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Experiences with workflows for automating data-intensive bioinformatics.
Spjuth O, Bongcam-Rudloff E, Hernández GC, Forer L, Giovacchini M, Guimera RV, Kallio A, Korpelainen E, Kańduła MM, Krachunov M, Kreil DP, Kulev O, Łabaj PP, Lampa S, Pireddu L, Schönherr S, Siretskiy A, Vassilev D. Spjuth O, et al. Among authors: kandula mm. Biol Direct. 2015 Aug 19;10:43. doi: 10.1186/s13062-015-0071-8. Biol Direct. 2015. PMID: 26282399 Free PMC article.
Molecular Mechanisms of Fetal Tendon Regeneration Versus Adult Fibrous Repair.
Ribitsch I, Bileck A, Aldoshin AD, Kańduła MM, Mayer RL, Egerbacher M, Gabner S, Auer U, Gültekin S, Huber J, Kreil DP, Gerner C, Jenner F. Ribitsch I, et al. Among authors: kandula mm. Int J Mol Sci. 2021 May 25;22(11):5619. doi: 10.3390/ijms22115619. Int J Mol Sci. 2021. PMID: 34070692 Free PMC article.
The in vivo genetic program of murine primordial lung epithelial progenitors.
Ikonomou L, Herriges MJ, Lewandowski SL, Marsland R 3rd, Villacorta-Martin C, Caballero IS, Frank DB, Sanghrajka RM, Dame K, Kańduła MM, Hicks-Berthet J, Lawton ML, Christodoulou C, Fabian AJ, Kolaczyk E, Varelas X, Morrisey EE, Shannon JM, Mehta P, Kotton DN. Ikonomou L, et al. Among authors: kandula mm. Nat Commun. 2020 Jan 31;11(1):635. doi: 10.1038/s41467-020-14348-3. Nat Commun. 2020. PMID: 32005814 Free PMC article.
Leveraging Cell Painting Images to Expand the Applicability Domain and Actively Improve Deep Learning Quantitative Structure-Activity Relationship Models.
Herman D, Kańduła MM, Freitas LGA, van Dongen C, Le Van T, Mesens N, Jaensch S, Gustin E, Micholt L, Lardeau CH, Varsakelis C, Reumers J, Zoffmann S, Will Y, Peeters PJ, Ceulemans H. Herman D, et al. Among authors: kandula mm. Chem Res Toxicol. 2023 Jul 17;36(7):1028-1036. doi: 10.1021/acs.chemrestox.2c00404. Epub 2023 Jun 16. Chem Res Toxicol. 2023. PMID: 37327474 Free PMC article.
Thyroid Progenitors Are Robustly Derived from Embryonic Stem Cells through Transient, Developmental Stage-Specific Overexpression of Nkx2-1.
Dame K, Cincotta S, Lang AH, Sanghrajka RM, Zhang L, Choi J, Kwok L, Wilson T, Kańduła MM, Monti S, Hollenberg AN, Mehta P, Kotton DN, Ikonomou L. Dame K, et al. Among authors: kandula mm. Stem Cell Reports. 2017 Feb 14;8(2):216-225. doi: 10.1016/j.stemcr.2016.12.024. Epub 2017 Feb 2. Stem Cell Reports. 2017. PMID: 28162994 Free PMC article.
Fetal articular cartilage regeneration versus adult fibrocartilaginous repair: secretome proteomics unravels molecular mechanisms in an ovine model.
Ribitsch I, Mayer RL, Egerbacher M, Gabner S, Kańduła MM, Rosser J, Haltmayer E, Auer U, Gültekin S, Huber J, Bileck A, Kreil DP, Gerner C, Jenner F. Ribitsch I, et al. Among authors: kandula mm. Dis Model Mech. 2018 Jul 6;11(7):dmm033092. doi: 10.1242/dmm.033092. Dis Model Mech. 2018. PMID: 29991479 Free PMC article.