R. Leon-Ferre, J. Carter, D. Zahrieh, J. Sinnwell, R. Salgado, V. Suman, D. Hillman, J. Boughey, K. Kalari, F. Couch, J. Ingle, M. Balkenhol, F. Ciompi, J. van der Laak and M. Goetz, "Automated mitotic spindle hotspot counts are highly associated with clinical outcomes in systemically untreated early-stage triple-negative breast cancer",
npj Breast Cancer,
2024;10.
L. van Eekelen, J. Spronck, M. Looijen-Salamon, S. Vos, E. Munari, I. Girolami, A. Eccher, B. Acs, C. Boyaci, G. de Souza, M. Demirel-Andishmand, L. Meesters, D. Zegers, L. van der Woude, W. Theelen, M. van den Heuvel, K. Grünberg, B. van Ginneken, J. van der Laak and F. Ciompi, "Comparing deep learning and pathologist quantification of cell-level PD-L1 expression in non-small cell lung cancer whole-slide images",
Scientific Reports,
2024;14.
A. Vos, L. Pijnenborg, S. van Vliet, L. Kodach, F. Ciompi, R. van der Post, F. Simmer and I. Nagtegaal, "Biological background of colorectal polyps and carcinomas with heterotopic ossification: A national study and literature review",
Human Pathology,
2024;145:34-41.
L. Maier-Hein, A. Reinke, P. Godau, M. Tizabi, F. Buettner, E. Christodoulou, B. Glocker, F. Isensee, J. Kleesiek, M. Kozubek, M. Reyes, M. Riegler, M. Wiesenfarth, A. Kavur, C. Sudre, M. Baumgartner, M. Eisenmann, D. Heckmann-Nötzel, T. Rädsch, L. Acion, M. Antonelli, T. Arbel, S. Bakas, A. Benis, M. Blaschko, M. Cardoso, V. Cheplygina, B. Cimini, G. Collins, K. Farahani, L. Ferrer, A. Galdran, B. van Ginneken, R. Haase, D. Hashimoto, M. Hoffman, M. Huisman, P. Jannin, C. Kahn, D. Kainmueller, B. Kainz, A. Karargyris, A. Karthikesalingam, F. Kofler, A. Kopp-Schneider, A. Kreshuk, T. Kurc, B. Landman, G. Litjens, A. Madani, K. Maier-Hein, A. Martel, P. Mattson, E. Meijering, B. Menze, K. Moons, H. Müller, B. Nichyporuk, F. Nickel, J. Petersen, N. Rajpoot, N. Rieke, J. Saez-Rodriguez, C. Sánchez, S. Shetty, M. van Smeden, R. Summers, A. Taha, A. Tiulpin, S. Tsaftaris, B. Van Calster, G. Varoquaux and P. Jäger, "Metrics reloaded: recommendations for image analysis validation",
Nature Methods,
2024;21:195-212.
A. Reinke, M. Tizabi, M. Baumgartner, M. Eisenmann, D. Heckmann-Nötzel, A. Kavur, T. Rädsch, C. Sudre, L. Acion, M. Antonelli, T. Arbel, S. Bakas, A. Benis, F. Buettner, M. Cardoso, V. Cheplygina, J. Chen, E. Christodoulou, B. Cimini, K. Farahani, L. Ferrer, A. Galdran, B. van Ginneken, B. Glocker, P. Godau, D. Hashimoto, M. Hoffman, M. Huisman, F. Isensee, P. Jannin, C. Kahn, D. Kainmueller, B. Kainz, A. Karargyris, J. Kleesiek, F. Kofler, T. Kooi, A. Kopp-Schneider, M. Kozubek, A. Kreshuk, T. Kurc, B. Landman, G. Litjens, A. Madani, K. Maier-Hein, A. Martel, E. Meijering, B. Menze, K. Moons, H. Müller, B. Nichyporuk, F. Nickel, J. Petersen, S. Rafelski, N. Rajpoot, M. Reyes, M. Riegler, N. Rieke, J. Saez-Rodriguez, C. Sánchez, S. Shetty, R. Summers, A. Taha, A. Tiulpin, S. Tsaftaris, B. Van Calster, G. Varoquaux, Z. Yaniv, P. Jäger and L. Maier-Hein, "Understanding metric-related pitfalls in image analysis validation",
Nature Methods,
2024;21:182-194.
E. Chelebian, C. Avenel, F. Ciompi and C. Wählby, "DEPICTER: Deep representation clustering for histology annotation",
Computers in Biology and Medicine,
2024;170:108026.
K. Faryna, J. van der Laak and G. Litjens, "Automatic data augmentation to improve generalization of deep learning in H&E stained histopathology",
Computers in Biology and Medicine,
2024;170:108018.
D. Schouten, J. van der Laak, B. van Ginneken and G. Litjens, "Full resolution reconstruction of whole-mount sections from digitized individual tissue fragments",
Scientific Reports,
2024;14.
C. Jahangir, D. Page, G. Broeckx, C. Gonzalez, C. Burke, C. Murphy, J. Reis-Filho, A. Ly, P. Harms, R. Gupta, M. Vieth, A. Hida, M. Kahila, Z. Kos, P. van Diest, S. Verbandt, J. Thagaard, R. Khiroya, K. Abduljabbar, G. Acosta Haab, B. Acs, S. Adams, J. Almeida, I. Alvarado-Cabrero, F. Azmoudeh-Ardalan, S. Badve, N. Baharun, E. Bellolio, V. Bheemaraju, K. Blenman, L. Mendonça Botinelly Fujimoto, O. Burgues, A. Chardas, M. Cheang, F. Ciompi, L. Cooper, A. Coosemans, G. Corredor, F. Dantas Portela, F. Deman, S. Demaria, S. Dudgeon, M. Elghazawy, C. Fernandez-Martín, S. Fineberg, S. Fox, J. Giltnane, S. Gnjatic, P. Gonzalez-Ericsson, A. Grigoriadis, N. Halama, M. Hanna, A. Harbhajanka, S. Hart, J. Hartman, S. Hewitt, H. Horlings, Z. Husain, S. Irshad, E. Janssen, T. Kataoka, K. Kawaguchi, A. Khramtsov, U. Kiraz, P. Kirtani, L. Kodach, K. Korski, G. Akturk, E. Scott, A. Kovács, A. L\aenkholm , C. Lang-Schwarz, D. Larsimont, J. Lennerz, M. Lerousseau, X. Li, A. Madabhushi, S. Maley, V. Manur Narasimhamurthy, D. Marks, E. McDonald, R. Mehrotra, S. Michiels, D. Kharidehal, F. Minhas, S. Mittal, D. Moore, S. Mushtaq, H. Nighat, T. Papathomas, F. Penault-Llorca, R. Perera, C. Pinard, J. Pinto-Cardenas, G. Pruneri, L. Pusztai, N. Rajpoot, B. Rapoport, T. Rau, J. Ribeiro, D. Rimm, A. Vincent-Salomon, J. Saltz, S. Sayed, E. Hytopoulos, S. Mahon, K. Siziopikou, C. Sotiriou, A. Stenzinger, M. Sughayer, D. Sur, F. Symmans, S. Tanaka, T. Taxter, S. Tejpar, J. Teuwen, E. Thompson, T. Tramm, W. Tran, J. van der Laak, G. Verghese, G. Viale, N. Wahab, T. Walter, Y. Waumans, H. Wen, W. Yang, Y. Yuan, J. Bartlett, S. Loibl, C. Denkert, P. Savas, S. Loi, E. Specht Stovgaard, R. Salgado, W. Gallagher and A. Rahman, "Image-based multiplex immune profiling of cancer tissues: translational implications. A report of the International Immuno-oncology Biomarker Working Group on Breast Cancer",
The Journal of Pathology,
2024;262:271-288.
J. Linmans, G. Raya, J. van der Laak and G. Litjens, "Diffusion models for out-of-distribution detection in digital pathology",
Medical Image Analysis,
2024;93:103088.
D. Geijs, S. Dooper, W. Aswolinskiy, L. Hillen, A. Amir and G. Litjens, "Detection and subtyping of basal cell carcinoma in whole-slide histopathology using weakly-supervised learning",
Medical Image Analysis,
2024;93:103063.
M. van Rijthoven, S. Obahor, F. Pagliarulo, V. den Maries, P. Schraml, H. Moch, J. van der Laak, F. Ciompi and K. Silina, "Multi-resolution deep learning characterizes tertiary lymphoid structures and their prognostic relevance in solid tumors",
Communications Medicine,
2024.
S. Vermorgen, T. Gelton, P. Bult, H. Kusters-Vandevelde, J. Hausnerová, K. de Van Vijver, B. Davidson, I. Stefansson, L. Kooreman, A. Qerimi, J. Huvila, B. Gilks, M. Shahi, S. Zomer, C. Bartosch, J. Pijnenborg, J. Bulten, F. Ciompi and M. Simons, "Endometrial Pipelle Biopsy Computer-Aided Diagnosis: A Feasibility Study",
Modern Pathology,
2024;37:100417.
G. Solé-Guardia, M. Luijten, B. Geenen, J. Claassen, G. Litjens, F. de Leeuw, M. Wiesmann and A. Kiliaan, "Three-dimensional identification of microvascular pathology and neurovascular inflammation in severe white matter hyperintensity: a case report",
Scientific Reports,
2024;14.
W. Aswolinskiy, E. Munari, H. Horlings, L. Mulder, G. Bogina, J. Sanders, Y. Liu, A. van den Belt-Dusebout, L. Tessier, M. Balkenhol, M. Stegeman, J. Hoven, J. Wesseling, J. van der Laak, E. Lips and F. Ciompi, "PROACTING: predicting pathological complete response to neoadjuvant chemotherapy in breast cancer from routine diagnostic histopathology biopsies with deep learning",
Breast Cancer Research,
2023;25.
N. Brouwer, A. Khan, J. Bokhorst, F. Ayatollahi, J. Hay, F. Ciompi, F. Simmer, N. Hugen, J. de Wilt, M. Berger, A. Lugli, I. Zlobec, J. Edwards and I. Nagtegaal, "The complexity of shapes; how the circularity of tumor nodules impacts prognosis in colorectal cancer",
Modern Pathology,
2023:100376.
Y. Jiao, J. van der Laak, S. Albarqouni, Z. Li, T. Tan, A. Bhalerao, J. Ma, J. Sun, J. Pocock, J. Pluim, N. Koohbanani, R. Bashir, S. Raza, S. Liu, S. Graham, S. Wetstein, S. Khurram, T. Watson, N. Rajpoot, M. Veta and F. Ciompi, "LYSTO: The Lymphocyte Assessment Hackathon and Benchmark Dataset",
IEEE Journal of Biomedical and Health Informatics,
2023:1-12.
J. Linmans, E. Hoogeboom, J. van der Laak and G. Litjens, "The Latent Doctor Model for Modeling Inter-Observer Variability",
IEEE Journal of Biomedical and Health Informatics,
2023:1-12.
J. Swillens, I. Nagtegaal, S. Engels, A. Lugli, R. Hermens and J. van der Laak, "Pathologists' first opinions on barriers and facilitators of computational pathology adoption in oncological pathology: an international study",
Oncogene,
2023;42:2816-2827.
S. Dooper, H. Pinckaers, W. Aswolinskiy, K. Hebeda, S. Jarkman, J. van der Laak and G. Litjens, "Gigapixel end-to-end training using streaming and attention",
Medical Image Analysis,
2023;88:102881.
J. Bokhorst, I. Nagtegaal, F. Fraggetta, S. Vatrano, W. Mesker, M. Vieth, J. van der Laak and F. Ciompi, "Deep learning for multi-class semantic segmentation enables colorectal cancer detection and classification in digital pathology images",
Scientific Reports,
2023;13:8398.
A. van der Kamp, T. de Bel, L. van Alst, J. Rutgers, M. van den Heuvel-Eibrink, A. Mavinkurve-Groothuis, J. van der Laak and R. de Krijger, "Automated Deep Learning-Based Classification of Wilms Tumor Histopathology",
Cancers,
2023;15:2656.
B. Laarhuis, M. Janssen, M. Simons, L. van Kalmthout, M. van der Doelen, S. Peters, H. Westdorp, I. van Oort, G. Litjens, M. Gotthardt, J. Nagarajah, N. Mehra and B. Prive, "Tumoral Ki67 and PSMA Expression in Fresh Pre-PSMA-RLT Biopsies and Its Relation With PSMA-PET Imaging and Outcomes of PSMA-RLT in Patients With mCRPC.",
Clinical Genitourinary Cancer,
2023.
M. Schuurmans, N. Alves, P. Vendittelli, H. Huisman and J. Hermans, "Artificial Intelligence in Pancreatic Ductal Adenocarcinoma Imaging: A Commentary on Potential Future Applications.",
Gastroenterology,
2023.
J. Bokhorst, I. Nagtegaal, I. Zlobec, H. Dawson, K. Sheahan, F. Simmer, R. Kirsch, M. Vieth, A. Lugli, J. van der Laak and F. Ciompi, "Semi-Supervised Learning to Automate Tumor Bud Detection in Cytokeratin-Stained Whole-Slide Images of Colorectal Cancer",
Cancers,
2023;15(7):2079.
R. Zoetmulder, L. Baak, N. Khalili, H. Marquering, N. Wagenaar, M. Benders, N. van der Aa and I. Isgum, "Brain segmentation in patients with perinatal arterial ischemic stroke",
NeuroImage: Clinical,
2023;38:103381.
J. Bogaerts, M. van Bommel, R. Hermens, M. Steenbeek, J. de Hullu, J. van der Laak, M. Simons and S. consortium, "Consensus based recommendations for the diagnosis of serous tubal intraepithelial carcinoma: an international Delphi study",
Histopathology,
2023;83:67-79.
L. van Eekelen, G. Litjens and K. Hebeda, "Artificial intelligence in bone marrow histological diagnostics: potential applications and challenges.",
Pathobiology,
2023.
A. Baidoshvili, M. Khacheishvili, J. van der Laak and P. van Diest, "A whole-slide imaging based workflow reduces the reading time of pathologists",
Pathology International,
2023;73:127-134.
J. Linmans, S. Elfwing, J. van der Laak and G. Litjens, "Predictive uncertainty estimation for out-of-distribution detection in digital pathology.",
Medical Image Analysis,
2023;83:102655.
M. Smit, F. Ciompi, J. Bokhorst, G. van Pelt, O. Geessink, H. Putter, R. Tollenaar, J. van Krieken, W. Mesker and J. van der Laak, "Deep learning based tumor-stroma ratio scoring in colon cancer correlates with microscopic assessment",
Journal of Pathology Informatics,
2023.
J. Bokhorst, F. Ciompi, S. Öztürk, A. Oguz Erdogan, M. Vieth, H. Dawson, R. Kirsch, F. Simmer, K. Sheahan, A. Lugli, I. Zlobec, J. van der Laak and I. Nagtegaal, "Fully Automated Tumor Bud Assessment in Hematoxylin and Eosin-Stained Whole Slide Images of Colorectal Cancer",
Modern Pathology,
2023;36:100233.
M. Polack, M. Smit, S. Crobach, V. Terpstra, A. Roodvoets, E. Meershoek-Klein Kranenbarg, E. Dequeker, J. van der Laak, R. Tollenaar, H. van Krieken and W. Mesker, "Uniform Noting for International application of the Tumor-stroma ratio as Easy Diagnostic tool: The UNITED study - An update",
European Journal of Surgical Oncology,
2023;49:e132-e133.
