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Page 1
Real-time open-source FLIM analysis.
Tan KKD, Tsuchida MA, Chacko JV, Gahm NA, Eliceiri KW. Tan KKD, et al. Front Bioinform. 2023 Nov 30;3:1286983. doi: 10.3389/fbinf.2023.1286983. eCollection 2023. Front Bioinform. 2023. PMID: 38098814 Free PMC article.
Harnessing non-destructive 3D pathology.
Liu JTC, Glaser AK, Bera K, True LD, Reder NP, Eliceiri KW, Madabhushi A. Liu JTC, et al. Nat Biomed Eng. 2021 Mar;5(3):203-218. doi: 10.1038/s41551-020-00681-x. Epub 2021 Feb 15. Nat Biomed Eng. 2021. PMID: 33589781 Free PMC article. Review.
Community-developed checklists for publishing images and image analyses.
Schmied C, Nelson MS, Avilov S, Bakker GJ, Bertocchi C, Bischof J, Boehm U, Brocher J, Carvalho MT, Chiritescu C, Christopher J, Cimini BA, Conde-Sousa E, Ebner M, Ecker R, Eliceiri K, Fernandez-Rodriguez J, Gaudreault N, Gelman L, Grunwald D, Gu T, Halidi N, Hammer M, Hartley M, Held M, Jug F, Kapoor V, Koksoy AA, Lacoste J, Le Dévédec S, Le Guyader S, Liu P, Martins GG, Mathur A, Miura K, Montero Llopis P, Nitschke R, North A, Parslow AC, Payne-Dwyer A, Plantard L, Ali R, Schroth-Diez B, Schütz L, Scott RT, Seitz A, Selchow O, Sharma VP, Spitaler M, Srinivasan S, Strambio-De-Castillia C, Taatjes D, Tischer C, Jambor HK. Schmied C, et al. Nat Methods. 2024 Feb;21(2):170-181. doi: 10.1038/s41592-023-01987-9. Epub 2023 Sep 14. Nat Methods. 2024. PMID: 37710020 Review.
Understanding metric-related pitfalls in image analysis validation.
Reinke A, Tizabi MD, Baumgartner M, Eisenmann M, Heckmann-Nötzel D, Kavur AE, Rädsch T, Sudre CH, Acion L, Antonelli M, Arbel T, Bakas S, Benis A, Buettner F, Cardoso MJ, Cheplygina V, Chen J, Christodoulou E, Cimini BA, Farahani K, Ferrer L, Galdran A, van Ginneken B, Glocker B, Godau P, Hashimoto DA, Hoffman MM, Huisman M, Isensee F, Jannin P, Kahn CE, Kainmueller D, Kainz B, Karargyris A, Kleesiek J, Kofler F, Kooi T, Kopp-Schneider A, Kozubek M, Kreshuk A, Kurc T, Landman BA, Litjens G, Madani A, Maier-Hein K, Martel AL, Meijering E, Menze B, Moons KGM, Müller H, Nichyporuk B, Nickel F, Petersen J, Rafelski SM, Rajpoot N, Reyes M, Riegler MA, Rieke N, Saez-Rodriguez J, Sánchez CI, Shetty S, Summers RM, Taha AA, Tiulpin A, Tsaftaris SA, Van Calster B, Varoquaux G, Yaniv ZR, Jäger PF, Maier-Hein L. Reinke A, et al. Nat Methods. 2024 Feb;21(2):182-194. doi: 10.1038/s41592-023-02150-0. Epub 2024 Feb 12. Nat Methods. 2024. PMID: 38347140 Free PMC article. Review.
Metrics reloaded: recommendations for image analysis validation.
Maier-Hein L, Reinke A, Godau P, Tizabi MD, Buettner F, Christodoulou E, Glocker B, Isensee F, Kleesiek J, Kozubek M, Reyes M, Riegler MA, Wiesenfarth M, Kavur AE, Sudre CH, Baumgartner M, Eisenmann M, Heckmann-Nötzel D, Rädsch T, Acion L, Antonelli M, Arbel T, Bakas S, Benis A, Blaschko MB, Cardoso MJ, Cheplygina V, Cimini BA, Collins GS, Farahani K, Ferrer L, Galdran A, van Ginneken B, Haase R, Hashimoto DA, Hoffman MM, Huisman M, Jannin P, Kahn CE, Kainmueller D, Kainz B, Karargyris A, Karthikesalingam A, Kofler F, Kopp-Schneider A, Kreshuk A, Kurc T, Landman BA, Litjens G, Madani A, Maier-Hein K, Martel AL, Mattson P, Meijering E, Menze B, Moons KGM, Müller H, Nichyporuk B, Nickel F, Petersen J, Rajpoot N, Rieke N, Saez-Rodriguez J, Sánchez CI, Shetty S, van Smeden M, Summers RM, Taha AA, Tiulpin A, Tsaftaris SA, Van Calster B, Varoquaux G, Jäger PF. Maier-Hein L, et al. Nat Methods. 2024 Feb;21(2):195-212. doi: 10.1038/s41592-023-02151-z. Epub 2024 Feb 12. Nat Methods. 2024. PMID: 38347141 Free PMC article. Review.
Smart microscopes of the future.
Carpenter AE, Cimini BA, Eliceiri KW. Carpenter AE, et al. Nat Methods. 2023 Jul;20(7):962-964. doi: 10.1038/s41592-023-01912-0. Nat Methods. 2023. PMID: 37434001 Free PMC article.
napari-imagej: ImageJ ecosystem access from napari.
Selzer GJ, Rueden CT, Hiner MC, Evans EL 3rd, Harrington KIS, Eliceiri KW. Selzer GJ, et al. Nat Methods. 2023 Oct;20(10):1443-1444. doi: 10.1038/s41592-023-01990-0. Nat Methods. 2023. PMID: 37596471 Free PMC article. No abstract available.
A postdoctoral training program in bioimage analysis.
Cimini BA, Tromans-Coia C, Stirling DR, Sivagurunathan S, Senft RA, Ryder PV, Miglietta E, Llanos P, Jamali N, Diaz-Rohrer B, Dasgupta S, Cruz M, Weisbart E, Carpenter AE. Cimini BA, et al. Mol Biol Cell. 2024 Sep 1;35(9):pe2. doi: 10.1091/mbc.E24-05-0214. Mol Biol Cell. 2024. PMID: 39105698 Free PMC article. Review.
The multimodality cell segmentation challenge: toward universal solutions.
Ma J, Xie R, Ayyadhury S, Ge C, Gupta A, Gupta R, Gu S, Zhang Y, Lee G, Kim J, Lou W, Li H, Upschulte E, Dickscheid T, de Almeida JG, Wang Y, Han L, Yang X, Labagnara M, Gligorovski V, Scheder M, Rahi SJ, Kempster C, Pollitt A, Espinosa L, Mignot T, Middeke JM, Eckardt JN, Li W, Li Z, Cai X, Bai B, Greenwald NF, Van Valen D, Weisbart E, Cimini BA, Cheung T, Brück O, Bader GD, Wang B. Ma J, et al. Nat Methods. 2024 Jun;21(6):1103-1113. doi: 10.1038/s41592-024-02233-6. Epub 2024 Mar 26. Nat Methods. 2024. PMID: 38532015 Free PMC article.
59 results