Computational Hematopathology for Improved Diagnostics

Project Information

CompHematoPathology

Grant agreement ID: 866411

DOI

10.3030/866411

EC signature date 4 February 2020

Start date 1 June 2020

End date 31 May 2026

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 981 213,00

EU contribution

€ 1 981 213,00

Coordinated by

HELMHOLTZ ZENTRUM MUENCHEN DEUTSCHES FORSCHUNGSZENTRUM FUER GESUNDHEIT UND UMWELT GMBH
Germany

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Book chapters (1)

Sickle Cell Disease Severity Prediction from Percoll Gradient Images Using Graph Convolutional Networks

Author(s): Ario Sadafi, Asya Makhro, Leonid Livshits, Nassir Navab, Anna Bogdanova, Shadi Albarqouni, Carsten Marr
Published in: Lecture Notes in Computer Science, Domain Adaptation and Representation Transfer, and Affordable Healthcare and AI for Resource Diverse Global Health, 2023, Page(s) 216-225
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-87722-4_20

Peer reviewed articles (16)

Built to last? Reproducibility and Reusability of Deep Learning Algorithms in Computational Pathology

Author(s): Sophia J. Wagner, Christian Matek, Sayedali Shetab Boushehri, Melanie Boxberg, Lorenz Lamm, Ario Sadafi, Dominik J. E. Waibel, Carsten Marr, Tingying Peng
Published in: Modern Pathology, 2024, ISSN 0893-3952
Publisher: Nature Publishing Group
DOI: 10.1101/2022.05.15.22275108

Mechanistic models of blood cell fate decisions in the era of single-cell data

Author(s): Ingmar Glauche 1 , Carsten Marr 2
Published in: Current Opinion in Systems Biology , Issue Monthly, 2021, ISSN 2452-3100
Publisher: Elsevier
DOI: 10.1016/j.coisb.2021.100355

Combined tumor-directed recruitment and protection from immune suppression enable CAR T cell efficacy in solid tumors

Author(s): Bruno L. Cadilha, Mohamed-Reda Benmebarek, Klara Dorman, Arman Oner, Theo Lorenzini, Hannah Obeck, Mira Vänttinen, Mauro Di Pilato, Jasper N. Pruessmann, Stefan Stoiber, Duc Huynh, Florian Märkl, Matthias Seifert, Katrin Manske, Javier Suarez-Gosalvez, Yi Zeng, Stefanie Lesch, Clara H. Karches, Constanze Heise, Adrian Gottschlich, Moritz Thomas, Carsten Marr, Jin Zhang, Dharmendra Pandey, Tobias
Published in: Science Advances, Issue 7, 2024, ISSN 2375-2548
Publisher: AAAS
DOI: 10.1126/sciadv.abi5781

Modeling early treatment response in AML from cell-free tumor DNA

Author(s): Dantong Wang, Christian Rausch, Simon A. Buerger, Sebastian Tschuri, Maja Rothenberg-Thurley, Melanie Schulz, Jan Hasenauer, Frank Ziemann, Klaus H. Metzeler, Carsten Marr
Published in: iScience, Issue 26, 2025, Page(s) 108271, ISSN 2589-0042
Publisher: Elsevier
DOI: 10.1016/j.isci.2023.108271

H4K20 Methylation Is Differently Regulated by Dilution and Demethylation in Proliferating and Cell- Cycle-Arrested Xenopus Embryos

Author(s): Lea Schuh 1 , Carolin Loos 2 , Daniil Pokrovsky 3 , Axel Imhof 3 , Ralph A W Rupp 3 , Carsten Marr 4
Published in: Cell Systems, Issue Monthly, 2020, ISSN 2405-4712
Publisher: Elsevier Inc
DOI: 10.1016/j.cels.2020.11.003

InstantDL - An easy-to-use deep learning pipeline for image segmentation and classification

Author(s): Dominik Jens Elias Waibel, Sayedali Shetab Boushehri & Carsten Marr
Published in: BMC Bioinformatics, Issue Monthly, 2021, ISSN 1471-2105
Publisher: BioMed Central
DOI: 10.1186/s12859-021-04037-3

Spatial proteomics in neurons at single-protein resolution

Author(s): Eduard M. Unterauer, Sayedali Shetab Boushehri, Kristina Jevdokimenko, Luciano A. Masullo, Mahipal Ganji, Shama Sograte-Idrissi, Rafal Kowalewski, Sebastian Strauss, Susanne C.M. Reinhardt, Ana Perovic, Carsten Marr, Felipe Opazo, Eugenio F. Fornasiero, Ralf Jungmann
Published in: Cell, 2024, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1101/2023.05.17.541210

CHIP & HIPs: Clonal Hematopoiesis is Common in Hip Arthroplasty Patients and Associates with Autoimmune Disease

Author(s): Judith S. Hecker, Luise Hartmann, Jennifer Rivière, Michèle C. Buck, Mark van der Garde, Maja Rothenberg-Thurley, Luise Fischer, Susann Winter, Bianka Ksienzyk, Frank Ziemann, Maria Solovey, Martina Rauner, Elena Tsourdi, Katja Sockel, Marie Schneider, Anne S. Kubasch, Martin Nolde, Dominikus Hausmann, Alexander C. Paulus, Jörg Lützner, Andreas Roth, Florian Bassermann, Karsten Spiekermann, Ca
Published in: Blood Journal, Issue 8, 2021, ISSN 0006-4971
Publisher: American Society of Hematology