P. Bándi, M. Balkenhol, M. van Dijk, M. Kok, B. van Ginneken, J. van der Laak and G. Litjens, "Continual learning strategies for cancer-independent detection of lymph node metastases",
Medical Image Analysis,
2023;85:102755.
J. Thagaard, G. Broeckx, D. Page, C. Jahangir, S. Verbandt, Z. Kos, R. Gupta, R. Khiroya, K. Abduljabbar, G. Acosta Haab, B. Acs, G. Akturk, J. Almeida, I. Alvarado-Cabrero, M. Amgad, F. Azmoudeh-Ardalan, S. Badve, N. Baharun, E. Balslev, E. Bellolio, V. Bheemaraju, K. Blenman, L. Mendonça Botinelly Fujimoto, N. Bouchmaa, O. Burgues, A. Chardas, M. U Chon Cheang, F. Ciompi, L. Cooper, A. Coosemans, G. Corredor, A. Dahl, F. Dantas Portela, F. Deman, S. Demaria, J. Doré Hansen, S. Dudgeon, T. Ebstrup, M. Elghazawy, C. Fernandez-Martín, S. Fox, W. Gallagher, J. Giltnane, S. Gnjatic, P. Gonzalez-Ericsson, A. Grigoriadis, N. Halama, M. Hanna, A. Harbhajanka, S. Hart, J. Hartman, S. Hauberg, S. Hewitt, A. Hida, H. Horlings, Z. Husain, E. Hytopoulos, S. Irshad, E. Janssen, M. Kahila, T. Kataoka, K. Kawaguchi, D. Kharidehal, A. Khramtsov, U. Kiraz, P. Kirtani, L. Kodach, K. Korski, A. Kovács, A. Laenkholm, C. Lang-Schwarz, D. Larsimont, J. Lennerz, M. Lerousseau, X. Li, A. Ly, A. Madabhushi, S. Maley, V. Manur Narasimhamurthy, D. Marks, E. McDonald, R. Mehrotra, S. Michiels, F. Minhas, S. Mittal, D. Moore, S. Mushtaq, H. Nighat, T. Papathomas, F. Penault-Llorca, R. Perera, C. Pinard, J. Pinto-Cardenas, G. Pruneri, L. Pusztai, A. Rahman, N. Rajpoot, B. Rapoport, T. Rau, J. Reis-Filho, J. Ribeiro, D. Rimm, A. Roslind, A. Vincent-Salomon, M. Salto-Tellez, J. Saltz, S. Sayed, E. Scott, K. Siziopikou, C. Sotiriou, A. Stenzinger, M. Sughayer, D. Sur, S. Fineberg, F. Symmans, S. Tanaka, T. Taxter, S. Tejpar, J. Teuwen, E. Thompson, T. Tramm, W. Tran, J. van der Laak, P. van Diest, G. Verghese, G. Viale, M. Vieth, N. Wahab, T. Walter, Y. Waumans, H. Wen, W. Yang, Y. Yuan, R. Zin, S. Adams, J. Bartlett, S. Loibl, C. Denkert, P. Savas, S. Loi, R. Salgado and E. Specht Stovgaard, "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",
The Journal of Pathology,
2023;260:498-513.
L. Menotti, G. Silvello, M. Atzori, S. Boytcheva, F. Ciompi, G. Di Nunzio, F. Fraggetta, F. Giachelle, O. Irrera, S. Marchesin, N. Marini, H. Müller and T. Primov, "Modelling digital health data: The ExaMode ontology for computational pathology",
Journal of Pathology Informatics,
2023;14:100332.
D. Page, G. Broeckx, C. Jahangir, S. Verbandt, R. Gupta, J. Thagaard, R. Khiroya, Z. Kos, K. Abduljabbar, G. Acosta Haab, B. Acs, G. Akturk, J. Almeida, I. Alvarado-Cabrero, F. Azmoudeh-Ardalan, S. Badve, N. Baharun, E. Bellolio, V. Bheemaraju, K. Blenman, L. Mendonça Botinelly Fujimoto, N. Bouchmaa, O. Burgues, M. Cheang, F. Ciompi, L. Cooper, A. Coosemans, G. Corredor, F. Dantas Portela, F. Deman, S. Demaria, S. Dudgeon, M. Elghazawy, S. Ely, C. Fernandez-Martín, S. Fineberg, S. Fox, W. Gallagher, J. Giltnane, S. Gnjatic, P. Gonzalez-Ericsson, A. Grigoriadis, N. Halama, M. Hanna, A. Harbhajanka, A. Hardas, S. Hart, J. Hartman, S. Hewitt, A. Hida, H. Horlings, Z. Husain, E. Hytopoulos, S. Irshad, E. Janssen, M. Kahila, T. Kataoka, K. Kawaguchi, D. Kharidehal, A. Khramtsov, U. Kiraz, P. Kirtani, L. Kodach, K. Korski, A. Kovács, A. Laenkholm, C. Lang-Schwarz, D. Larsimont, J. Lennerz, M. Lerousseau, X. Li, A. Ly, A. Madabhushi, S. Maley, V. Manur Narasimhamurthy, D. Marks, E. McDonald, R. Mehrotra, S. Michiels, F. Minhas, S. Mittal, D. Moore, S. Mushtaq, H. Nighat, T. Papathomas, F. Penault-Llorca, R. Perera, C. Pinard, J. Pinto-Cardenas, G. Pruneri, L. Pusztai, A. Rahman, N. Rajpoot, B. Rapoport, T. Rau, J. Reis-Filho, J. Ribeiro, D. Rimm, A. Vincent-Salomon, M. Salto-Tellez, J. Saltz, S. Sayed, K. Siziopikou, C. Sotiriou, A. Stenzinger, M. Sughayer, D. Sur, F. Symmans, S. Tanaka, T. Taxter, S. Tejpar, J. Teuwen, E. Thompson, T. Tramm, W. Tran, J. van der Laak, P. van Diest, G. Verghese, G. Viale, M. Vieth, N. Wahab, T. Walter, Y. Waumans, H. Wen, W. Yang, Y. Yuan, S. Adams, J. Bartlett, S. Loibl, C. Denkert, P. Savas, S. Loi, R. Salgado and E. Specht Stovgaard, "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",
The Journal of Pathology,
2023;260:514-532.
C. Grisi, G. Litjens and J. van der Laak, "Hierarchical Vision Transformers for Context-Aware Prostate Cancer Grading in Whole Slide Images",
arXiv:2312.12619,
2023.
D. Schouten and G. Litjens, "PythoStitcher: an iterative approach for stitching digitized tissue fragments into full resolution whole-mount reconstructions",
Medical Imaging,
2023;12471:1247118.
P. Vendittelli, J. Bokhorst, E. Smeets, V. Kryklyva, L. Brosens, C. Verbeke and G. Litjens, "Automatic quantification of TSR as a prognostic marker for pancreatic cancer.",
Medical Imaging with Deep Learning,
2023.
J. Spronck, T. Gelton, L. van Eekelen, J. Bogaerts, L. Tessier, M. van Rijthoven, L. van der Woude, M. van den Heuvel, W. Theelen, J. van der Laak and F. Ciompi, "nnUNet meets pathology: bridging the gap for application to whole-slide images and computational biomarkers",
Medical Imaging with Deep Learning,
2023.
R. Lomans, J. van der Laak, I. Nagtegaal, F. Ciompi and R. van der Post, "Deep learning for multi-class cell detection in H&E-stained slides of diffuse gastric cancer",
European Congress of Pathology,
2023.
M. D'Amato, M. Balkenhol, M. van Rijthoven, J. van der Laak and F. Ciompi, "On the robustness of regressing tumor percentage as an explainable detector in histopathology whole-slide images",
Medical Imaging with Deep Learning,
2023.
B. Guevara, N. Marini, S. Marchesin, W. Aswolinskiy, R. Schlimbach, D. Podareanu and F. Ciompi, "Caption generation from histopathology whole-slide images using pre-trained transformers",
Medical Imaging with Deep Learning,
2023.
R. Leon-Ferre, J. Carter, D. Zahrieh, J. Sinnwell, R. Salgado, V. Suman, D. Hillman, J. Boughey, K. Kalari, F. Couch, J. Ingle, M. Balkenkohl, F. Ciompi, J. van der Laak and M. Goetz, "Abstract P2-11-34: Mitotic spindle hotspot counting using deep learning networks is highly associated with clinical outcomes in patients with early-stage triple-negative breast cancer who did not receive systemic therapy",
Cancer Research,
2023;83:P2-11-34-P2-11-34.
R. Lomans, R. van der Post and F. Ciompi, "Interactive Cell Detection in H&E-stained slides of Diffuse Gastric Cancer",
Medical Imaging with Deep Learning,
2023.
M. Aubreville, N. Stathonikos, C. Bertram, R. Klopfleisch, N. Hoeve, F. Ciompi, F. Wilm, C. Marzahl, T. Donovan, A. Maier, M. Veta and K. Breininger, "Abstract: the MIDOG Challenge 2021",
Bildverarbeitung fur die Medizin, Workshop,
2023:115-115.
M. Aubreville, N. Stathonikos, C. Bertram, R. Klopfleisch, N. Ter Hoeve, F. Ciompi, F. Wilm, C. Marzahl, T. Donovan, A. Maier, J. Breen, N. Ravikumar, Y. Chung, J. Park, R. Nateghi, F. Pourakpour, R. Fick, S. Ben Hadj, M. Jahanifar, A. Shephard, J. Dexl, T. Wittenberg, S. Kondo, M. Lafarge, V. Koelzer, J. Liang, Y. Wang, X. Long, J. Liu, S. Razavi, A. Khademi, S. Yang, X. Wang, R. Erber, A. Klang, K. Lipnik, P. Bolfa, M. Dark, G. Wasinger, M. Veta and K. Breininger, "Mitosis domain generalization in histopathology images - The MIDOG challenge.",
Medical Image Analysis,
2022;84:102699.
L. Adams, M. Makowski, G. Engel, M. Rattunde, F. Busch, P. Asbach, S. Niehues, S. Vinayahalingam, B. van Ginneken, G. Litjens and K. Bressem, "Dataset of prostate MRI annotated for anatomical zones and cancer.",
Data in brief,
2022;45:108739.
S. Jarkman, M. Karlberg, M. Poceviciute, A. Boden, P. Bandi, G. Litjens, C. Lundstrom, D. Treanor and J. van der Laak, "Generalization of Deep Learning in Digital Pathology: Experience in Breast Cancer Metastasis Detection.",
Cancers,
2022;14(21).
C. Mercan, M. Balkenhol, R. Salgado, M. Sherman, P. Vielh, W. Vreuls, A. Polonia, H. Horlings, W. Weichert, J. Carter, P. Bult, M. Christgen, C. Denkert, K. van de Vijver, J. Bokhorst, J. van der Laak and F. Ciompi, "Deep learning for fully-automated nuclear pleomorphism scoring in breast cancer.",
NPJ breast cancer,
2022;8(1):120.
S. Marchesin, F. Giachelle, N. Marini, M. Atzori, S. Boytcheva, G. Buttafuoco, F. Ciompi, G. Di Nunzio, F. Fraggetta, O. Irrera, H. Muller, T. Primov, S. Vatrano and G. Silvello, "Empowering digital pathology applications through explainable knowledge extraction tools.",
Journal of pathology informatics,
2022;13:100139.
E. Munari, G. Querzoli, M. Brunelli, M. Marconi, M. Sommaggio, M. Cocchi, G. Martignoni, G. Netto, A. Calio, L. Quatrini, F. Mariotti, C. Luchini, I. Girolami, A. Eccher, D. Segala, F. Ciompi, G. Zamboni, L. Moretta and G. Bogina, "Comparison of three validated PD-L1 immunohistochemical assays in urothelial carcinoma of the bladder: interchangeability and issues related to patient selection.",
Frontiers in immunology,
2022;13:954910.
N. Marini, S. Marchesin, S. Otalora, M. Wodzinski, A. Caputo, M. van Rijthoven, W. Aswolinskiy, J. Bokhorst, D. Podareanu, E. Petters, S. Boytcheva, G. Buttafuoco, S. Vatrano, F. Fraggetta, J. van der Laak, M. Agosti, F. Ciompi, G. Silvello, H. Muller and M. Atzori, "Unleashing the potential of digital pathology data by training computer-aided diagnosis models without human annotations.",
NPJ digital medicine,
2022;5(1):102.
M. Hermsen, F. Ciompi, A. Adefidipe, A. Denic, A. Dendooven, B. Smith, D. van Midden, J. Brasen, J. Kers, M. Stegall, P. Bándi, T. Nguyen, Z. Swiderska-Chadaj, B. Smeets, L. Hilbrands and J. van der Laak, "Convolutional neural networks for the evaluation of chronic and inflammatory lesions in kidney transplant biopsies",
American Journal of Pathology,
2022;192(10):1418-1432.
L. Adams, M. Makowski, G. Engel, M. Rattunde, F. Busch, P. Asbach, S. Niehues, S. Vinayahalingam, B. van Ginneken, G. Litjens and K. Bressem, "Prostate158 - An expert-annotated 3T MRI dataset and algorithm for prostate cancer detection.",
Computers in biology and medicine,
2022;148:105817.
M. Antonelli, A. Reinke, S. Bakas, K. Farahani, A. Kopp-Schneider, B. Landman, G. Litjens, B. Menze, O. Ronneberger, R. Summers, B. van Ginneken, M. Bilello, P. Bilic, P. Christ, R. Do, M. Gollub, S. Heckers, H. Huisman, W. Jarnagin, M. McHugo, S. Napel, J. Pernicka, K. Rhode, C. Tobon-Gomez, E. Vorontsov, J. Meakin, S. Ourselin, M. Wiesenfarth, P. Arbelaez, B. Bae, S. Chen, L. Daza, J. Feng, B. He, F. Isensee, Y. Ji, F. Jia, I. Kim, K. Maier-Hein, D. Merhof, A. Pai, B. Park, M. Perslev, R. Rezaiifar, O. Rippel, I. Sarasua, W. Shen, J. Son, C. Wachinger, L. Wang, Y. Wang, Y. Xia, D. Xu, Z. Xu, Y. Zheng, A. Simpson, L. Maier-Hein and M. Cardoso, "The Medical Segmentation Decathlon",
Nature Communications,
2022;13(1):4128.
J. Ogony, T. de Bel, D. Radisky, J. Kachergus, E. Thompson, A. Degnim, K. Ruddy, T. Hilton, M. Stallings-Mann, C. Vachon, T. Hoskin, M. Heckman, R. Vierkant, L. White, R. Moore, J. Carter, M. Jensen, L. Pacheco-Spann, J. Henry, A. Storniolo, S. Winham, J. van der Laak and M. Sherman, "Towards defining morphologic parameters of normal parous and nulliparous breast tissues by artificial intelligence",
Breast Cancer Research,
2022;24.
V. Bergshoeff, M. Balkenhol, A. Haesevoets, A. Ruland, M. Chenault, R. Nelissen, C. Peutz, R. Clarijs, J. der Van Laak, R. Takes, M. den Van Brekel, M. Van Velthuysen, F. Ramaekers, B. Kremer and E. Speel, "Evaluation Criteria for Chromosome Instability Detection by FISH to Predict Malignant Progression in Premalignant Glottic Laryngeal Lesions",
Cancers,
2022;14:3260.
H. Pinckaers, J. van Ipenburg, J. Melamed, A. De Marzo, E. Platz, B. van Ginneken, J. van der Laak and G. Litjens, "Predicting biochemical recurrence of prostate cancer with artificial intelligence",
Communications Medicine,
2022;2:64.
