Machine learning-assisted decoding of temporal transcriptional dynamics via fluorescent timer
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DOI: 10.1038/s41467-025-61279-y
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- Ye Zheng & Steven Josefowicz & Ashutosh Chaudhry & Xiao P. Peng & Katherine Forbush & Alexander Y. Rudensky, 2010. "Role of conserved non-coding DNA elements in the Foxp3 gene in regulatory T-cell fate," Nature, Nature, vol. 463(7282), pages 808-812, February.
- Masahiro Ono & Hiroko Yaguchi & Naganari Ohkura & Issay Kitabayashi & Yuko Nagamura & Takashi Nomura & Yoshiki Miyachi & Toshihiko Tsukada & Shimon Sakaguchi, 2007. "Foxp3 controls regulatory T-cell function by interacting with AML1/Runx1," Nature, Nature, vol. 446(7136), pages 685-689, April.
- Hornik, Kurt, 2005. "A CLUE for CLUster Ensembles," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 14(i12).
- Barbara Treutlein & Qian Yi Lee & J. Gray Camp & Moritz Mall & Winston Koh & Seyed Ali Mohammad Shariati & Sopheak Sim & Norma F. Neff & Jan M. Skotheim & Marius Wernig & Stephen R. Quake, 2016. "Dissecting direct reprogramming from fibroblast to neuron using single-cell RNA-seq," Nature, Nature, vol. 534(7607), pages 391-395, June.
- Eirini Arvaniti & Manfred Claassen, 2017. "Sensitive detection of rare disease-associated cell subsets via representation learning," Nature Communications, Nature, vol. 8(1), pages 1-10, April.
- Leonard P Freedman & Iain M Cockburn & Timothy S Simcoe, 2015. "The Economics of Reproducibility in Preclinical Research," PLOS Biology, Public Library of Science, vol. 13(6), pages 1-9, June.
- Chandra Sekaran D. S. & Christopher Clement J., 2024. "G-Net: Implementing an enhanced brain tumor segmentation framework using semantic segmentation design," PLOS ONE, Public Library of Science, vol. 19(8), pages 1-21, August.
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