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Live-cell imaging in the deep learning era.
Pylvänäinen JW, Gómez-de-Mariscal E, Henriques R, Jacquemet G. Pylvänäinen JW, et al. Curr Opin Cell Biol. 2023 Dec;85:102271. doi: 10.1016/j.ceb.2023.102271. Epub 2023 Oct 27. Curr Opin Cell Biol. 2023. PMID: 37897927 Free article. Review.
Fast4DReg - fast registration of 4D microscopy datasets.
Pylvänäinen JW, Laine RF, Saraiva BMS, Ghimire S, Follain G, Henriques R, Jacquemet G. Pylvänäinen JW, et al. J Cell Sci. 2023 Feb 15;136(4):jcs260728. doi: 10.1242/jcs.260728. Epub 2023 Feb 23. J Cell Sci. 2023. PMID: 36727532 Free PMC article.
TrackMate 7: integrating state-of-the-art segmentation algorithms into tracking pipelines.
Ershov D, Phan MS, Pylvänäinen JW, Rigaud SU, Le Blanc L, Charles-Orszag A, Conway JRW, Laine RF, Roy NH, Bonazzi D, Duménil G, Jacquemet G, Tinevez JY. Ershov D, et al. Among authors: pylvanainen jw. Nat Methods. 2022 Jul;19(7):829-832. doi: 10.1038/s41592-022-01507-1. Epub 2022 Jun 2. Nat Methods. 2022. PMID: 35654950 Free article.
UBR5 Is Coamplified with MYC in Breast Tumors and Encodes an Ubiquitin Ligase That Limits MYC-Dependent Apoptosis.
Qiao X, Liu Y, Prada ML, Mohan AK, Gupta A, Jaiswal A, Sharma M, Merisaari J, Haikala HM, Talvinen K, Yetukuri L, Pylvänäinen JW, Klefström J, Kronqvist P, Meinander A, Aittokallio T, Hietakangas V, Eilers M, Westermarck J. Qiao X, et al. Among authors: pylvanainen jw. Cancer Res. 2020 Apr 1;80(7):1414-1427. doi: 10.1158/0008-5472.CAN-19-1647. Epub 2020 Feb 6. Cancer Res. 2020. PMID: 32029551 Free article.
DL4MicEverywhere: deep learning for microscopy made flexible, shareable and reproducible.
Hidalgo-Cenalmor I, Pylvänäinen JW, G Ferreira M, Russell CT, Saguy A, Arganda-Carreras I, Shechtman Y; AI4Life Horizon Europe Program Consortium; Jacquemet G, Henriques R, Gómez-de-Mariscal E. Hidalgo-Cenalmor I, et al. Among authors: pylvanainen jw. Nat Methods. 2024 May 17. doi: 10.1038/s41592-024-02295-6. Online ahead of print. Nat Methods. 2024. PMID: 38760611 No abstract available.
Recognising the importance and impact of Imaging Scientists: Global guidelines for establishing career paths within core facilities.
Wright GD, Thompson KA, Reis Y, Bischof J, Hockberger PE, Itano MS, Yen L, Adelodun ST, Bialy N, Brown CM, Chaabane L, Chew TL, Chitty AI, Cordelières FP, De Niz M, Ellenberg J, Engelbrecht L, Fabian-Morales E, Fazeli E, Fernandez-Rodriguez J, Ferrando-May E, Fletcher G, Galloway GJ, Guerrero A, Guimarães JM, Jacobs CA, Jayasinghe S, Kable E, Kitten GT, Komoto S, Ma X, Marques JA, Millis BA, Miranda K, JohnO'Toole P, Olatunji SY, Paina F, Pollak CN, Prats C, Pylvänäinen JW, Rahmoon MA, Reiche MA, Riches JD, Rossi AH, Salamero J, Thiriet C, Terjung S, Vasconcelos ADS, Keppler A. Wright GD, et al. Among authors: pylvanainen jw. J Microsc. 2024 Jun;294(3):397-410. doi: 10.1111/jmi.13307. Epub 2024 May 1. J Microsc. 2024. PMID: 38691400
Harnessing artificial intelligence to reduce phototoxicity in live imaging.
Gómez-de-Mariscal E, Del Rosario M, Pylvänäinen JW, Jacquemet G, Henriques R. Gómez-de-Mariscal E, et al. Among authors: pylvanainen jw. J Cell Sci. 2024 Feb 1;137(3):jcs261545. doi: 10.1242/jcs.261545. Epub 2024 Feb 7. J Cell Sci. 2024. PMID: 38324353 Free PMC article.