M. Sherman, T. de Bel, M. Heckman, L. White, J. Ogony, M. Stallings-Mann, T. Hilton, A. Degnim, R. Vierkant, T. Hoskin, M. Jensen, L. Pacheco-Spann, J. Henry, A. Storniolo, J. Carter, S. Winham, D. Radisky and J. van der Laak, "Serum hormone levels and normal breast histology among premenopausal women",
Breast Cancer Research and Treatment,
2022;194:149-158.
I. Girolami, L. Pantanowitz, S. Marletta, M. Hermsen, J. van der Laak, E. Munari, L. Furian, F. Vistoli, G. Zaza, M. Cardillo, L. Gesualdo, G. Gambaro and A. Eccher, "Artificial intelligence applications for pre-implantation kidney biopsy pathology practice: a systematic review.",
Journal of nephrology,
2022.
S. Satturwar, I. Girolami, E. Munari, F. Ciompi, A. Eccher and L. Pantanowitz, "Program death ligand-1 immunocytochemistry in lung cancer cytological samples: A systematic review.",
Diagnostic cytopathology,
2022;50(6):313-323.
A. van der Kamp, T. Waterlander, T. de Bel, J. van der Laak, M. van den Heuvel-Eibrink, A. Mavinkurve-Groothuis and R. de Krijger, "Artificial Intelligence in Pediatric Pathology: The Extinction of a Medical Profession or the Key to a Bright Future?",
Pediatric and Developmental Pathology,
2022;25:380-387.
B. Sturm, D. Creytens, J. Smits, A. Ooms, E. Eijken, E. Kurpershoek, H. Küsters-Vandevelde, C. Wauters, W. Blokx and J. van der Laak, "Computer-Aided Assessment of Melanocytic Lesions by Means of a Mitosis Algorithm",
Diagnostics,
2022;12:436.
T. de Bel, G. Litjens, J. Ogony, M. Stallings-Mann, J. Carter, T. Hilton, D. Radisky, R. Vierkant, B. Broderick, T. Hoskin, S. Winham, M. Frost, D. Visscher, T. Allers, A. Degnim, M. Sherman and J. van der Laak, "Automated quantification of levels of breast terminal duct lobular (TDLU) involution using deep learning",
npj Breast Cancer,
2022;8.
W. Bulten, K. Kartasalo, P. Chen, P. Strom, H. Pinckaers, K. Nagpal, Y. Cai, D. Steiner, H. van Boven, R. Vink, C. de Hulsbergen-van Kaa, J. van der Laak, M. Amin, A. Evans, T. van der Kwast, R. Allan, P. Humphrey, H. Gronberg, H. Samaratunga, B. Delahunt, T. Tsuzuki, T. Hakkinen, L. Egevad, M. Demkin, S. Dane, F. Tan, M. Valkonen, G. Corrado, L. Peng, C. Mermel, P. Ruusuvuori, G. Litjens, M. Eklund, A. Brilhante, A. Cakir, X. Farre, K. Geronatsiou, V. Molinie, G. Pereira, P. Roy, G. Saile, P. Salles, E. Schaafsma, J. Tschui, J. Billoch-Lima, E. Pereira, M. Zhou, S. He, S. Song, Q. Sun, H. Yoshihara, T. Yamaguchi, K. Ono, T. Shen, J. Ji, A. Roussel, K. Zhou, T. Chai, N. Weng, D. Grechka, M. Shugaev, R. Kiminya, V. Kovalev, D. Voynov, V. Malyshev, E. Lapo, M. Campos, N. Ota, S. Yamaoka, Y. Fujimoto, K. Yoshioka, J. Juvonen, M. Tukiainen, A. Karlsson, R. Guo, C. Hsieh, I. Zubarev, H. Bukhar, W. Li, J. Li, W. Speier, C. Arnold, K. Kim, B. Bae, Y. Kim, H. Lee, J. Park and the PANDA challenge consortium, "Artificial intelligence for diagnosis and Gleason grading of prostate cancer: the PANDA challenge",
Nature Medicine,
2022.
L. Miesen, P. Bándi, B. Willemsen, F. Mooren, T. Strieder, E. Boldrini, V. Drenic, J. Eymael, R. Wetzels, J. Lotz, N. Weiss, E. Steenbergen, T. van Kuppevelt, M. van Erp, J. van der Laak, N. Endlich, M. Moeller, J. Wetzels, J. Jansen and B. Smeets, "Parietal epithelial cells maintain the epithelial cell continuum forming Bowman's space in focal segmental glomerulosclerosis",
Disease Models & Mechanisms,
2022;15.
M. Schuurmans, N. Alves, P. Vendittelli, H. Huisman and J. Hermans, "Setting the Research Agenda for Clinical Artificial Intelligence in Pancreatic Adenocarcinoma Imaging",
Cancers,
2022:3498.
S. Otálora, N. Marini, D. Podareanu, R. Hekster, D. Tellez, J. Der Van Laak, H. Müller and M. Atzori, "stainlib: a python library for augmentation and normalization of histopathology H&E images",
Preprint,
2022.
J. van der Laak, K. Grünberg, A. Frisk and P. Moulin, "BUILDING AN E.U.-SCALE DIGITAL PATHOLOGY REPOSITORY: THE BIGPICTURE INITIATIVE",
Journal of Pathology Informatics,
2022;13:100026.
M. D'Amato, P. Szostak and B. Torben-Nielsen, "A Comparison Between Single- and Multi-Scale Approaches for Classification of Histopathology Images",
Frontiers in Public Health,
2022;10.
L. Studer, J. Bokhorst, F. Ciompi, A. Fischer and H. Dawson, "Building-T-cell score is a potential predictor for more aggressive treatment in pT1 colorectal cancers",
Proceedings of the ECDP 2022 18th European Congress on Digital Pathology,
2022.
M. van Bommel, J. Bogaerts, R. Hermens, M. Steenbeek, J. de Hullu, J. van der Laak and M. Simons, "2022-RA-646-ESGO Consensus based recommendations for the diagnosis of serous tubal intraepithelial carcinoma, an international delphi study",
Pathology,
2022.
E. Chelebian and F. Ciompi, "Seeded iterative clustering for histology region identification",
Learning Meaningful Representations of Life, NeurIPS 2022,
2022.
L. van Eekelen, E. Munari, L. Meesters, G. de Souza, M. Demirel-Andishmand, D. Zegers, M. Looijen-Salamon, S. Vos and F. Ciompi, "Nuclei detection with YOLOv5 in PD-L1 stained non-small cell lung cancer whole slide images",
European Congress of Pathology,
2022.
L. van Eekelen, E. Munari, I. Girolami, A. Eccher, J. van der Laak, K. Grunberg, M. Looijen-Salamon, S. Vos and F. Ciompi, "Inter-rater agreement of pathologists on determining PD-L1 status in non-small cell lung cancer",
European Congress of Pathology,
2022.
J. Spronck, L. Eekelen, L. Tessier, J. Bogaerts, L. van der Woude, M. van den Heuvel, W. Theelen and F. Ciompi, "Deep learning-based quantification of immune infiltrate for predicting response to pembrolizumab from pre-treatment biopsies of metastatic non-small cell lung cancer: A study on the PEMBRO-RT phase II trial",
Immuno-Oncology and Technology,
2022.
E. van Genugten, B. Piet, G. Schreibelt, T. van Oorschot, G. van den Heuvel, F. Ciompi, C. Jacobs, J. de Vries, M. van den Heuvel and E. Aarntzen, "Imaging tumor-infiltrating CD8 (+) T-cells in non-small cell lung cancer patients upon neo-adjuvant treatment with durvalumab",
European Molecular Imaging Meeting,
2022.
M. Yousif, P. van Diest, A. Laurinavicius, D. Rimm, J. van der Laak, A. Madabhushi, S. Schnitt and L. Pantanowitz, "Artificial intelligence applied to breast pathology",
Virchows Archiv,
2021;480:191-209.
L. van Eekelen, H. Pinckaers, M. van den Brand, K. Hebeda and G. Litjens, "Using deep learning for quantification of cellularity and cell lineages in bone marrow biopsies and comparison to normal age-related variation.",
Pathology,
2021.
J. Rutgers, T. Bánki, A. van der Kamp, T. Waterlander, M. Scheijde-Vermeulen, M. van den Heuvel-Eibrink, J. van der Laak, M. Fiocco, A. Mavinkurve-Groothuis and R. de Krijger, "Interobserver variability between experienced and inexperienced observers in the histopathological analysis of Wilms tumors: a pilot study for future algorithmic approach",
Diagnostic Pathology,
2021;16.
K. Kartasalo, W. Bulten, B. Delahunt, P. Chen, H. Pinckaers, H. Olsson, X. Ji, N. Mulliqi, H. Samaratunga, T. Tsuzuki, J. Lindberg, M. Rantalainen, C. Wahlby, G. Litjens, P. Ruusuvuori, L. Egevad and M. Eklund, "Artificial Intelligence for Diagnosis and Gleason Grading of Prostate Cancer in Biopsies-Current Status and Next Steps.",
European Urology Focus,
2021;7(4):687-691.
J. Slaats, C. Dieteren, E. Wagena, L. Wolf, T. Raaijmakers, J. van der Laak, C. Figdor, B. Weigelin and P. Friedl, "Metabolic Screening of Cytotoxic T-cell Effector Function Reveals the Role of CRAC Channels in Regulating Lethal Hit Delivery",
Cancer Immunology Research,
2021;9:926-938.
E. Munari, M. Marconi, G. Querzoli, G. Lunardi, P. Bertoglio, F. Ciompi, A. Tosadori, A. Eccher, N. Tumino, L. Quatrini, P. Vacca, G. Rossi, A. Cavazza, G. Martignoni, M. Brunelli, G. Netto, L. Moretta, G. Zamboni and G. Bogina, "Impact of PD-L1 and PD-1 Expression on the Prognostic Significance of CD8+, Tumor-Infiltrating Lymphocytes in Non-Small Cell Lung Cancer.",
Frontiers in immunology,
2021;12:680973.
E. Munari, F. Mariotti, L. Quatrini, P. Bertoglio, N. Tumino, P. Vacca, A. Eccher, F. Ciompi, M. Brunelli, G. Martignoni, G. Bogina and L. Moretta, "PD-1/PD-L1 in Cancer: Pathophysiological, Diagnostic and Therapeutic Aspects.",
International journal of molecular sciences,
2021;22(10).
M. Hermsen, V. Volk, J. Brasen, D. Geijs, W. Gwinner, J. Kers, J. Linmans, N. Schaadt, J. Schmitz, E. Steenbergen, Z. Swiderska-Chadaj, B. Smeets, L. Hilbrands and J. van der Laak, "Quantitative assessment of inflammatory infiltrates in kidney transplant biopsies using multiplex tyramide signal amplification and deep learning",
Laboratory Investigation,
2021;101(8):970-982.
F. Faita, T. Oranges, N. Di Lascio, F. Ciompi, S. Vitali, G. Aringhieri, A. Janowska, M. Romanelli and V. Dini, "Ultra-high-frequency ultrasound and machine learning approaches for the differential diagnosis of melanocytic lesions.",
Experimental Dermatology,
2021.
H. Pinckaers, W. Bulten, J. der Van Laak and G. Litjens, "Detection of prostate cancer in whole-slide images through end-to-end training with image-level labels.",
IEEE Transactions on Medical Imaging,
2021.
T. Haddad, A. Lugli, S. Aherne, V. Barresi, B. Terris, J. Bokhorst, S. Brockmoeller, M. Cuatrecasas, F. Simmer, H. El-Zimaity, J. Fléjou, D. Gibbons, G. Cathomas, R. Kirsch, T. Kuhlmann, C. Langner, M. Loughrey, R. Riddell, A. Ristimäki, S. Kakar, K. Sheahan, D. Treanor, J. van der Laak, M. Vieth, I. Zlobec and I. Nagtegaal, "Improving tumor budding reporting in colorectal cancer: a Delphi consensus study",
Virchows Archiv,
2021;479:459-469.
T. de Bel, J. Bokhorst, J. van der Laak and G. Litjens, "Residual cyclegan for robust domain transformation of histopathological tissue slides.",
Medical Image Analysis,
2021;70:102004.
M. Balkenhol, F. Ciompi, Z. Swiderska-Chadaj, R. van de Loo, M. Intezar, I. Otte-Holler, D. Geijs, J. Lotz, N. Weiss, T. de Bel, G. Litjens, P. Bult and J. van der Laak, "Optimized tumour infiltrating lymphocyte assessment for triple negative breast cancer prognostics.",
The Breast,
2021;56:78-87.
O. Turner, B. Knight, A. Zuraw, G. Litjens and D. Rudmann, "Mini Review: The Last Mile-Opportunities and Challenges for Machine Learning in Digital Toxicologic Pathology.",
Toxicologic Pathology,
2021;49(4):714-719.
M. van Rijthoven, M. Balkenhol, K. Silina, J. van der Laak and F. Ciompi, "HookNet: Multi-resolution convolutional neural networks for semantic segmentation in histopathology whole-slide images",
Medical Image Analysis,
2021;68:101890.
Z. Li, J. Zhang, T. Tan, X. Teng, X. Sun, H. Zhao, L. Liu, Y. Xiao, B. Lee, Y. Li, Q. Zhang, S. Sun, Y. Zheng, J. Yan, N. Li, Y. Hong, J. Ko, H. Jung, Y. Liu, Y. Chen, C. Wang, V. Yurovskiy, P. Maevskikh, V. Khanagha, Y. Jiang, L. Yu, Z. Liu, D. Li, P. Schuffler, Q. Yu, H. Chen, Y. Tang and G. Litjens, "Deep Learning Methods for Lung Cancer Segmentation in Whole-Slide Histopathology Images--The ACDC@LungHP Challenge 2019",
IEEE Journal of Biomedical and Health Informatics,
2021;25:429-440.
N. Lessmann, C. Sánchez, L. Beenen, L. Boulogne, M. Brink, E. Calli, J. Charbonnier, T. Dofferhoff, W. van Everdingen, P. Gerke, B. Geurts, H. Gietema, M. Groeneveld, L. van Harten, N. Hendrix, W. Hendrix, H. Huisman, I. Isgum, C. Jacobs, R. Kluge, M. Kok, J. Krdzalic, B. Lassen-Schmidt, K. van Leeuwen, J. Meakin, M. Overkamp, T. van Rees Vellinga, E. van Rikxoort, R. Samperna, C. Schaefer-Prokop, S. Schalekamp, E. Scholten, C. Sital, L. Stöger, J. Teuwen, K. Vaidhya Venkadesh, C. de Vente, M. Vermaat, W. Xie, B. de Wilde, M. Prokop and B. van Ginneken, "Automated Assessment of COVID-19 Reporting and Data System and Chest CT Severity Scores in Patients Suspected of Having COVID-19 Using Artificial Intelligence",
Radiology,
2021;298(1):E18-E28.
D. Tellez, G. Litjens, J. van der Laak and F. Ciompi, "Neural Image Compression for Gigapixel Histopathology Image Analysis.",
IEEE Transactions on Pattern Analysis and Machine Intelligence,
2021;43(2):567-578.
F. Ciompi, M. Veta, J. van der Laak and N. Rajpoot, "Editorial Computational Pathology",
IEEE} Journal of Biomedical and Health Informatics,
2021;25(2):303-306.
N. Marini, S. Otálora, D. Podareanu, M. van Rijthoven, J. van der Laak, F. Ciompi, H. Muller and M. Atzori, "Multi_Scale_Tools: A Python Library to Exploit Multi-Scale Whole Slide Images",
Frontiers in Computer Science,
2021;3.
