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  • 2023

    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

    Thagaard, J., Broeckx, G., Page, D. B., Jahangir, C. A., Verbandt, S., Kos, Z., Gupta, R., Khiroya, R., Abduljabbar, K., Acosta Haab, G., Acs, B., Akturk, G., Almeida, J. S., Alvarado-Cabrero, I., Amgad, M., Azmoudeh-Ardalan, F., Badve, S., Baharun, N. B., Balslev, E., Bellolio, E. R., & 122 othersBheemaraju, V., Blenman, K. R., Botinelly Mendonça Fujimoto, L., Bouchmaa, N., Burgues, O., Chardas, A., Chon U Cheang, M., Ciompi, F., Cooper, L. A., Coosemans, A., Corredor, G., Dahl, A. B., Dantas Portela, F. L., Deman, F., Demaria, S., Doré Hansen, J., Dudgeon, S. N., Ebstrup, T., Elghazawy, M., Fernandez-Martín, C., Fox, S. B., Gallagher, W. M., Giltnane, J. M., Gnjatic, S., Gonzalez-Ericsson, P. I., Grigoriadis, A., Halama, N., Hanna, M. G., Harbhajanka, A., Hart, S. N., Hartman, J., Hauberg, S., Hewitt, S., Hida, A. I., Horlings, H. M., Husain, Z., Hytopoulos, E., Irshad, S., Janssen, E. A., Kahila, M., Kataoka, T. R., Kawaguchi, K., Kharidehal, D., Khramtsov, A. I., Kiraz, U., Kirtani, P., Kodach, L. L., Korski, K., Kovács, A., Laenkholm, A-V., Lang-Schwarz, C., Larsimont, D., Lennerz, J. K., Lerousseau, M., Li, X., Ly, A., Madabhushi, A., Maley, S. K., Manur Narasimhamurthy, V., Marks, D. K., McDonald, E. S., Mehrotra, R., Michiels, S., Minhas, F. U. A. A., Mittal, S., Moore, D. A., Mushtaq, S., Nighat, H., Papathomas, T., Penault-Llorca, F., Perera, R. D., Pinard, C. J., Pinto-Cardenas, J. C., Pruneri, G., Pusztai, L., Rahman, A., Rajpoot, N. M., Rapoport, B. L., Rau, T. T., Reis-Filho, J. S., Ribeiro, J. M., Rimm, D., Roslind, A., Vincent-Salomon, A., Salto-Tellez, M., Saltz, J., Sayed, S., Scott, E., Siziopikou, K. P., Sotiriou, C., Stenzinger, A., Sughayer, M. A., Sur, D., Fineberg, S., Symmans, F., Tanaka, S., Taxter, T., Tejpar, S., Teuwen, J., Thompson, E. A., Tramm, T., Tran, W. T., van der Laak, J., van Diest, P. J., Verghese, G. E., Viale, G., Vieth, M., Wahab, N., Walter, T., Waumans, Y., Wen, H. Y., Yang, W., Yuan, Y., Zin, R. M., Adams, S., Bartlett, J., Loibl, S., Denkert, C., Savas, P., Loi, S., Salgado, R. & Specht Stovgaard, E., 2023, In: Journal of Pathology. 260, 5, p. 498-513

    Research output: Contribution to journalReviewpeer-review

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  • 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

    Page, D. B., Broeckx, G., Jahangir, C. A., Verbandt, S., Gupta, R. R., Thagaard, J., Khiroya, R., Kos, Z., Abduljabbar, K., Acosta Haab, G., Acs, B., Akturk, G., Almeida, J. S., Alvarado-Cabrero, I., Azmoudeh-Ardalan, F., Badve, S., Baharun, N. B., Bellolio, E. R., Bheemaraju, V., Blenman, K. R. M., & 114 othersFujimoto, L. B. M., Bouchmaa, N., Burgues, O., Cheang, M. C. U., Ciompi, F., Cooper, L. A. D., Coosemans, A., Corredor, G., Dantas Portela, F. L., Deman, F., Demaria, S., Dudgeon, S. N., Elghazawy, M., Ely, S., Fernandez-Martín, C., Fineberg, S., Fox, S. B., Gallagher, W. M., Giltnane, J. M., Gnjatic, S., Gonzalez-Ericsson, P. I., Grigoriadis, A., Halama, N., Hanna, M. G., Harbhajanka, A., Hardas, A., Hart, S. N., Hartman, J., Hewitt, S., Hida, A. I., Horlings, H. M., Husain, Z., Hytopoulos, E., Irshad, S., Janssen, E. A. M., Kahila, M., Kataoka, T. R., Kawaguchi, K., Kharidehal, D., Khramtsov, A. I., Kiraz, U., Kirtani, P., Kodach, L. L., Korski, K., Kovács, A., Laenkholm, A. V., Lang-Schwarz, C., Larsimont, D., Lennerz, J. K., Lerousseau, M., Li, X., Ly, A., Madabhushi, A., Maley, S. K., Narasimhamurthy, V. M., Marks, D. K., McDonald, E. S., Mehrotra, R., Michiels, S., Minhas, F. U. A. A., Mittal, S., Moore, D. A., Mushtaq, S., Nighat, H., Papathomas, T., Penault-Llorca, F., Perera, R. D., Pinard, C. J., Pinto-Cardenas, J. C., Pruneri, G., Pusztai, L., Rahman, A., Rajpoot, N. M., Rapoport, B. L., Rau, T. T., Reis-Filho, J. S., Ribeiro, J. M., Rimm, D., Vincent-Salomon, A., Salto-Tellez, M., Saltz, J., Sayed, S., Siziopikou, K. P., Sotiriou, C., Stenzinger, A., Sughayer, M. A., Sur, D., Symmans, F., Tanaka, S., Taxter, T., Tejpar, S., Teuwen, J., Thompson, E. A., Tramm, T., Tran, W. T., van der Laak, J., van Diest, P. J., Verghese, G. E., Viale, G., Vieth, M., Wahab, N., Walter, T., Waumans, Y., Wen, H. Y., Yang, W., Yuan, Y., Adams, S., Bartlett, J. M. S., Loibl, S., Denkert, C., Savas, P., Loi, S., Salgado, R. & Specht Stovgaard, E., 2023, In: Journal of Pathology. 260, 5, p. 514-532

