine learning‐based assessment of tumor‐infiltrating lymphocytes in breast cancer: A report of the International Immuno‐Oncology Biomarker Working Group on Breast Cancer

Cell segmentation in images without structural fluorescent labels

HT-smFISH: a cost effective and flexible workflow for high-throughput single molecule RNA imaging

Deep learning identifies morphological patterns of homologous recombination deficiency in luminal breast cancers from whole slide images

FISH-quant v2: a scalable and modular tool for smFISH image analysis

Neural network fast‐classifies biological images through features selecting to power automated microscopy

Prediction of Treatment Response in Triple Negative Breast Cancer From Whole Slide Images

Spatial transcriptomics for respiratory research and medicine

Spatial transcriptomics for respiratory research and medicine

A choreography of centrosomal mRNAs reveals a conserved localization mechanism involving active polysome transport

The kinesin KIF1C transports APC-dependent mRNAs to cell protrusions

A Dual Protein-mRNA Localization Screen Reveals Compartmentalized Translation and Widespread Co-translational RNA Targeting

Prognosis and chemosensitivity of non-V600E BRAF mutations in metastatic colorectal carcinoma (mCRC): An AGEO French multicenter retrospective cohort.

Domain-invariant features for mechanism of action prediction in a multi-cell-line drug screen

Human lymphoid organ cDC2 and macrophages play complementary roles in T follicular helper responses

A computational framework to study sub-cellular RNA localization

Segmentation of Nuclei in Histopathology Images by deep regression of the distance map

Kernel Multitask Regression for Toxicogenetics

ARHGEF17 is an essential spindle assembly checkpoint factor that targets Mps1 to kinetochores.

smiFISH and FISH-quant - a flexible single RNA detection approach with super-resolution capability.

A generic methodological framework for studying single cell motility in high-throughput time-lapse data

Waterpixels

Assessment of algorithms for mitosis detection in breast cancer histopathology images

Prediction of human population responses to toxic compounds by a collaborative competition.

MAP1S controls microtubule stability throughout the cell cycle in human cells

A community effort to assess and improve drug sensitivity prediction algorithms

A Genomic Multiprocess Survey of Machineries that Control and Link Cell Shape, Microtubule Organization, and Cell-Cycle Progression

Integration of biological data by kernels on graph nodes allows prediction of new genes involved in mitotic chromosome condensation

Dynamical modelling of phenotypes in a genome-wide RNAi live-cell imaging assay.

Mitotic lamin disassembly is triggered by lipid-mediated signaling.

Micropilot: automation of fluorescence microscopy-based imaging for systems biology.

CellCognition: time-resolved phenotype annotation in high-throughput live cell imaging

Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes

Evaluation of automated fundus photograph analysis algorithms for detecting microaneurysms, haemorrhages and exudates, and of a computer-assisted diagnostic system for grading diabetic retinopathy

Automatic identification and clustering of chromosome phenotypes in a genome wide RNAi screen by time-lapse imaging.

Anti-angiogenic properties of myo-inositol trispyrophosphate in ovo and growth reduction of implanted glioma

EXPERIMENTALLY-GENERATED GROUND TRUTH FOR DETECTING CELL TYPES IN AN IMAGE-BASED IMMUNOTHERAPY SCREEN

Predicting Residual Cancer Burden in a triple negative breast cancer cohort

A Deep Learning Approach To Identify MRNA Localization Patterns

ANALYSING DOUBLE-STRAND BREAKS IN CULTURED CELLS FOR DRUG SCREENING APPLICATIONS BY CAUSAL INFERENCE

Nuclei segmentation in histopathology images using deep neural networks

NEW GENERAL FEATURES BASED ON SUPERPIXELS FOR IMAGE SEGMENTATION LEARNING

Infering an ontology of single cell motions from high-throughput microscopy data

Spatial Repulsion Between Markers Improves Watershed Performance

Waterpixels: Superpixels based on the watershed transformation

Learning with minimal effort: leveraging in silico labeling for cell and nucleus segmentation

A point cloud segmentation framework for image-based spatial transcriptomics

Choquet Capacity networks for random point process classification

AI-Augmented Pathology for Head and Neck Squamous Lesions Improves Non-HN Pathologist Agreement to Expert Level

Democratizing computational pathology: optimized Whole Slide Image representations for The Cancer Genome Atlas

PointFISH -- learning point cloud representations for RNA localization patterns

Giga-SSL: Self-Supervised Learning for Gigapixel Images

Simple and Efficient Confidence Score for Grading Whole Slide Images

Diagnosis with Confidence: Deep Learning for Reliable Classification of Squamous Lesions of the Upper Aerodigestive Tract

Neural network for the prediction of treatment response in Triple Negative Breast Cancer *

Automatic grading of cervical biopsies by combining full and self-supervision

Deep Learning identifies new morphological patterns of Homologous Recombination Deficiency in luminal breast cancers from whole slide images

The kinesin KIF1C transports APC-dependent mRNAs to cell protrusions

A localization screen reveals translation factories and widespread co-translational RNA targeting

Neural network fast-classifies biological images using features selected after their random-forests-importance to power smart microscopy

Bioimage Informatics for Phenomics

Learning with minimal effort: leveraging in silico labeling for cell and nucleus segmentation

Automatic Grading of Cervical Biopsies by Combining Full and Self-supervision

PointFISH: Learning Point Cloud Representations for RNA Localization Patterns

Learning with Minimal Effort: Leveraging in Silico Labeling for Cell and Nucleus Segmentation