J. Bogaerts, M. Steenbeek, M. van Bommel, J. Bulten, J. van der Laak, J. de Hullu and M. Simons, "Recommendations for diagnosing STIC: a systematic review and meta-analysis",
2021;480(4):725-737.
J. Bokhorst, I. Nagtegaal, F. Fraggetta, S. Vatrano, W. Mesker, M. Vieth, J. van der Laak and F. Ciompi, "Automated risk classification of colon biopsies based on semantic segmentation of histopathology images",
arXiv:2109.07892,
2021.
A. Reinke, M. Eisenmann, M. Tizabi, C. Sudre, T. Radsch, M. Antonelli, T. Arbel, S. Bakas, M. Cardoso, V. Cheplygina, K. Farahani, B. Glocker, D. Heckmann-Notzel, F. Isensee, P. Jannin, C. Kahn, J. Kleesiek, T. Kurc, M. Kozubek, B. Landman, G. Litjens, K. Maier-Hein, B. Menze, H. Muller, J. Petersen, M. Reyes, N. Rieke, B. Stieltjes, R. Summers, S. Tsaftaris, B. van Ginneken, A. Kopp-Schneider, P. Jager and L. Maier-Hein, "Common Limitations of Image Processing Metrics: A Picture Story",
arXiv preprint arXiv:2104.05642,
2021.
J. Lotz, N. Weiss, J. van der Laak and S. Heldmann, "Comparison of Consecutive and Re-stained Sections for Image Registration in Histopathology",
arXiv:2106.13150,
2021.
M. Aubreville, C. Bertram, M. Veta, R. Klopfleisch, N. Stathonikos, K. Breininger, N. ter Hoeve, F. Ciompi and A. Maier, "Quantifying the Scanner-Induced Domain Gap in Mitosis Detection",
arXiv:2103.16515,
2021.
M. Antonelli, A. Reinke, S. Bakas, K. Farahani, AnnetteKopp-Schneider, B. Landman, G. Litjens, B. Menze, O. Ronneberger, R. Summers, B. van Ginneken, M. Bilello, P. Bilic, P. Christ, R. Do, M. Gollub, S. Heckers, H. Huisman, W. Jarnagin, M. McHugo, S. Napel, J. Pernicka, K. Rhode, C. Tobon-Gomez, E. Vorontsov, H. Huisman, J. Meakin, S. Ourselin, M. Wiesenfarth, P. Arbelaez, B. Bae, S. Chen, L. Daza, J. Feng, B. He, F. Isensee, Y. Ji, F. Jia, N. Kim, I. Kim, D. Merhof, A. Pai, B. Park, M. Perslev, R. Rezaiifar, O. Rippel, I. Sarasua, W. Shen, J. Son, C. Wachinger, L. Wang, Y. Wang, Y. Xia, D. Xu, Z. Xu, Y. Zheng, A. Simpson, L. Maier-Hein and M. Cardoso, "The Medical Segmentation Decathlon",
arXiv preprint arXiv:2106.05735,
2021.
G. Smit, F. Ciompi, M. Cigéhn, A. Bodén, J. van der Laak and C. Mercan, "Quality control of whole-slide images through multi-class semantic segmentation of artifacts",
Medical Imaging with Deep Learning,
2021.
K. Faryna, J. van der Laak and G. Litjens, "Tailoring automated data augmentation to H&E-stained histopathology",
Medical Imaging with Deep Learning,
2021.
A. Reinke, M. Eisenmann, M. Tizabi, C. Sudre, T. Radsch, M. Antonelli, T. Arbel, S. Bakas, J. Cardoso, V. Cheplygina, K. Farahani, B. Glocker, D. Heckmann-Notzel, F. Isensee, P. Jannin, C. Kahn, J. Kleesiek, T. Kurc, M. Kozubek, B. Landman, G. Litjens, K. Maier-Hein, A. Martel, H. Muller, J. Petersen, M. Reyes, N. Rieke, B. Stieltjes, R. Summers, S. Tsaftaris, B. van Ginneken, A. Kopp-Schneider, P. Jager and L. Maier-Hein, "Common limitations of performance metrics in biomedical image analysis",
Medical Imaging with Deep Learning,
2021.
N. Marini, S. Otalora, F. Ciompi, G. Silvello, S. Marchesin, S. Vatrano, G. Buttafuoco, M. Atzori, H. Muller, N. Burlutskiy, Z. Li, F. Minhas, T. Peng, N. Rajpoot, B. Torbennielsen, J. Der Van Laak, M. Veta, Y. Yuan and I. Zlobec, "Multi-Scale Task Multiple Instance Learning for the Classification of Digital Pathology Images with Global Annotations",
2021.
A. Saha, J. Bosma, J. Linmans, M. Hosseinzadeh and H. Huisman, "Anatomical and Diagnostic Bayesian Segmentation in Prostate MRI -- Should Different Clinical Objectives Mandate Different Loss Functions?",
Medical Imaging Meets NeurIPS Workshop - 35th Conference on Neural Information Processing Systems (NeurIPS),
2021.
D. Geijs, H. Pinckaers, A. Amir and G. Litjens, "End-to-end classification on basal-cell carcinoma histopathology whole-slides images",
Medical Imaging,
2021;11603:1160307.
R. Fick, B. Tayart, C. Bertrand, S. Lang, T. Rey, F. Ciompi, C. Tilmant, I. Farre and S. Hadj, "A Partial Label-Based Machine Learning Approach For Cervical Whole-Slide Image Classification: The Winning TissueNet Solution",
2021 43rd Annual International Conference of the {IEEE} Engineering in Medicine and Biology Society ({EMBC}),
2021.
J. Vermazeren, L. van Eekelen, L. Meesters, M. Looijen-Salamon, S. Vos, E. Munari, C. Mercan and F. Ciompi, "muPEN: Multi-class PseudoEdgeNet for PD-L1 assessment",
Medical Imaging with Deep Learning,
2021.
M. van Rijthoven, M. Balkenhol, M. Atzori, P. Bult, J. van der Laak and F. Ciompi, "Few-shot weakly supervised detection and retrieval in histopathology whole-slide images",
Medical Imaging,
2021;11603:137 - 143.
W. Aswolinskiy, D. Tellez, G. Raya, L. van der Woude, M. Looijen-Salamon, J. van der Laak, K. Grunberg and F. Ciompi, "Neural image compression for non-small cell lung cancer subtype classification in H&E stained whole-slide images",
Medical Imaging 2021: Digital Pathology,
2021;11603:1 - 7.
Y. Jiao, M. Rijthoven, J. Li, K. Grunberg, S. Fei and F. Ciompi, "Automatic Lung Cancer Segmentation in Histopathology Whole-Slide Images with Deep Learning",
European Congress on Digital Pathology (ECDP),
2021.
M. Hermsen, B. Smeets, L. Hilbrands and J. van der Laak, "Artificial intelligence; is there a potential role in nephropathology?",
Nephrology Dialysis Transplantation,
2020.
Z. Swiderska-Chadaj, K. Hebeda, M. van den Brand and G. Litjens, "Artificial intelligence to detect MYC translocation in slides of diffuse large B-cell lymphoma",
Virchows Archiv,
2020.
Z. Swiderska-Chadaj, T. de Bel, L. Blanchet, A. Baidoshvili, D. Vossen, J. van der Laak and G. Litjens, "Impact of rescanning and normalization on convolutional neural network performance in multi-center, whole-slide classification of prostate cancer",
Scientific Reports,
2020;10(1):14398.
H. Pinckaers, B. van Ginneken and G. Litjens, "Streaming convolutional neural networks for end-to-end learning with multi-megapixel images",
IEEE Transactions on Pattern Analysis and Machine Intelligence,
2020.
W. Bulten, M. Balkenhol, J. Belinga, A. Brilhante, A. Çakır, L. Egevad, M. Eklund, X. Farré, K. Geronatsiou, V. Molinié, G. Pereira, P. Roy, G. Saile, P. Salles, E. Schaafsma, J. Tschui, A. Vos, B. Delahunt, H. Samaratunga, D. Grignon, A. Evans, D. Berney, C. Pan, G. Kristiansen, J. Kench, J. Oxley, K. Leite, J. McKenney, P. Humphrey, S. Fine, T. Tsuzuki, M. Varma, M. Zhou, E. Comperat, D. Bostwick, K. Iczkowski, C. Magi-Galluzzi, J. Srigley, H. Takahashi, T. van der Kwast, H. van Boven, R. Vink, J. van der Laak, C. der Hulsbergen-van Kaa and G. Litjens, "Artificial Intelligence Assistance Significantly Improves Gleason Grading of Prostate Biopsies by Pathologists",
Modern Pathology,
2020.
G. van Leenders, T. van der Kwast, D. Grignon, A. Evans, G. Kristiansen, C. Kweldam, G. Litjens, J. McKenney, J. Melamed, N. Mottet, G. Paner, H. Samaratunga, I. Schoots, J. Simko, T. Tsuzuki, M. Varma, A. Warren, T. Wheeler, S. Williamson, K. Iczkowski and I. Members, "The 2019 International Society of Urological Pathology (ISUP) Consensus Conference on Grading of Prostatic Carcinoma.",
American Journal of Surgical Pathology,
2020;44(8):e87-e99.
Z. Kos, A. Roblin, R. Kim, S. Michiels, B. Gallas, W. Chen, K. van de Vijver, S. Goel, S. Adams, S. Demaria, G. Viale, T. Nielsen, S. Badve, W. Symmans, C. Sotiriou, D. Rimm, S. Hewitt, C. Denkert, S. Loibl, S. Luen, J. Bartlett, P. Savas, G. Pruneri, D. Dillon, M. Cheang, A. Tutt, J. Hall, M. Kok, H. Horlings, A. Madabhushi, J. van der Laak, F. Ciompi, A. Laenkholm, E. Bellolio, T. Gruosso, S. Fox, J. Araya, G. Floris, J. Hudeček, L. Voorwerk, A. Beck, J. Kerner, D. Larsimont, S. Declercq, G. den Eynden, L. Pusztai, A. Ehinger, W. Yang, K. AbdulJabbar, Y. Yuan, R. Singh, C. Hiley, M. al Bakir, A. Lazar, S. Naber, S. Wienert, M. Castillo, G. Curigliano, M. Dieci, F. André, C. Swanton, J. Reis-Filho, J. Sparano, E. Balslev, I. Chen, E. Stovgaard, K. Pogue-Geile, K. Blenman, F. Penault-Llorca, S. Schnitt, S. Lakhani, A. Vincent-Salomon, F. Rojo, J. Braybrooke, M. Hanna, M. Soler-Monsó, D. Bethmann, C. Castaneda, K. Willard-Gallo, A. Sharma, H. Lien, S. Fineberg, J. Thagaard, L. Comerma, P. Gonzalez-Ericsson, E. Brogi, S. Loi, J. Saltz, F. Klaushen, L. Cooper, M. Amgad, D. Moore and R. Salgado, "Pitfalls in assessing stromal tumor infiltrating lymphocytes (sTILs) in breast cancer",
npj Breast Cancer,
2020;6(1).
M. Amgad, A. Stovgaard, E. Balslev, J. Thagaard, W. Chen, S. Dudgeon, A. Sharma, J. Kerner, C. Denkert, Y. Yuan, K. AbdulJabbar, S. Wienert, P. Savas, L. Voorwerk, A. Beck, A. Madabhushi, J. Hartman, M. Sebastian, H. Horlings, J. Hudeček, F. Ciompi, D. Moore, R. Singh, E. Roblin, M. Balancin, M. Mathieu, J. Lennerz, P. Kirtani, I. Chen, J. Braybrooke, G. Pruneri, S. Demaria, S. Adams, S. Schnitt, S. Lakhani, F. Rojo, L. Comerma, S. Badve, M. Khojasteh, W. Symmans, C. Sotiriou, P. Gonzalez-Ericsson, K. Pogue-Geile, R. Kim, D. Rimm, G. Viale, S. Hewitt, J. Bartlett, F. Penault-Llorca, S. Goel, H. Lien, S. Loibl, Z. Kos, S. Loi, M. Hanna, S. Michiels, M. Kok, T. Nielsen, A. Lazar, Z. Bago-Horvath, L. Kooreman, J. van der Laak, J. Saltz, B. Gallas, U. Kurkure, M. Barnes, R. Salgado and L. Cooper, "Report on computational assessment of Tumor Infiltrating Lymphocytes from the International Immuno-Oncology Biomarker Working Group",
npj Breast Cancer,
2020;6(1).
M. Balkenhol, W. Vreuls, C. Wauters, S. Mol, J. van der Laak and P. Bult, "Histological subtypes in triple negative breast cancer are associated with specific information on survival",
Annals of Diagnostic Pathology,
2020;46:151490.
W. Bulten, H. Pinckaers, H. van Boven, R. Vink, T. de Bel, B. van Ginneken, J. van der Laak, C. de Hulsbergen-van Kaa and G. Litjens, "Automated deep-learning system for Gleason grading of prostate cancer using biopsies: a diagnostic study",
Lancet Oncology,
2020;21(2):233-241.
F. Ayatollahi, S. Shokouhi and J. Teuwen, "Differentiating Benign and Malignant Mass and non-Mass Lesions in Breast DCE-MRI using Normalized Frequency-based Features",
International Journal of Computer Assisted Radiology and Surgery,
2020;15(2):297-307.
C. Mercan, M. Balkenhol, R. Salgado, M. Sherman, P. Vielh, W. Vreuls, A. Polonia, H. Horlings, W. Weichert, J. Carter, P. Bult, M. Christgen, C. Denkert, K. van de Vijver, J. van der Laak and F. Ciompi, "Automated Scoring of Nuclear Pleomorphism Spectrum with Pathologist-level Performance in Breast Cancer",
arXiv:2012.04974,
2020.
L. van Eekelen, H. Pinckaers, K. Hebeda and G. Litjens, "Multi-class semantic cell segmentation and classification of aplasia in bone marrow histology images",
Medical Imaging,
2020;11320:113200B.
K. Faryna, F. Tushar, V. D'Anniballe, R. Hou, G. Rubin and J. Lo, "Attention-guided classification of abnormalities in semi-structured computed tomography reports",
Medical Imaging,
2020;11314:397 - 403.
Z. Swiderska-Chadaj, K. Nurzynska, G. Bartlomiej, K. Grunberg, L. van der Woude, M. Looijen-Salamon, A. Walts, T. Markiewicz, F. Ciompi and A. Gertych, "A deep learning approach to assess the predominant tumor growth pattern in whole-slide images of lung adenocarcinoma",
Medical Imaging,
2020;11320:113200D.
Z. Swiderska-Chadaj, E. Stoelinga, A. Gertych and F. Ciompi, "Multi-Patch Blending improves lung cancer growth pattern segmentation in whole-slide images",
IEEE International Conference on Computational Problems of Electrical Engineering,
2020.
J. Linmans, J. van der Laak and G. Litjens, "Efficient Out-of-Distribution Detection in Digital Pathology Using Multi-Head Convolutional Neural Networks",
Medical Imaging with Deep Learning,
2020:465-478.
K. Faryna, K. Koschmieder, M. Paul, T. van den Heuvel, A. van der Eerden, R. Manniesing and B. van Ginneken, "Adversarial cycle-consistent synthesis of cerebral microbleeds for data augmentation",
Medical Imaging Meets NeurIPS Workshop - 34th Conference on Neural Information Processing Systems (NeurIPS),
2020.