    Research output: Contribution to journalReviewpeer-review

  • 2021

    Automated quantification of stil density with h&e-based digital image analysis has prognostic potential in triple-negative breast cancers

    Thagaard, J., Stovgaard, E. S., Vognsen, L. G., Hauberg, S., Dahl, A., Ebstrup, T., Doré, J., Vincentz, R. E., Jepsen, R. K., Roslind, A., Kümler, I., Nielsen, D. & Balslev, E., 2021, In: Cancers. 13, 12, 16 p., 3050.

    Research output: Contribution to journalJournal articleResearchpeer-review

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  • Open Access
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  • Histological disease activity in patients with microscopic colitis is not related to clinical disease activity or long-term prognosis

    Olsen, L. M., Engel, P. J. H., Goudkade, D., Villanacci, V., Thagaard, J., Walbech, J. S., Bohr, J., Kupcinskas, J., Verhaegh, B., Munch, A., Guagnozzi, D., Fernandez-Banares, F., Munck, L. K. & Fiehn, A-M. K., Jul 2021, In: Alimentary pharmacology & therapeutics. 54, 1, p. 43-52

    Research output: Contribution to journalJournal articleResearchpeer-review

  • Quantifying intraepithelial lymphocytes and subepithelial collagen band in microscopic colitis, extracting insights into the interrelationship of lymphocytic and collagenous colitis

    Engel, P. J. H., Fiehn, A. M. K., Goudkade, D., Thagaard, J., Holten-Rossing, H., Landolfi, S., Villanacci, V. & Munck, L. K., Jun 2021, In: Annals of Diagnostic Pathology. 52, 6 p., 151741.

    Research output: Contribution to journalJournal articleResearchpeer-review

  • 2020

    Can you trust predictive uncertainty under real dataset shifts in digital pathology?

    Thagaard, J., Hauberg, S., van der Vegt, B., Ebstrup, T., Hansen, J. D. & Dahl, A. B., 2020, Proceedings of 23rd International Conference on Medical Image Computing and Computer Assisted Intervention. Springer, p. 824-833 (Lecture Notes in Computer Science, Vol. 12261).

    Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review

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  • Pitfalls in assessing stromal tumor infiltrating lymphocytes (sTILs) in breast cancer

    The International Immuno-Oncology Biomarker Working Group, 1 Dec 2020, In: npj Breast Cancer. 6, 1, 17.

    Research output: Contribution to journalJournal articleResearchpeer-review

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  • Report on computational assessment of Tumor Infiltrating Lymphocytes from the International Immuno-Oncology Biomarker Working Group

    The International Immuno-Oncology Biomarker Working Group, Lien, H-C., Loibl, S., Kos, Z., Loi, S., Hanna, M. G., Michiels, S., Kok, M., Nielsen, T. O., Lazar, A. J., Bago-Horvath, Z., Kooreman, L. F. S., van der Laak, J. A. W. M., Saltz, J., Gallas, B. D., Kurkure, U., Barnes, M., Salgado, R. & Cooper, L. A. D., 2020, In: npj Breast Cancer. 6, 13 p., 16.

    Research output: Contribution to journalJournal articleResearchpeer-review

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  • 2018

    From detection of individual metastases to classification of lymph node status at the patient level: the CAMELYON17 challenge

    Bandi, P., Geessink, O., Manson, Q., van Dijk, M., Balkenhol, M., Hermsen, M., Bejnordi, B. E., Lee, B., Paeng, K., Zhong, A., Li, Q., Zanjani, F. G., Zinger, S., Fukuta, K., Komura, D., Ovtcharov, V., Cheng, S., Zeng, S., Thagaard, J., Dahl, A. B., & 16 othersLin, H., Chen, H., Jacobsson, L., Hedlund, M., Cetin, M., Halici, E., Jackson, H., Chen, R., Both, F., Franke, J., Kusters-Vandevelde, H., Vreuls, W., Bult, P., van Ginneken, B., van der Laak, J. & Litjens, G., 2018, In: I E E E Transactions on Medical Imaging. 38, 2, p. 550-560 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

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  • 2017

    Workload impact of automated image analysis and deep learning on manual screening of sentinel node biopsies in breast cancer

    Thagaard, J. & Kristensson, M., 2017, In: Virchows Archiv. 471, p. S297 E-PS-02-014.

    Research output: Contribution to journalConference abstract in journalResearchpeer-review