Zobrazeno 1 - 10
of 20
pro vyhledávání: '"Stavros Makrodimitris"'
Autor:
Elisabeth M. Jongbloed, Maurice P. H. M. Jansen, Vanja de Weerd, Jean A. Helmijr, Corine M. Beaufort, Marcel J. T. Reinders, Ronald van Marion, Wilfred F. J. van IJcken, Gabe S. Sonke, Inge R. Konings, Agnes Jager, John W. M. Martens, Saskia M. Wilting, Stavros Makrodimitris
Publikováno v:
Scientific Reports, Vol 13, Iss 1, Pp 1-11 (2023)
Abstract Next generation sequencing of cell-free DNA (cfDNA) is a promising method for treatment monitoring and therapy selection in metastatic breast cancer (MBC). However, distinguishing tumor-specific variants from sequencing artefacts and germlin
Externí odkaz:
https://doaj.org/article/25950c21f0c9448e94b13a8b82eb4ebd
Autor:
Mostafa Eltager, Tamim Abdelaal, Mohammed Charrout, Ahmed Mahfouz, Marcel J T Reinders, Stavros Makrodimitris
Publikováno v:
PLoS ONE, Vol 18, Iss 10, p e0292126 (2023)
Deep generative models, such as variational autoencoders (VAE), have gained increasing attention in computational biology due to their ability to capture complex data manifolds which subsequently can be used to achieve better performance in downstrea
Externí odkaz:
https://doaj.org/article/ec4dfa69d5814cc6ab46f4cf2ca68ce3
Publikováno v:
Evolutionary Bioinformatics, Vol 17 (2021)
Computationally annotating proteins with a molecular function is a difficult problem that is made even harder due to the limited amount of available labeled protein training data. Unsupervised protein embeddings partly circumvent this limitation by l
Externí odkaz:
https://doaj.org/article/6517605b2ea149948d0f7ac12058a55c
Publikováno v:
PLoS ONE, Vol 15, Iss 11, p e0242723 (2020)
Physical interaction between two proteins is strong evidence that the proteins are involved in the same biological process, making Protein-Protein Interaction (PPI) networks a valuable data resource for predicting the cellular functions of proteins.
Externí odkaz:
https://doaj.org/article/4fb0d235887d4ff5920e4833a2ea07f8
Multi-omic analyses contribute to understanding complex biological processes, but also to making reliable predictions about, for example, disease outcomes. Several linear joint dimensionality reduction methods exist, but recently neural networks are
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::4d186d0956d2d3505a046c8fbb723313
https://doi.org/10.1101/2023.04.10.535672
https://doi.org/10.1101/2023.04.10.535672
Cell-free DNA (cfDNA) are DNA fragments originating from dying cells that are detectable in bodily fluids, such as the plasma. Accelerated cell death, for example caused by disease, induces an elevated concentration of cfDNA. As a result, determining
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::4aa21cd279f477c6c8a42216421eaf45
https://doi.org/10.1101/2022.09.30.510300
https://doi.org/10.1101/2022.09.30.510300
Computationally annotating proteins with a molecular function is a difficult problem that is made even harder due to the limited amount of available labelled protein training data. A recently published supervised molecular function predicting model p
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::46ee7802e536f45161c190e7e89719b1
https://doi.org/10.1101/2021.04.19.440461
https://doi.org/10.1101/2021.04.19.440461
Autor:
Stavros Makrodimitris, Tom J. Viering, David M. J. Tax, Katja Geertruida Schmahl, Marco Loog, Arman Naseri Jahfari
Publikováno v:
Proceedings of the Fourth Workshop on Natural Language Processing and Computational Social Science
Large text corpora used for creating word embeddings (vectors which represent word meanings) often contain stereotypical gender biases. As a result, such unwanted biases will typically also be present in word embeddings derived from such corpora and
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::92c89fa05cca5c2473d9a8219e876b7d
http://resolver.tudelft.nl/uuid:dc49c8ac-387a-4865-92e8-1604dcaf1bd8
http://resolver.tudelft.nl/uuid:dc49c8ac-387a-4865-92e8-1604dcaf1bd8
Publikováno v:
Genes, Vol 11, Iss 1264, p 1264 (2020)
Genes
Genes
The current rate at which new DNA and protein sequences are being generated is too fast to experimentally discover the functions of those sequences, emphasizing the need for accurate Automatic Function Prediction (AFP) methods. AFP has been an active
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6a0939e12ad73acae6cfd8bda17bc888
https://www.mdpi.com/2073-4425/11/11/1264
https://www.mdpi.com/2073-4425/11/11/1264
Autor:
Frank J. T. Staal, Erik B. van den Akker, Marcel J. T. Reinders, Marja E. Jakobs, Stavros Makrodimitris, Frank Baas, Henne Holstege, Quinten Waisfisz, P. Eline Slagboom, Martijn H. Brugman, Ted Bradley, Daphne de Jong, Tatjana Nikolic, Marc Hulsman
Publikováno v:
Leukemia
Leukemia, 35, 2125-2129. SPRINGERNATURE
van den Akker, E B, Makrodimitris, S, Hulsman, M, Brugman, M H, Nikolic, T, Bradley, T, Waisfisz, Q, Baas, F, Jakobs, M E, de Jong, D, Slagboom, P E, Staal, F J T, Reinders, M J T & Holstege, H 2021, ' Dynamic clonal hematopoiesis and functional T-cell immunity in a supercentenarian ', Leukemia, vol. 35, no. 7, pp. 2125-2129 . https://doi.org/10.1038/s41375-020-01086-0
Leukemia, 35(7), 2125-2129. Nature Publishing Group
Leukemia, 35 (2021)(7)
Leukemia, 35, 2125-2129. SPRINGERNATURE
van den Akker, E B, Makrodimitris, S, Hulsman, M, Brugman, M H, Nikolic, T, Bradley, T, Waisfisz, Q, Baas, F, Jakobs, M E, de Jong, D, Slagboom, P E, Staal, F J T, Reinders, M J T & Holstege, H 2021, ' Dynamic clonal hematopoiesis and functional T-cell immunity in a supercentenarian ', Leukemia, vol. 35, no. 7, pp. 2125-2129 . https://doi.org/10.1038/s41375-020-01086-0
Leukemia, 35(7), 2125-2129. Nature Publishing Group
Leukemia, 35 (2021)(7)
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::353fc505e74566f77a7d574d1921b161
https://pubmed.ncbi.nlm.nih.gov/33184493
https://pubmed.ncbi.nlm.nih.gov/33184493