Z. Swiderska-Chadaj, K. Hebeda, M. van den Brand and G. Litjens, "Predicting MYC translocation in HE specimens of diffuse large B-cell lymphoma through deep learning",
Medical Imaging,
2020;11320:1132010.
A. Saha, F. Tushar, K. Faryna, V. D'Anniballe, R. Hou, M. Mazurowski, G. Rubin and J. Lo, "Weakly Supervised 3D Classification of Chest CT using Aggregated Multi-Resolution Deep Segmentation Features",
Medical Imaging,
2020;11314:39 - 44.
D. Tellez, D. Hoppener, C. Verhoef, D. Grunhagen, P. Nierop, M. Drozdzal, J. van der Laak and F. Ciompi, "Extending Unsupervised Neural Image Compression With Supervised Multitask Learning",
Medical Imaging with Deep Learning,
2020.
C. Mercan, G. Reijnen-Mooij, D. Martin, J. Lotz, N. Weiss, M. van Gerven and F. Ciompi, "Virtual staining for mitosis detection in Breast Histopathology",
IEEE International Symposium on Biomedical Imaging,
2020:1770-1774.
C. Mercan, M. Balkenhol, J. Laak and F. Ciompi, "Grading nuclear pleomorphism in breast cancer using deep learning",
European Congress of Pathology,
2020.
J. Bokhorst, I. Nagtegaal, I. Zlobec, A. Lugli, M. Vieth, R. Kirsch, J. van der Laak and F. Ciompi, "Deep learning based tumor bud detection in pan-cytokeratin stained colorectal cancer whole-slide images",
European Congress of Pathology,
2020.
T. Haddad, J. Bokhorst, L. van den Dobbelsteen, F. Simmer, J. van der Laak and I. Nagtegaal, "Characterisation of the tumour-host interface as a prognostic factor through deep learning systems",
United European Gastroenterology Journal,
2020.
J. Bokhorst, F. Ciompi, I. Zlobec, A. Lugli, M. Vieth, R. Kirsch, J. van der Laak and I. Nagtegaal, "Computer-assisted hot-spot selection for tumor budding assessment in colorectal cancer",
European Congress of Pathology,
2020.
M. Balkenhol, P. Bult, D. Tellez, W. Vreuls, P. Clahsen, F. Ciompi and J. der Laak, "Deep learning enables fully automated mitotic density assessment in breast cancer histopathology",
European Journal of Cancer,
2020.
L. Studer, J. Bokhorst, I. Zlobec, A. Lugli, A. Fischer, F. Ciompi, J. van der Laak, I. Nagtegaal and H. Dawson, "Validation of computer-assisted tumour-bud and T-cell detection in pT1 colorectal cancer",
European Congress of pathology,
2020.
M. Balkenhol, "Tissue-based biomarker assessment for predicting prognosis of triple negative breast cancer: the additional value of artificial intelligence",
PhD thesis,
2020.
P. Bándi, M. Balkenhol, B. van Ginneken, J. van der Laak and G. Litjens, "Resolution-agnostic tissue segmentation in whole-slide histopathology images with convolutional neural networks",
PeerJ,
2019;7:e8242.
J. Bokhorst, A. Blank, A. Lugli, I. Zlobec, H. Dawson, M. Vieth, L. Rijstenberg, S. Brockmoeller, M. Urbanowicz, J. Flejou, R. Kirsch, F. Ciompi, J. van der Laak and I. Nagtegaal, "Assessment of individual tumor buds using keratin immunohistochemistry: moderate interobserver agreement suggests a role for machine learning",
Modern Pathology,
2019.
O. Debats, G. Litjens and H. Huisman, "Lymph node detection in MR Lymphography: false positive reduction using multi-view convolutional neural networks",
PeerJ,
2019;7:e8052.
M. Mullooly, B. Ehteshami Bejnordi, R. Pfeiffer, S. Fan, M. Palakal, M. Hada, P. Vacek, D. Weaver, J. Shepherd, B. Fan, A. Mahmoudzadeh, J. Wang, S. Malkov, J. Johnson, S. Herschorn, B. Sprague, S. Hewitt, L. Brinton, N. Karssemeijer, J. van der Laak, A. Beck, M. Sherman and G. Gierach, "Application of convolutional neural networks to breast biopsies to delineate tissue correlates of mammographic breast density",
NPJ Breast Cancer,
2019;5:43.
M. Hermsen, T. de Bel, M. den Boer, E. Steenbergen, J. Kers, S. Florquin, J. Roelofs, M. Stegall, M. Alexander, B. Smith, B. Smeets, L. Hilbrands and J. van der Laak, "Deep-learning based histopathologic assessment of kidney tissue",
Journal of the American Society of Nephrology,
2019;30(10):1968-1979.
Z. Swiderska-Chadaj, H. Pinckaers, M. van Rijthoven, M. Balkenhol, M. Melnikova, O. Geessink, Q. Manson, M. Sherman, A. Polonia, J. Parry, M. Abubakar, G. Litjens, J. van der Laak and F. Ciompi, "Learning to detect lymphocytes in immunohistochemistry with deep learning",
Medical Image Analysis,
2019;58:101547.
D. Tellez, G. Litjens, P. Bándi, W. Bulten, J. Bokhorst, F. Ciompi and J. van der Laak, "Quantifying the effects of data augmentation and stain color normalization in convolutional neural networks for computational pathology",
Medical Image Analysis,
2019;58:101544.
A. Halilovic, D. Verweij, A. Simons, M. Stevens-Kroef, S. Vermeulen, J. Elsink, B. Tops, I. Otte-Holler, J. van der Laak, C. van de Water, O. Boelens, M. Schlooz-Vries, J. Dijkstra, I. Nagtegaal, J. Tol, P. van Cleef, P. Span and P. Bult, "HER2, chromosome 17 polysomy and DNA ploidy status in breast cancer; a translational study",
Scientific Reports,
2019;9(1):11679.
G. Litjens, F. Ciompi, J. Wolterink, B. de Vos, T. Leiner, J. Teuwen and I. Isgum, "State-of-the-Art Deep Learning in Cardiovascular Image Analysis",
JACC Cardiovascular Imaging,
2019;12(8 Pt 1):1549-1565.
E. Abels, L. Pantanowitz, F. Aeffner, M. Zarella, J. van der Laak, M. Bui, V. Vemuri, A. Parwani, J. Gibbs, E. Agosto-Arroyo, A. Beck and C. Kozlowski, "Computational pathology definitions, best practices, and recommendations for regulatory guidance: a white paper from the Digital Pathology Association",
Journal of Pathology,
2019;249(3):286-294.
M. Balkenhol, D. Tellez, W. Vreuls, P. Clahsen, H. Pinckaers, F. Ciompi, P. Bult and J. van der Laak, "Deep learning assisted mitotic counting for breast cancer",
Laboratory Investigation,
2019.
N. Khalili, N. Lessmann, E. Turk, N. Claessens, R. de Heus, T. Kolk, M. Viergever, M. Benders and I. Išgum, "Automatic brain tissue segmentation in fetal MRI using convolutional neural networks",
Magnetic Resonance Imaging,
2019;64:77-89.
I. Munsterman, M. Van Erp, G. Weijers, C. Bronkhorst, C. de Korte, J. Drenth, J. van der Laak and E. Tjwa, "A Novel Automatic Digital Algorithm that Accurately Quantifies Steatosis in NAFLD on Histopathological Whole-Slide Images",
Cytometry Part B-Clinical Cytometry,
2019.
L. Aprupe, G. Litjens, T. Brinker, J. van der Laak and N. Grabe, "Robust and accurate quantification of biomarkers of immune cells in lung cancer micro-environment using deep convolutional neural networks",
PeerJ,
2019;7:e6335.
M. Balkenhol, P. Bult, D. Tellez, W. Vreuls, P. Clahsen, F. Ciompi and J. van der Laak, "Deep learning and manual assessment show that the absolute mitotic count does not contain prognostic information in triple negative breast cancer",
Cellular Oncology,
2019;42:4555-4569.
B. Sturm, D. Creytens, M. Cook, J. Smits, M. van Dijk, E. Eijken, E. Kurpershoek, H. Kusters-Vandevelde, A. Ooms, C. Wauters, W. Blokx and J. van der Laak, "Validation of Whole-slide Digitally Imaged Melanocytic Lesions: Does Z-Stack Scanning Improve Diagnostic Accuracy?",
Journal of Pathology Informatics,
2019;10:6.
M. Maas, G. Litjens, A. Wright, U. Attenberger, M. Haider, T. Helbich, B. Kiefer, K. Macura, D. Margolis, A. Padhani, K. Selnaes, G. Villeirs, J. Futterer and T. Scheenen, "A Single-Arm, Multicenter Validation Study of Prostate Cancer Localization and Aggressiveness With a Quantitative Multiparametric Magnetic Resonance Imaging Approach",
Investigative Radiology,
2019.
M. Veta, Y. Heng, N. Stathonikos, B. Bejnordi, F. Beca, T. Wollmann, K. Rohr, M. Shah, D. Wang, M. Rousson, M. Hedlund, D. Tellez, F. Ciompi, E. Zerhouni, D. Lanyi, M. Viana, V. Kovalev, V. Liauchuk, H. Phoulady, T. Qaiser, S. Graham, N. Rajpoot, E. Sjoblom, J. Molin, K. Paeng, S. Hwang, S. Park, Z. Jia, E. Chang, Y. Xu, A. Beck, P. van Diest and J. Pluim, "Predicting breast tumor proliferation from whole-slide images: the TUPAC16 challenge",
Medical Image Analysis,
2019;54(5):111-121.
O. Geessink, A. Baidoshvili, J. Klaase, B. Ehteshami Bejnordi, G. Litjens, G. van Pelt, W. Mesker, I. Nagtegaal, F. Ciompi and J. van der Laak, "Computer aided quantification of intratumoral stroma yields an independent prognosticator in rectal cancer",
Cellular Oncology,
2019:1-11.
W. Bulten, P. Bándi, J. Hoven, R. van de Loo, J. Lotz, N. Weiss, J. van der Laak, B. van Ginneken, C. Hulsbergen-van de Kaa and G. Litjens, "Epithelium segmentation using deep learning in H&E-stained prostate specimens with immunohistochemistry as reference standard",
Scientific Reports,
2019;9(1).
N. Pawlowski, S. Bhooshan, N. Ballas, F. Ciompi, B. Glocker and M. Drozdzal, "Needles in Haystacks: On Classifying Tiny Objects in Large Images",
arXiv:1908.06037,
2019.
A. Simpson, M. Antonelli, S. Bakas, M. Bilello, K. Farahani, B. van Ginneken, A. Kopp-Schneider, B. Landman, G. Litjens, B. Menze, O. Ronneberger, R. Summers, P. Bilic, P. Christ, R. Do, M. Gollub, J. Golia-Pernicka, S. Heckers, W. Jarnagin, M. McHugo, S. Napel, E. Vorontsov, L. Maier-Hein and M. Cardoso, "A large annotated medical image dataset for the development and evaluation of segmentation algorithms",
arXiv:1902.09063,
2019.
T. de Bel, M. Hermsen, J. Kers, J. van der Laak and G. Litjens, "Stain-Transforming Cycle-Consistent Generative Adversarial Networks for Improved Segmentation of Renal Histopathology",
Medical Imaging with Deep Learning,
2019.
C. Mercan, M. Balkenhol, J. van der Laak and F. Ciompi, "From Point Annotations to Epithelial Cell Detection in Breast Cancer Histopathology using RetinaNet",
Medical Imaging with Deep Learning,
2019.
H. Pinckaers, W. Bulten and G. Litjens, "High resolution whole prostate biopsy classification using streaming stochastic gradient descent",
Medical Imaging,
2019(1).
J. Bokhorst, H. Pinckaers, P. van Zwam, I. Nagetgaal, J. van der Laak and F. Ciompi, "Learning from sparsely annotated data for semantic segmentation in histopathology images",
Medical Imaging with Deep Learning,
2019;102:81-94.
K. Dercksen, W. Bulten and G. Litjens, "Dealing with Label Scarcity in Computational Pathology: A Use Case in Prostate Cancer Classification",
Medical Imaging with Deep Learning,
2019.
J. Bokhorst, H. Dawson, A. Blank, I. Zlobec, A. Lugli, M. Vieth, R. Kirsch, M. Urbanowicz, S. Brockmoeller, J. Flejou, L. Rijstenberg, J. van der Laak, F. Ciompi and I. Nagtegaal, "Assessment of tumor buds in colorectal cancer. A large-scale international digital observer study",
European Congress of Pathology,
2019.
N. Khalili, N. Lessmann, E. Turk, M. Viergever, M. Benders and I. Isgum, "Brain tissue segmentation in fetal MRI using convolutional neural networks with simulated intensity inhomogeneities",
Annual Meeting of the International Society for Magnetic Resonance in Medicine,
2019.
H. van Zeeland, J. Meakin, B. Liefers, C. González-Gonzalo, A. Vaidyanathan, B. van Ginneken, C. Klaver and C. Sánchez, "EyeNED workstation: Development of a multi-modal vendor-independent application for annotation, spatial alignment and analysis of retinal images",
Association for Research in Vision and Ophthalmology,
2019.
W. Bulten, H. Pinckaers, C. Hulsbergen-van de Kaa and G. Litjens, "Automated Gleason Grading of Prostate Biopsies Using Deep Learning",
United States and Canadian Academy of Pathology (USCAP) 108th Annual Meeting,
2019.
B. Liefers, J. Colijn, C. González-Gonzalo, A. Vaidyanathan, H. van Zeeland, P. Mitchell, C. Klaver and C. Sánchez, "Prediction of areas at risk of developing geographic atrophy in color fundus images using deep learning",
Association for Research in Vision and Ophthalmology,
2019.
M. Hermsen, T. de Bel, M. den Boer, E. Steenbergen, J. Kers, S. Florquin, J. Roelofs, M. Stegall, M. Alexander, B. Smith, B. Smeets, L. Hilbrands and J. van der Laak, "Deep learning-based histopathological assessment of renal tissue",
American Society of Nephrology Kidney Week 2019,
2019.
T. Haddad, N. Farahani, J. Bokhorst, F. Doubrava-Simmer, F. Ciompi, I. Nagtegaal and J. van der Laak, "A Colorectal Carcinoma in 3D: Merging Knife-Edge Scanning Microscopy and Deep Learning",
EACR,
2019.
C. González-Gonzalo, B. Liefers, A. Vaidyanathan, H. van Zeeland, C. Klaver and C. Sánchez, "Opening the "black box" of deep learning in automated screening of eye diseases",
Association for Research in Vision and Ophthalmology,
2019.
W. Aswolinskiy, H. Horlings, L. Mulder, J. van der Laak, J. Wesseling, E. Lips and F. Ciompi, "Potential of an AI-based digital biomarker to predict neoadjuvant chemotherapy response from preoperative biopsies of Luminal-B breast cancer",
European Congress of Pathology,
2019.
G. Mooij, "Using GANs to synthetically stain histopathological images to generate training data for automatic mitosis detection in breast tissue",
Master thesis,
2019.
P. Bándi, O. Geessink, Q. Manson, M. van Dijk, M. Balkenhol, M. Hermsen, B. Bejnordi, B. Lee, K. Paeng, A. Zhong, Q. Li, F. Zanjani, S. Zinger, K. Fukuta, D. Komura, V. Ovtcharov, S. Cheng, S. Zeng, J. Thagaard, A. Dahl, H. Lin, H. Chen, L. Jacobsson, M. Hedlund, M. Cetin, E. Halici, H. Jackson, R. Chen, F. Both, J. Franke, H. Kusters-Vandevelde, W. Vreuls, P. Bult, B. van Ginneken, J. van der Laak and G. Litjens, "From detection of individual metastases to classification of lymph node status at the patient level: the CAMELYON17 challenge",
IEEE Transactions on Medical Imaging,
2018;38(2):550-560.
