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Benchmarked approaches for reconstruction of in vitro cell lineages and in silico models of C. elegans and M. musculus developmental trees.
Gong W, Granados AA, Hu J, Jones MG, Raz O, Salvador-Martínez I, Zhang H, Chow KK, Kwak IY, Retkute R, Prusokiene A, Prusokas A, Khodaverdian A, Zhang R, Rao S, Wang R, Rennert P, Saipradeep VG, Sivadasan N, Rao A, Joseph T, Srinivasan R, Peng J, Han L, Shang X, Garry DJ, Yu T, Chung V, Mason M, Liu Z, Guan Y, Yosef N, Shendure J, Telford MJ, Shapiro E, Elowitz MB, Meyer P. Gong W, et al. Among authors: shapiro e. Cell Syst. 2021 Aug 18;12(8):810-826.e4. doi: 10.1016/j.cels.2021.05.008. Epub 2021 Jun 18. Cell Syst. 2021. PMID: 34146472 Free article.
Genomic variability within an organism exposes its cell lineage tree.
Frumkin D, Wasserstrom A, Kaplan S, Feige U, Shapiro E. Frumkin D, et al. Among authors: shapiro e. PLoS Comput Biol. 2005 Oct;1(5):e50. doi: 10.1371/journal.pcbi.0010050. Epub 2005 Oct 28. PLoS Comput Biol. 2005. PMID: 16261192 Free PMC article.
Reconstruction of cell lineage trees in mice.
Wasserstrom A, Adar R, Shefer G, Frumkin D, Itzkovitz S, Stern T, Shur I, Zangi L, Kaplan S, Harmelin A, Reisner Y, Benayahu D, Tzahor E, Segal E, Shapiro E. Wasserstrom A, et al. Among authors: shapiro e. PLoS One. 2008 Apr 9;3(4):e1939. doi: 10.1371/journal.pone.0001939. PLoS One. 2008. PMID: 18398465 Free PMC article.
A generic, cost-effective, and scalable cell lineage analysis platform.
Biezuner T, Spiro A, Raz O, Amir S, Milo L, Adar R, Chapal-Ilani N, Berman V, Fried Y, Ainbinder E, Cohen G, Barr HM, Halaban R, Shapiro E. Biezuner T, et al. Among authors: shapiro e. Genome Res. 2016 Nov;26(11):1588-1599. doi: 10.1101/gr.202903.115. Epub 2016 Aug 24. Genome Res. 2016. PMID: 27558250 Free PMC article.
Tracking Somatic Mutations for Lineage Reconstruction.
Neumeier Y, Raz O, Tao L, Marx Z, Shapiro E. Neumeier Y, et al. Among authors: shapiro e. Methods Mol Biol. 2025;2886:23-45. doi: 10.1007/978-1-0716-4310-5_2. Methods Mol Biol. 2025. PMID: 39745634
1,377 results