Highly accurate differentiation of bone marrow cell morphologies using deep neural networks on a large image data set

Author(s): Christian Matek, Sebastian Krappe, Christian Münzenmayer, Torsten Haferlach, Carsten Marr
Published in: Blood, Issue 138, 2021, Page(s) 1917-1927, ISSN 0006-4971
Publisher: American Society of Hematology
DOI: 10.1182/blood.2020010568

Make deep learning algorithms in computational pathology more reproducible and reusable

Author(s): Sophia J. Wagner, Christian Matek, Sayedali Shetab Boushehri, Melanie Boxberg, Lorenz Lamm, Ario Sadafi, Dominik J. E. Waibel, Carsten Marr, Tingying Peng
Published in: Nature Medicine, Issue 28, 2022, Page(s) 1744-1746, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-022-01905-0

Explainable AI identifies diagnostic cells of genetic AML subtypes

Author(s): Matthias Hehr, Ario Sadafi, Christian Matek, Peter Lienemann, Christian Pohlkamp, Torsten Haferlach, Karsten Spiekermann, Carsten Marr
Published in: PLOS Digital Health, Issue 2, 2023, Page(s) e0000187, ISSN 2767-3170
Publisher: PLOS
DOI: 10.1371/journal.pdig.0000187

Highly accurate differentiation of bone marrow cell morphologies using deep neural networks on a large image dataset

Author(s): "Christian Matek, Sebastian Krappe, Christian Münzenmayer, Torsten Haferlach, Carsten Marr"""
Published in: Blood Journal, Issue Monthly, 2021, ISSN 0006-4971
Publisher: American Society of Hematology
DOI: 10.1182/blood.2020010568

Single-cell transcriptomic atlas-guided development of CAR-T cells for the treatment of acute myeloid leukemia

Author(s): Adrian Gottschlich, Moritz Thomas, Ruth Grünmeier, Stefanie Lesch, Lisa Rohrbacher, Veronika Igl, Daria Briukhovetska, Mohamed-Reda Benmebarek, Binje Vick, Sertac Dede, Katharina Müller, Tao Xu, Dario Dhoqina, Florian Märkl, Sophie Robinson, Andrea Sendelhofert, Heiko Schulz, Öykü Umut, Vladyslav Kavaka, Christina Angeliki Tsiverioti, Emanuele Carlini, Sayantan Nandi, Thaddäus Strzalkowski,
Published in: Nature Biotechnology, Issue 41, 2023, Page(s) 1618-1632, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/s41587-023-01684-0

Explainable machine learning for profiling the immunological synapse and functional characterization of therapeutic antibodies

Author(s): Sayedali Shetab Boushehri, Katharina Essig, Nikolaos-Kosmas Chlis, Sylvia Herter, Marina Bacac, Fabian J. Theis, Elke Glasmacher, Carsten Marr, Fabian Schmich
Published in: Nature Communications, Issue 14, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-43429-2

Tens of images can suffice to train neural networks for malignant leukocyte detection

Author(s): Jens P. E. Schouten, Christian Matek, Luuk F. P. Jacobs, Michèle C. Buck, Dragan Bošnački, Carsten Marr
Published in: Scientific Reports, Issue 11, 2022, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-021-86995-5

Progressive disruption of hematopoietic architecture from clonal hematopoiesis to MDS

Author(s): Michèle C. Buck, Lisa Bast, Judith S. Hecker, Jennifer Rivière, Maja Rothenberg-Thurley, Luisa Vogel, Dantong Wang, Immanuel Andrä, Fabian J. Theis, Florian Bassermann, Klaus H. Metzeler, Robert A.J. Oostendorp, Carsten Marr, Katharina S. Götze
Published in: iScience, Issue 26, 2024, Page(s) 107328, ISSN 2589-0042
Publisher: Elsevier
DOI: 10.1016/j.isci.2023.107328

Conference proceedings (2)

CHIP & HIPs: Clonal Hematopoiesis is Common in Hip Arthroplasty Patients and Associates with Autoimmune Disease

Author(s): Judith S. Hecker, Luise Hartmann, Jennifer Rivière, Michèle C. Buck, Mark van der Garde, Maja Rothenberg-Thurley, Luise Fischer, Susann Winter, Bianka Ksienzyk, Frank Ziemann, Maria Solovey, Martina Rauner, Elena Tsourdi, Katja Sockel, Marie Schneider, Anne S. Kubasch, Martin Nolde, Dominikus Hausmann, Alexander C. Paulus, Jörg Lützner, Andreas Roth, Florian Bassermann, Karsten Spiekermann, Ca
Published in: Blood Journal, Issue Monthly, 2021, ISSN 0006-4971
Publisher: American Society of Hematology
DOI: 10.1182/blood.2020010163

Computational modeling of stem and progenitor cell kinetics identifies plausible hematopoietic lineage hierarchies

Author(s): Lisa Bast 1 2 , Michèle C Buck 3 , Judith S Hecker 3 , Robert A J Oostendorp 3 , Katharina S Götze 3 4 , Carsten Marr 1 2
Published in: iScience , Issue Monthly, 2021, ISSN 2589-0042
Publisher: Elsevier Inc
DOI: 10.1016/j.isci.2021.102120