C. Reijnen, H. Kusters-Vandevelde, K. Abbink, P. Zusterzeel, A. van Herwaarden, J. van der Laak, L. Massuger, M. Snijders, J. Pijnenborg and J. Bulten, "Quantification of Leydig cells and stromal hyperplasia in the postmenopausal ovary of women with endometrial carcinoma",
Human Pathology,
2018.
S. Balocco, F. Ciompi, J. Rigla, X. Carrillo, J. Mauri and P. Radeva, "Assessment Of Intra-coronary Stent Location And Extension In Intravascular Ultrasound Sequences",
Medical Physics,
2018;46(2):484-493.
M. Silva, M. Prokop, C. Jacobs, G. Capretti, N. Sverzellati, F. Ciompi, B. van Ginneken, C. Schaefer-Prokop, C. Galeone, A. Marchiano and U. Pastorino, "Long-term Active Surveillance of Screening Detected Subsolid Nodules is a Safe Strategy to Reduce Overtreatment",
Journal of Thoracic Oncology,
2018;13:1454-1463.
D. Tellez, M. Balkenhol, I. Otte-Holler, R. van de Loo, R. Vogels, P. Bult, C. Wauters, W. Vreuls, S. Mol, N. Karssemeijer, G. Litjens, J. van der Laak and F. Ciompi, "Whole-Slide Mitosis Detection in H&E Breast Histology Using PHH3 as a Reference to Train Distilled Stain-Invariant Convolutional Networks",
IEEE Transactions on Medical Imaging,
2018;37(9):2126 - 2136.
A. Baidoshvili, A. Bucur, J. van Leeuwen, J. van der Laak, P. Kluin and P. van Diest, "Evaluating the benefits of digital pathology implementation: time savings in laboratory logistics",
Histopathology,
2018;73(5):784-794.
B. Ehteshami Bejnordi, M. Mullooly, R. Pfeiffer, S. Fan, P. Vacek, D. Weaver, S. Herschorn, L. Brinton, B. van Ginneken, N. Karssemeijer, A. Beck, G. Gierach, J. van der Laak and M. Sherman, "Using deep convolutional neural networks to identify and classify tumor-associated stroma in diagnostic breast biopsies",
Modern Pathology,
2018;31(10):1502-1512.
A. Baidoshvili, N. Stathonikos, G. Freling, J. Bart, N. 't Hart, J. van der Laak, J. Doff, B. van der Vegt, M. Kluin Philip and P. van Dies, "Validation of a whole-slide image-based teleconsultation network",
Histopathology,
2018;73:777-783.
G. Litjens, P. Bándi, B. Ehteshami Bejnordi, O. Geessink, M. Balkenhol, P. Bult, A. Halilovic, M. Hermsen, R. van de Loo, R. Vogels, Q. Manson, N. Stathonikos, A. Baidoshvili, P. van Diest, C. Wauters, M. van Dijk and J. van der Laak, "1399 H&E-stained sentinel lymph node sections of breast cancer patients: the CAMELYON dataset",
GigaScience,
2018;7(6):1-8.
B. Bejnordi, G. Litjens and J. van der Laak, "Machine Learning Compared With Pathologist Assessment-Reply",
Journal of the American Medical Association,
2018;319(16):1726.
M. Silva, C. Schaefer-Prokop, C. Jacobs, G. Capretti, F. Ciompi, B. van Ginneken, U. Pastorino and N. Sverzellati, "Detection of Subsolid Nodules in Lung Cancer Screening: Complementary Sensitivity of Visual Reading and Computer-Aided Diagnosis",
Investigative Radiology,
2018;53(8):441-449.
K. Chung, F. Ciompi, J. Scholten E. Th. Goo, M. Prokop, C. Jacobs, B. van Ginneken and C. Schaefer-Prokop, "Visual Discrimination of Screen-detected Persistent from Transient Subsolid Nodules: an Observer Study",
PLoS One,
2018;13(2):e0191874.
J. Charbonnier, K. Chung, E. Scholten, E. van Rikxoort, C. Jacobs, N. Sverzellati, M. Silva, U. Pastorino, B. van Ginneken and F. Ciompi, "Automatic segmentation of the solid core and enclosed vessels in subsolid pulmonary nodules",
Scientific Reports,
2018;8(1):646.
Z. Li, Z. Hu, J. Xu, T. Tan, H. Chen, Z. Duan, P. Liu, J. Tang, G. Cai, Q. Ouyang, Y. Tang, G. Litjens and Q. Li, "Computer-aided diagnosis of lung carcinoma using deep learning - a pilot study",
arXiv:1803.05471,
2018.
Z. Swiderska-Chadaj, H. Pinckaers, M. van Rijthoven, M. Balkenhol, M. Melnikova, O. Geessink, Q. Manson, G. Litjens, J. van der Laak and F. Ciompi, "Convolutional Neural Networks for Lymphocyte detection in Immunohistochemically Stained Whole-Slide Images",
Medical Imaging with Deep Learning,
2018.
T. de Bel, M. Hermsen, J. van der Laak, G. Litjens, B. Smeets and L. Hilbrands, "Automatic segmentation of histopathological slides of renal tissue using deep learning",
Medical Imaging 2018: Digital Pathology,
2018.
J. Bokhorst, L. Rijstenberg, D. Goudkade, I. Nagtegaal, J. van der Laak and F. Ciompi, "Automatic Detection of Tumor Budding in Colorectal Carcinoma with Deep Learning",
Computational Pathology and Ophthalmic Medical Image Analysis,
2018.
M. van Rijthoven, Z. Swiderska-Chadaj, K. Seeliger, J. van der Laak and F. Ciompi, "You Only Look on Lymphocytes Once",
Medical Imaging with Deep Learning,
2018.
W. Bulten and G. Litjens, "Unsupervised Prostate Cancer Detection on H&E using Convolutional Adversarial Autoencoders",
Medical Imaging with Deep Learning,
2018.
D. Tellez, M. Balkenhol, N. Karssemeijer, G. Litjens, J. van der Laak and F. Ciompi, "H&E stain augmentation improves generalization of convolutional networks for histopathological mitosis detection",
Medical Imaging,
2018;10581.
D. Tellez, J. van der Laak and F. Ciompi, "Gigapixel Whole-Slide Image Classification Using Unsupervised Image Compression And Contrastive Training",
Medical Imaging with Deep Learning,
2018.
F. Zanjani, S. Zinger, B. Bejnordi, J. van der Laak and P. de With, "Stain normalization of histopathology images using generative adversarial networks",
2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018),
2018.
W. Bulten, C. de Kaa, J. van der Laak and G. Litjens, "Automated segmentation of epithelial tissue in prostatectomy slides using deep learning",
Medical Imaging,
2018;10581:105810S.
E. Smeets, J. Teuwen, J. van der Laak, M. Gotthardt, F. Ciompi and E. Aarntzen, "Tumor heterogeneity as a PET-biomarker predicts overall survival of pancreatic cancer patients",
European Society for Molecular Imaging,
2018.
F. Zanjani, S. Zinger, B. Bejnordi, J. van der Laak and P. de With, "Histopathology stain-color normalization using deep generative models",
Medical Imaging with Deep Learning,
2018.
M. Hermsen, T. de Bel, M. den Boer, E. Steenbergen, J. Kers, S. Florquin, B. Smeets, L. Hilbrands and J. van der Laak, "Glomerular detection, segmentation and counting in PAS-stained histopathological slides using deep learning",
Dutch Federation of Nephrology (NfN) Fall Symposium,
2018.
M. den Boer, "Automated structure segmentation and lymphocyte detection in kidney transplant whole slide images using a convolutional neural network",
Master thesis,
2018.
T. de Bel, M. Hermsen, G. Litjens and J. van der Laak, "Structure Instance Segmentation in Renal Tissue: A Case Study on Tubular Immune Cell Detection",
Computational Pathology and Ophthalmic Medical Image Analysis,
2018:112-119.
B. Bejnordi, G. Zuidhof, M. Balkenhol, M. Hermsen, P. Bult, B. van Ginneken, N. Karssemeijer, G. Litjens and J. van der Laak, "Context-aware stacked convolutional neural networks for classification of breast carcinomas in whole-slide histopathology images",
Journal of Medical Imaging,
2017;4(4):044504.
B. Ehteshami Bejnordi, M. Veta, P. van Diest, B. van Ginneken, N. Karssemeijer, G. Litjens, J. van der Laak, T. Consortium, M. Hermsen, Q. Manson, M. Balkenhol, O. Geessink, N. Stathonikos, M. van Dijk, P. Bult, F. Beca, A. Beck, D. Wang, A. Khosla, R. Gargeya, H. Irshad, A. Zhong, Q. Dou, Q. Li, H. Chen, H. Lin, P. Heng, C. Haß, E. Bruni, Q. Wong, U. Halici, M. Öner, R. Cetin-Atalay, M. Berseth, V. Khvatkov, A. Vylegzhanin, O. Kraus, M. Shaban, N. Rajpoot, R. Awan, K. Sirinukunwattana, T. Qaiser, Y. Tsang, D. Tellez, J. Annuscheit, P. Hufnagl, M. Valkonen, K. Kartasalo, L. Latonen, P. Ruusuvuori, K. Liimatainen, S. Albarqouni, B. Mungal, A. George, S. Demirci, N. Navab, S. Watanabe, S. Seno, Y. Takenaka, H. Matsuda, H. Ahmady Phoulady, V. Kovalev, A. Kalinovsky, V. Liauchuk, G. Bueno, M. Fernandez-Carrobles, I. Serrano, O. Deniz, D. Racoceanu and R. Venâncio, "Diagnostic Assessment of Deep Learning Algorithms for Detection of Lymph Node Metastases in Women With Breast Cancer",
Journal of the American Medical Association,
2017;318(22):2199-2210.
S. van Riel, F. Ciompi, M. Winkler Wille, A. Dirksen, S. Lam, E. Scholten, S. Rossi, N. Sverzellati, M. Naqibullah, R. Wittenberg, M. Hovinga-de Boer, M. Snoeren, L. Peters-Bax, O. Mets, M. Brink, M. Prokop, C. Schaefer-Prokop and B. van Ginneken, "Malignancy risk estimation of pulmonary nodules in screening CTs: Comparison between a computer model and human observers",
PLoS One,
2017;12(11):e0185032.
F. Ciompi, K. Chung, S. van Riel, A. Setio, P. Gerke, C. Jacobs, E. Scholten, C. Schaefer-Prokop, M. Wille, A. Marchiano, U. Pastorino, M. Prokop and B. van Ginneken, "Towards automatic pulmonary nodule management in lung cancer screening with deep learning",
Scientific Reports,
2017(46479).
G. Litjens, T. Kooi, B. Ehteshami Bejnordi, A. Setio, F. Ciompi, M. Ghafoorian, J. van der Laak, B. van Ginneken and C. Sánchez, "A Survey on Deep Learning in Medical Image Analysis",
Medical Image Analysis,
2017;42:60-88.
A. Setio, A. Traverso, T. de Bel, M. Berens, C. Bogaard, P. Cerello, H. Chen, Q. Dou, M. Fantacci, B. Geurts, R. Gugten, P. Heng, B. Jansen, M. de Kaste, V. Kotov, J. Lin, J. Manders, A. Sonora-Mengana, J. Garcia-Naranjo, E. Papavasileiou, M. Prokop, M. Saletta, C. Schaefer-Prokop, E. Scholten, L. Scholten, M. Snoeren, E. Torres, J. Vandemeulebroucke, N. Walasek, G. Zuidhof, B. Ginneken and C. Jacobs, "Validation, comparison, and combination of algorithms for automatic detection of pulmonary nodules in computed tomography images: The LUNA16 challenge",
Medical Image Analysis,
2017;42:1-13.
M. Ghafoorian, N. Karssemeijer, T. Heskes, I. van Uden, C. Sánchez, G. Litjens, F. de Leeuw, B. van Ginneken, E. Marchiori and B. Platel, "Location Sensitive Deep Convolutional Neural Networks for Segmentation of White Matter Hyperintensities",
Scientific Reports,
2017;7(1):5110.
J. van Zelst, M. Balkenhol, T. Tan, M. Rutten, M. Imhof-Tas, P. Bult, N. Karssemeijer and R. Mann, "Sonographic Phenotypes of Molecular Subtypes of Invasive Ductal Cancer in Automated 3-D Breast Ultrasound",
Ultrasound in Medicine and Biology,
2017;43(9):1820-1828.
A. Castells-Nobau, B. Nijhof, I. Eidhof, L. Wolf, J. Scheffer-de Gooyert, I. Monedero, L. Torroja, J. van der Laak and A. Schenck, "Two Algorithms for High-throughput and Multi-parametric Quantification of Drosophila Neuromuscular Junction Morphology",
JoVE,
2017;123(e55395):1-13.
K. Chung, C. Jacobs, E. Scholten, J. Goo, H. Prosch, N. Sverzellati, F. Ciompi, O. Mets, P. Gerke, M. Prokop, B. van Ginneken and C. Schaefer-Prokop, "Lung-RADS Category 4X: Does It Improve Prediction of Malignancy in Subsolid Nodules?",
Radiology,
2017;284(1):264-271.
S. van Riel, F. Ciompi, C. Jacobs, M. Winkler Wille, E. Scholten, M. Naqibullah, S. Lam, M. Prokop, C. Schaefer-Prokop and B. van Ginneken, "Malignancy risk estimation of screen-detected nodules at baseline CT: comparison of the PanCan model, Lung-RADS and NCCN guidelines",
European Radiology,
2017;27(10):4019-4029.
S. Laban, G. Giebel, N. Klümper, A. Schröck, J. Doescher, G. Spagnoli, J. Thierauf, M. Theodoraki, R. Remark, S. Gnjatic, R. Krupar, A. Sikora, G. Litjens, N. Grabe, G. Kristiansen, F. Bootz, P. Schuler, C. Brunner, J. Brägelmann, T. Hoffmann and S. Perner, "MAGE expression in head and neck squamous cell carcinoma primary tumors, lymph node metastases and respective recurrences: implications for immunotherapy",
Oncotarget,
2017;8:14719-14735.
S. Steens, E. Bekers, W. Weijs, G. Litjens, A. Veltien, A. Maat, G. van den Broek, J. van der Laak, J. Futterer, C. van der Kaa, M. Merkx and R. Takes, "Evaluation of tongue squamous cell carcinoma resection margins using ex-vivo MR.",
International Journal of Computer Assisted Radiology and Surgery,
2017;12(5):821-828.
T. Mertzanidou, J. Hipwell, S. Reis, D. Hawkes, B. Bejnordi, M. Dalmis, S. Vreemann, B. Platel, J. van der Laak, N. Karssemeijer, M. Hermsen, P. Bult and R. Mann, "3D volume reconstruction from serial breast specimen radiographs for mapping between histology and 3D whole specimen imaging",
Medical Physics,
2017;44(3):935-948.
M. Dalmis, G. Litjens, K. Holland, A. Setio, R. Mann, N. Karssemeijer and A. Gubern-Mérida, "Using deep learning to segment breast and fibroglandular tissue in MRI volumes",
Medical Physics,
2017;44(2):533-546.
J. Charbonnier, E. van Rikxoort, A. Setio, C. Schaefer-Prokop, B. van Ginneken and F. Ciompi, "Improving Airway Segmentation in Computed Tomography using Leak Detection with Convolutional Networks",
Medical Image Analysis,
2017;36:52-60.
T. Kooi, G. Litjens, B. van Ginneken, A. Gubern-Mérida, C. Sánchez, R. Mann, A. den Heeten and N. Karssemeijer, "Large scale deep learning for computer aided detection of mammographic lesions",
Medical Image Analysis,
2017;35:303-312.
W. Mesker, G. van Pelt, A. Huijbers, J. van der Laak, E. Dequeker, J. Fléjou, R. Al Dieri, D. Kerr, J. Van Krieken and R. Tollenaar, "Improving treatment decisions in colon cancer: The tumor-stroma ratio (TSR) additional to the TNM classification",
Annals of Oncology,
2017;28:v190-v191.
B. Bejnordi, J. Lin, B. Glass, M. Mullooly, G. Gierach, M. Sherman, N. Karssemeijer, J. van der Laak and A. Beck, "Deep learning-based assessment of tumor-associated stroma for diagnosing breast cancer in histopathology images",
IEEE International Symposium on Biomedical Imaging,
2017:929-932.
F. Ciompi, O. Geessink, B. Bejnordi, G. de Souza, A. Baidoshvili, G. Litjens, B. van Ginneken, I. Nagtegaal and J. van der Laak, "The importance of stain normalization in colorectal tissue classification with convolutional networks",
IEEE International Symposium on Biomedical Imaging,
2017:160-163.
P. Bándi, R. van de Loo, M. Intezar, D. Geijs, F. Ciompi, B. van Ginneken, J. van der Laak and G. Litjens, "Comparison of Different Methods for Tissue Segmentation In Histopathological Whole-Slide Images",
IEEE International Symposium on Biomedical Imaging,
2017:591-595.
M. Silva, G. Capretti, N. Sverzellati, C. Jacobs, F. Ciompi, B. van Ginneken, C. Schaefer-Prokop, M. Prokop, A. Marchiano and U. Pastorino, "Non-solid and Part-solid Nodules: Comparison Between Visual and Computer Aided Detection",
World Congress of Thoracic Imaging,
2017.
M. Hermsen, T. de Bel, M. van de Warenburg, J. Knuiman, E. Steenbergen, G. Litjens, B. Smeets, L. Hilbrands and J. van der Laak, "Automatic segmentation of histopathological slides from renal allograft biopsies using artificial intelligence",
Dutch Federation of Nephrology (NfN) Fall Symposium,
2017.
M. Silva, G. Capretti, N. Sverzellati, C. Jacobs, F. Ciompi, B. van Ginneken, C. Schaefer-Prokop, A. Marchianò and U. Pastorino, "Subsolid and part-solid nodules in lung cancer screening: comparison between visual and computer-aided detection",
European Congress of Radiology,
2017.
S. Balocco, F. Ciompi, J. Rigla, X. Carrillo, J. Mauri and P. Radeva, "Intra-coronary Stent Localization in Intravascular Ultrasound Sequences, A Preliminary Study",
Lecture Notes in Computer Science,
2017:12-19.
R. Remark, T. Merghoub, N. Grabe, G. Litjens, D. Damotte, J. Wolchok, M. Merad and S. Gnjatic, "In-depth tissue profiling using multiplexed immunohistochemical consecutive staining on single slide",
Science Immunology,
2016;1(1):aaf6925-aaf6925.
F. Ciompi, S. Balocco, J. Rigla, X. Carrillo, J. Mauri and P. Radeva, "Computer-aided detection of intracoronary stent in intravascular ultrasound sequences",
Medical Physics,
2016;43(10):5616.
O. Debats, A. Fortuin, H. Meijer, T. Hambrock, G. Litjens, J. Barentsz and H. Huisman, "Intranodal signal suppression in pelvic MR lymphography of prostate cancer patients: a quantitative comparison of ferumoxtran-10 and ferumoxytol",
PeerJ,
2016;4:e2471.
O. Debats, M. Meijs, G. Litjens and H. Huisman, "Automated multistructure atlas-assisted detection of lymph nodes using pelvic MR lymphography in prostate cancer patients",
Medical Physics,
2016;43(6):3132.
G. Litjens, C. Sánchez, N. Timofeeva, M. Hermsen, I. Nagtegaal, I. Kovacs, C. Hulsbergen-van de Kaa, P. Bult, B. van Ginneken and J. van der Laak, "Deep learning as a tool for increased accuracy and efficiency of histopathological diagnosis",
Scientific Reports,
2016;6:26286.
B. Bejnordi, M. Balkenhol, G. Litjens, R. Holland, P. Bult, N. Karssemeijer and J. van der Laak, "Automated Detection of DCIS in Whole-Slide H&E Stained Breast Histopathology Images",
IEEE Transactions on Medical Imaging,
2016;35(9):2141-2150.
B. Nijhof, A. Castells-Nobau, L. Wolf, J. Scheffer-de Gooyert, I. Monedero, L. Torroja, L. Coromina, J. van der Laak and A. Schenck, "A New Fiji-Based Algorithm That Systematically Quantifies Nine Synaptic Parameters Provides Insights into Drosophila NMJ Morphometry",
PLOS Computational Biology,
2016;12:e1004823.
A. Setio, F. Ciompi, G. Litjens, P. Gerke, C. Jacobs, S. van Riel, M. Wille, M. Naqibullah, C. Sánchez and B. van Ginneken, "Pulmonary nodule detection in CT images: false positive reduction using multi-view convolutional networks",
IEEE Transactions on Medical Imaging,
2016;35(5):1160-1169.
J. Charbonnier, M. Brink, F. Ciompi, E. Scholten, C. Schaefer-Prokop and E. van Rikxoort, "Automatic Pulmonary Artery-Vein Separation and Classification in Computed Tomography Using Tree Partitioning and Peripheral Vessel Matching",
IEEE Transactions on Medical Imaging,
2016:882-892.
T. Kobus, J. van der Laak, M. Maas, T. Hambrock, C. Bruggink, C. Hulsbergen-van de Kaa, T. Scheenen and A. Heerschap, "Contribution of Histopathologic Tissue Composition to Quantitative MR Spectroscopy and Diffusion-weighted Imaging of the Prostate",
Radiology,
2016;278(3):801-811.
B. Bejnordi, G. Litjens, N. Timofeeva, I. Otte-Holler, A. Homeyer, N. Karssemeijer and J. van der Laak, "Stain specific standardization of whole-slide histopathological images",
IEEE Transactions on Medical Imaging,
2016;35(2):404-415.
G. Litjens, R. Elliott, N. Shih, M. Feldman, T. Kobus, C. Hulsbergen-van de Kaa, J. Barentsz, H. Huisman and A. Madabhushi, "Computer-extracted Features Can Distinguish Noncancerous Confounding Disease from Prostatic Adenocarcinoma at Multiparametric MR Imaging.",
Radiology,
2016;278(1):135-145.
N. Lessmann, I. Išgum, A. Setio, B. de Vos, F. Ciompi, P. de Jong, M. Oudkerk, W. Mali, M. Viergever and B. van Ginneken, "Deep convolutional neural networks for automatic coronary calcium scoring in a screening study with low-dose chest CT",
Medical Imaging,
2016;9785:978511-1 - 978511-6.
G. Litjens, K. Safferling and N. Grabe, "Automated robust registration of grossly misregistered whole-slide images with varying stains",
Medical Imaging,
2016;9791:979103.
T. Mertzanidou, J. Hipwell, S. Reis, B. Bejnordi, M. Hermsen, M. Dalmis, S. Vreemann, B. Platel, J. van der Laak, N. Karssemeijer, R. Mann, P. Bult and D. Hawkes, "Whole Mastectomy Volume Reconstruction from 2D Radiographs and Its Mapping to Histology",
Breast Imaging,
2016;9699:367-374.
H. Kost, A. Homeyer, P. Bult, M. Balkenhol, J. van der Laak and H. Hahn, "A generic nuclei detection method for histopathological breast images",
SPIE Proceedings,
2016.
F. Ciompi, K. Chung, A. Setio, S. van Riel, E. Scholten, P. Gerke, C. Jacobs, U. Pastorino, A. Marchiano, M. Wille, M. Prokop and B. van Ginneken, "Pulmonary nodule type classification with convolutional networks",
Medical Image Computing and Computer-Assisted Intervention,
2016.
M. Hermsen and J. van der Laak, "Highly multiplexed immunofluorescence using spectral imaging",
DPA's Pathology Visions Conference 2016, San Diego, CA, US,
2016.
F. Ciompi, B. de Hoop, S. van Riel, K. Chung, E. Scholten, M. Oudkerk, P. de Jong, M. Prokop and B. van Ginneken, "Automatic classification of pulmonary peri-fissural nodules in computed tomography using an ensemble of 2D views and a convolutional neural network out-of-the-box",
Medical Image Analysis,
2015;26(1):195-202.
G. Litjens, J. Barentsz, N. Karssemeijer and H. Huisman, "Clinical evaluation of a computer-aided diagnosis system for determining cancer aggressiveness in prostate MRI",
European Radiology,
2015;25(11):3187-3199.
L. Sonnemans, N. Köster, M. Prokop, J. van der Laak and W. Klein, "Liver parenchyma at the site of hypodense parafissural pseudolesion contains increased collagen",
Abdominal Imaging,
2015;40:2306-2312.
E. Vos, T. Kobus, G. Litjens, T. Hambrock, C. de Hulsbergen-van Kaa, J. Barentsz, M. Maas and T. Scheenen, "Multiparametric Magnetic Resonance Imaging for Discriminating Low-Grade From High-Grade Prostate Cancer",
Investigative Radiology,
2015;50:490-497.
J. Oosterwijk-Wakka, M. de Weijert, G. Franssen, W. Leenders, J. van der Laak, O. Boerman, P. Mulders and E. Oosterwijk, "Successful Combination of Sunitinib and Girentuximab in Two Renal Cell Carcinoma Animal Models: A Rationale for Combination Treatment of Patients with Advanced RCC",
Neoplasia,
2015;17:215-224.
F. Ciompi, C. Jacobs, E. Scholten, M. Winkler Wille, P. de Jong, M. Prokop and B. van Ginneken, "Bag of frequencies: a descriptor of pulmonary nodules in Computed Tomography images",
IEEE Transactions on Medical Imaging,
2015;34(4):1-12.
G. Litjens, B. Bejnordi, N. Timofeeva, G. Swadi, I. Kovacs, C. de Hulsbergen-van Kaa and J. van der Laak, "Automated detection of prostate cancer in digitized whole-slide images of H&E-stained biopsy specimens",
Medical Imaging,
2015;9420:94200B.
A. Setio, C. Jacobs, F. Ciompi, S. van Riel, M. Wille, A. Dirksen, E. van Rikxoort and B. van Ginneken, "Computer-aided detection of lung cancer: combining pulmonary nodule detection systems with a tumor risk prediction model",
Medical Imaging,
2015;9414(94141O).
F. Ciompi, C. Jacobs, E. Scholten, S. van Riel, M. Wille, M. Prokop and B. van Ginneken, "Automatic detection of spiculation of pulmonary nodules in Computed Tomography images",
Medical Imaging,
2015;9414(941409).
S. van de Leemput, F. Dorssers and B. Ehteshami Bejnordi, "A novel spherical shell filter for reducing false positives in automatic detection of pulmonary nodules in thoracic CT scans",
Medical Imaging,
2015;9414:94142P.
B. Bejnordi, G. Litjens, M. Hermsen, N. Karssemeijer and J. van der Laak, "A multi-scale superpixel classification approach to the detection of regions of interest in whole slide histopathology images",
Medical Imaging,
2015;9420:94200H.
B. van Ginneken, A. Setio, C. Jacobs and F. Ciompi, "Off-the-shelf convolutional neural network features for pulmonary nodule detection in computed tomography scans",
IEEE International Symposium on Biomedical Imaging,
2015:286-289.
S. Reis, B. Eiben, T. Mertzanidou, J. Hipwell, M. Hermsen, J. van der Laak, S. Pinder, P. Bult and D. Hawkes, "Minimum slice spacing required to reconstruct 3D shape for serial sections of breast tissue for comparison with medical imaging",
Medical Imaging 2015: Digital Pathology,
2015.
K. Chung, E. Scholten, S. van Riel, F. Ciompi, P. de Jong, M. Wille, M. Prokop, B. van Ginneken and C. Schaefer-Prokop, "Differentiation of persistent and transient subsolid nodules: does morphology help?",
European Congress of Radiology,
2015;85(3):648-652.
S. van Riel, F. Ciompi, M. Wille, E. Scholten, A. Dirksen, K. Chung, M. Prokop, C. Schaefer-Prokop and B. van Ginneken, "Comparing LungRADS and the McWilliams nodule malignancy score: which approach works best to select screen detected pulmonary nodules for more aggressive followup?",
Annual Meeting of the Radiological Society of North America,
2015.
J. Charbonnier, M. Brink, F. Ciompi, E. Scholten, C. Schaefer-Prokop and E. Van Rikxoort, "Automatic Separation and Classification of Arteries and Veins in Non-Contrast Thoracic CT Scans",
Annual Meeting of the Radiological Society of North America,
2015.
S. van Riel, F. Ciompi, M. Wille, E. Scholten, N. Sverzellati, S. Rossi, A. Dirksen, M. Brink, R. Wittenberg, M. Naqibullah, M. Prokop, C. Schaefer-Prokop and B. van Ginneken, "Can morphological features differentiate between malignant and benign pulmonary nodules, detected in a screen setting?",
Annual Meeting of the Radiological Society of North America,
2015.
S. van Riel, F. Ciompi, M. Wille, M. Naqibullah, E. Scholten, C. Schaefer-Prokop and B. van Ginneken, "Lung-RADS versus the McWilliams nodule malignancy score for risk prediction: an evaluation using lesions from the DLCST Trial",
World Conference on Lung Cancer,
2015.
R. Arntz, S. van den Broek, L. Rutten-Jacobs, N. Maaijwee, I. van Uden, M. Ghafoorian, B. Platel, E. van Dijk and F. de Leeuw, "Small vessel disease after stroke at young age: the FUTURE-study",
European Stroke Organization,
2015.
C. Gatta and F. Ciompi, "Stacked sequential scale-space Taylor context",
IEEE Transactions on Pattern Analysis and Machine Intelligence,
2014;36(8):1694-1700.
G. Litjens, H. Huisman, R. Elliott, N. Shih, M. Feldman, S. Viswanath, J. Fütterer, J. Bomers and A. Madabhushi, "Quantitative identification of magnetic resonance imaging features of prostate cancer response following laser ablation and radical prostatectomy",
Journal of Medical Imaging,
2014;1(3):035001-035001.
G. Litjens, O. Debats, J. Barentsz, N. Karssemeijer and H. Huisman, "Computer-aided detection of prostate cancer in MRI",
IEEE Transactions on Medical Imaging,
2014;33(5):1083-1092.
G. Litjens, R. Toth, W. van de Ven, C. Hoeks, S. Kerkstra, B. van Ginneken, G. Vincent, G. Guillard, N. Birbeck, J. Zhang, R. Strand, F. Malmberg, Y. Ou, C. Davatzikos, M. Kirschner, F. Jung, J. Yuan, W. Qiu, Q. Gao, P. Edwards, B. Maan, F. van der Heijden, S. Ghose, J. Mitra, J. Dowling, D. Barratt, H. Huisman and A. Madabhushi, "Evaluation of prostate segmentation algorithms for MRI: The PROMISE12 challenge",
Medical Image Analysis,
2014;18(2):359-373.
S. Balocco, C. Gatta, F. Ciompi, A. Wahle, P. Radeva, S. Carlier, G. Unal, E. Sanidas, J. Mauri, X. Carillo, T. Kovarnik, C. Wang, H. Chen, T. Exarchos, D. Fotiadis, F. Destrempes, G. Cloutier, O. Pujol, M. Alberti, E. Mendizabal-Ruiz, M. Rivera, T. Aksoy, R. Downe and I. Kakadiaris, "Standardized evaluation methodology and reference database for evaluating IVUS image segmentation",
Computerized Medical Imaging and Graphics,
2014;38:70-90.
S. van der Wal, M. Vaneker, M. Steegers, V. B, M. Kox, J. van der Laak, J. van der Hoeven, K. Vissers and G. Scheffer, "Lidocaine increases the anti-inflammatory cytokine IL-10 following mechanical ventilation in healthy mice",
Acta Anaesthesiologica Scandinavica,
2014;59:47-55.
L. Louzao Martinez, E. Friedlander, J. van der Laak and K. Hebeda, "Abundance of IgG4+ Plasma Cells in Isolated Reactive Lymphadenopathy Is No Indication of IgG4-Related Disease",
American Journal of Clinical Pathology,
2014;142(4):459-466.
F. Ciompi, O. Pujol and P. Radeva, "ECOC-DRF: Discriminative Random Fields based on Error-Correcting Output Codes",
Pattern Recognition,
2014;47:2193-2204.
G. Litjens, H. Huisman, R. Elliott, N. Shih, M. Feldman, Fütterer, J. Bomers and A. Madabhushi, "Distinguishing benign confounding treatment changes from residual prostate cancer on MRI following laser ablation",
Medical Imaging,
2014;9036:90361D.
Q. Mahmood, A. Chodorowski, B. Ehteshami Bejnordi and M. Persson, "A fully automatic unsupervised segmentation framework for the brain tissues in MR images",
Medical Imaging,
2014.
B. Ehteshami Bejnordi, N. Timofeeva, I. Otte-Höller, N. Karssemeijer and J. van der Laak, "Quantitative analysis of stain variability in histology slides and an algorithm for standardization",
Medical Imaging,
2014.
G. Litjens, R. Elliott, N. Shih, M. Feldman, J. Barentsz, C. - van de Hulsbergen Kaa, I. Kovacs, H. Huisman and A. Madabhushi, "Distinguishing prostate cancer from benign confounders via a cascaded classifier on multi-parametric MRI",
Medical Imaging,
2014;9035:903512.
F. Ciompi, B. de Hoop, C. Jacobs, M. Prokop, P. a de Jong and B. van Ginneken, "Automatic Classification of Perifissural Pulmonary Nodules in Thoracic CT Images",
Annual Meeting of the Radiological Society of North America,
2014.
G. Litjens, N. Karssemeijer, J. Barentsz and H. Huisman, "Computer-aided Detection of Prostate Cancer in Multi-parametric Magnetic Resonance Imaging",
Annual Meeting of the Radiological Society of North America,
2014.
E. Vos, T. Kobus, G. Litjens, T. Hambrock, C. - van de Kaa, M. Maas and T. Scheenen, "Multiparametric MR imaging for the assessment of prostate cancer aggressiveness at 3 Tesla",
Annual Meeting of the International Society for Magnetic Resonance in Medicine,
2014.
E. Vos, G. Litjens, T. Kobus, T. Hambrock, C. Kaa, J. Barentsz, H. Huisman and T. Scheenen, "Assessment of Prostate Cancer Aggressiveness Using Dynamic Contrast-enhanced Magnetic Resonance Imaging at 3T",
European Urology,
2013;64:448-455.
K. Nagel, M. Schouten, T. Hambrock, G. Litjens, C. Hoeks, B. Haken, J. Barentsz and J. Fütterer, "Differentiation of Prostatitis and Prostate Cancer by Using Diffusion-weighted MR Imaging and MR-guided Biopsy at 3 T",
RADIOLOGY,
2013;267:164-172.
R. van der Post, J. van der Laak, B. Sturm, R. Clarijs, E. Schaafsma, H. van Krieken and M. Nap, "The evaluation of colon biopsies using virtual microscopy is reliable",
Histopathology,
2013;63:114-121.
B. Ehteshami Bejnordi, R. Moshavegh, K. Sujathan, P. Malm, E. Bengtsson and A. Mehnert, "Novel chromatin texture features for the classification of pap smears",
Medical Imaging,
2013.
F. Ciompi, S. Balocco, C. Caus, J. Mauri and P. Radeva, "Stent Shape Estimation through a Comprehensive Interpretation of Intravascular Ultrasound Images",
Medical Image Computing and Computer-Assisted Intervention,
2013:345-352.
F. Ciompi, R. Hua, S. Balocco, M. Alberti, O. Pujol, C. Caus, J. Mauri and P. Radeva, "Learning to Detect Stent Struts in Intravascular Ultrasound",
Pattern Recognition and Image Analysis,
2013:575-583.
G. Litjens, J. Barentsz, N. Karssemeijer and H. Huisman, "Initial prospective evaluation of the prostate imaging reporting and data standard (PI-RADS): Can it reduce unnecessary MR guided biopsies?",
Annual Meeting of the Radiological Society of North America,
2013.
M. Maas, M. Koopman, G. Litjens, A. Wright, K. Selnas, I. Gribbestad, M. Haider, K. Macura, D. Margolis, B. Kiefer, J. Fütterer and T. Scheenen, "Prostate Cancer localization with a Multiparametric MR Approach (PCaMAP): initial results of a multi-center study",
Annual Meeting of the International Society for Magnetic Resonance in Medicine,
2013.
G. Litjens, T. Hambrock, C. de Hulsbergen-van Kaa, J. Barentsz and H. Huisman, "Interpatient Variation in Normal Peripheral Zone Apparent Diffusion Coefficient: Effect on the Prediction of Prostate Cancer Aggressiveness",
Radiology,
2012;265(1):260-266.
F. Ciompi, O. Pujol, C. Gatta, M. Alberti, S. Balocco, X. Carrillo, J. Mauri-Ferre and P. Radeva, "HoliMAb: A holistic approach for Media--Adventitia border detection in intravascular ultrasound",
Medical Image Analysis,
2012.
M. Alberti, S. Balocco, C. Gatta, F. Ciompi, O. Pujol, J. Silva, X. Carrillo and P. Radeva, "Automatic bifurcation detection in coronary IVUS sequences",
IEEE Transactions on Biomedical Engineering,
2012;59(4):1022-1031.
T. Roelofsen, L. van Kempen, J. van der Laak, M. van Ham, J. Bulten and L. Massuger, "Concurrent Endometrial Intraepithelial Carcinoma (EIC) and Serous Ovarian Cancer. Can EIC Be Seen as the Precursor Lesion?",
International Journal of Gynaecological Cancer,
2012;22(3):457-464.
R. Moshavegh, B. Ehteshami Bejnordi, A. Mehnert, K. Sujathan, P. Malm and E. Bengtsson, "Automated segmentation of free-lying cell nuclei in Pap smears for malignancy-associated change analysis",
Engineering in Medicine and Biology Society (EMBC),
2012.
G. Litjens, J. Barentsz, N. Karssemeijer and H. Huisman, "Automated computer-aided detection of prostate cancer in MR images: from a whole-organ to a zone-based approach",
Medical Imaging,
2012;8315(1):83150G-83150G-6.
G. Litjens, O. Debats, W. van de Ven, N. Karssemeijer and H. Huisman, "A pattern recognition approach to zonal segmentation of the prostate on MRI",
Medical Image Computing and Computer-Assisted Intervention,
2012;7511:413-420.
G. Litjens, N. Karssemeijer and H. Huisman, "A multi-atlas approach for prostate segmentation in MRI",
MICCAI} {W}orkshop: {P}rostate {C}ancer {I}maging: The {PROMISE12} Prostate Segmentation Challenge,
2012.
G. Litjens, J. Barentsz, N. Karssemeijer and H. Huisman, "Computerized characterization of central gland lesions using texture and relaxation features from T2-weighted prostate MRI",
Annual Meeting of the Radiological Society of North America,
2012.
E. Vos, G. Litjens, T. Kobus, T. Hambrock, C. van de Hulsbergen Kaa, H. Huisman and T. Scheenen, "Dynamic contrast enhanced MR imaging for the assessment of prostate cancer aggressiveness at 3T",
Annual Meeting of the International Society for Magnetic Resonance in Medicine,
2012.
O. Debats, G. Litjens, J. Barentsz, N. Karssemeijer and H. Huisman, "Automated 3-Dimensional Segmentation of Pelvic Lymph Nodes in Magnetic Resonance Images",
Medical Physics,
2011;38(11):6178-6187.
X. Carrillo, E. Fernandez-Nofrerias, F. Ciompi, O. Rodriguez-Leor, P. Radeva, N. Salvatella, O. Pujol, J. Mauri and A. Bayes-Genis, "Changes in radial artery volume assessed using intravascular ultrasound: a comparison of two vasodilator regimens in transradial coronary interventions",
Journal of Invasive Cardiology,
2011;23(10):401-404.
J. Seabra, F. Ciompi, O. Pujol, J. Mauri, P. Radeva and J. Sanches, "Rayleigh mixture model for plaque characterization in intravascular ultrasound",
IEEE Transactions on Biomedical Engineering,
2011;58(5):1314-1324.
M. Kox, J. Pompe, E. Peters, V. M., J. van der Laak, J. van der Hoeven, G. Scheffer, C. Hoedemaekers and P. Pickkers, "a7 Nicotinic acetylcholine receptor agonist GTS-21 attenuates ventilator-induced tumour necrosis factor-a production and lung injury",
British Journal of Anaesthesia,
2011;107(4):559-566.
F. Ciompi, O. Pujol, C. Gatta, X. Carrillo, J. Mauri and P. Radeva, "A holistic approach for the detection of media-adventitia border in IVUS",
Medical Image Computing and Computer-Assisted Intervention,
2011:411-419.
S. Balocco, C. Gatta, F. Ciompi, O. Pujol, X. Carrillo, J. Mauri and P. Radeva, "Combining Growcut and temporal correlation for IVUS lumen segmentation",
Pattern Recognition and Image Analysis,
2011:556-563.
M. Alberti, C. Gatta, S. Balocco, F. Ciompi, O. Pujol, J. Silva, X. Carrillo and P. Radeva, "Automatic branching detection in IVUS sequences",
Pattern Recognition and Image Analysis,
2011:126-133.
G. Litjens, P. Vos, J. Barentsz, N. Karssemeijer and H. Huisman, "Automatic Computer Aided Detection of Abnormalities in Multi-Parametric Prostate MRI",
Medical Imaging,
2011;7963(1).
W. van de Ven, G. Litjens, J. Barentsz, T. Hambrock and H. Huisman, "Required accuracy of MR-US registration for prostate biopsies",
P}rostate {C}ancer {I}maging. {I}mage {A}nalysis and {I}mage-{G}uided {I}nterventions,
2011;6963:92-99.
G. Litjens, J. Barentsz, N. Karssemeijer and H. Huisman, "Zone-specific Automatic Computer-aided Detection of Prostate Cancer in MRI",
Annual Meeting of the Radiological Society of North America,
2011.
O. Debats, T. Hambrock, G. Litjens, H. Huisman and J. Barentsz, "Detection of Lymph Node Metastases with Ferumoxtran-10 vs Ferumoxytol",
Annual Meeting of the Radiological Society of North America,
2011.
M. Schouten, K. Nagel, T. Hambrock, C. Hoeks, G. Litjens, J. Barentsz and J. Fütterer, "Differentiation of Normal Prostate Tissue, Prostatitis, and Prostate Cancer: Correlation between Diffusion-weighted Imaging and MR-guided Biopsy",
Annual Meeting of the Radiological Society of North America,
2011.
F. Ciompi, O. Pujol, C. Gatta, O. Rodriguez-Leor, J. Mauri-Ferre and P. Radeva, "Fusing in-vitro and in-vivo intravascular ultrasound data for plaque characterization",
International Journal of Cardiac Imaging,
2010;26(7):763-779.
G. Litjens, L. Hogeweg, A. Schilham, P. de Jong, M. Viergever and B. van Ginneken, "Simulation of nodules and diffuse infiltrates in chest radiographs using CT templates",
Medical Image Computing and Computer-Assisted Intervention,
2010;6362:396-403.
H. Huisman, P. Vos, G. Litjens, T. Hambrock and J. Barentsz, "Computer aided detection of prostate cancer using t2w, DWI and DCE-MRI: methods and clinical applications",
MICCAI} {W}orkshop: {P}rostate {C}ancer {I}maging: {C}omputer {A}ided {D}iagnosis, {P}rognosis, and {I}ntervention,
2010.
P. Snoeren, G. Litjens, B. van Ginneken and N. Karssemeijer, "Training a Computer Aided Detection System with Simulated Lung Nodules in Chest Radiographs",
The Third International Workshop on Pulmonary Image Analysis,
2010:139-149.
C. Gatta, S. Balocco, F. Ciompi, R. Hemetsberger, O. Leor and P. Radeva, "Real-time gating of IVUS sequences based on motion blur analysis: method and quantitative validation",
Medical Image Computing and Computer-Assisted Intervention,
2010:59-67.
J. Seabra, J. Sanches, F. Ciompi and P. Radeva, "Ultrasonographic plaque characterization using a rayleigh mixture model",
IEEE International Symposium on Biomedical Imaging,
2010:1-4.
G. Litjens, M. Heisen, J. Buurman and B. ter Romeny, "Pharmacokinetic models in clinical practice: what model to use for DCE-MRI of the breast?",
IEEE International Symposium on Biomedical Imaging,
2010:185-188.
F. Ciompi, O. Pujol and P. Radeva, "A meta-learning approach to conditional random fields using error-correcting output codes",
International Conference on Pattern Recognition,
2010:710-713.
C. van Niekerk, J. van der Laak, M. Börger, H. Huisman, J. Witjes, J. Barentsz and C. de Hulsbergen-van Kaa, "Computerized whole slide quantification shows increased microvascular density in pT2 prostate cancer as compared to normal prostate tissue",
Prostate,
2009;69(1):62-69.
F. Ciompi, O. Pujol, O. Leor, C. Gatta, A. Vida and P. Radeva, "Enhancing in-vitro IVUS data for tissue characterization",
Pattern Recognition and Image Analysis,
2009:241-248.
F. Ciompi, O. Pujol, E. Fernandez-Nofrerias, J. Mauri and P. Radeva, "Ecoc random fields for lumen segmentation in radial artery ivus sequences",
Medical Image Computing and Computer-Assisted Intervention,
2009:869-876.
C. Gatta, J. Valencia, F. Ciompi, O. Leor and P. Radeva, "Toward robust myocardial blush grade estimation in contrast angiography",
Pattern Recognition and Image Analysis,
2009:249-256.
G. Litjens, M. Heisen, J. Buurman, A. Wood, M. Medved, G. Karczmar and B. Haar-Romeny, "T1 Quantification: Variable Flip Angle Method vs Use of Reference Phantom",
Annual Meeting of the Radiological Society of North America,
2009.
J. van der Laak, M. Pahlplatz, A. Hanselaar and P. de Wilde, "Hue-saturation-density (HSD) model for stain recognition in digital images from transmitted light microscopy",
Cytometry,
2000;39(4):275-284.