title: A generic, cost-effective, and scalable cell lineage analysis platform.
abstract: Advances in single-cell genomics enable commensurate improvements in methods for uncovering lineage relations among individual cells. Current sequencing-based methods for cell lineage analysis depend on low-resolution bulk analysis or rely on extensive single-cell sequencing, which is not scalable and could be biased by functional dependencies. Here we show an integrated biochemical-computational platform for generic single-cell lineage analysis that is retrospective, cost-effective, and scalable. It consists of a biochemical-computational pipeline that inputs individual cells, produces targeted single-cell sequencing data, and uses it to generate a lineage tree of the input cells. We validated the platform by applying it to cells sampled from an ex vivo grown tree and analyzed its feasibility landscape by computer simulations. We conclude that the platform may serve as a generic tool for lineage analysis and thus pave the way toward large-scale human cell lineage discovery.
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Tamir
authors: T
authors: Biezuner
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Adam
authors: A
authors: Spiro
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Ofir
authors: O
authors: Raz
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Shiran
authors: S
authors: Amir
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Lilach
authors: L
authors: Milo
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Rivka
authors: R
authors: Adar
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Noa
authors: N
authors: Chapal-Ilani
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Veronika
authors: V
authors: Berman
authors: Department of Biological Services, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Yael
authors: Y
authors: Fried
authors: Department of Biological Services, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Elena
authors: E
authors: Ainbinder
authors: Maurice and Vivienne Wohl Institute for Drug Discovery, G-INCPM, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Galit
authors: G
authors: Cohen
authors: Maurice and Vivienne Wohl Institute for Drug Discovery, G-INCPM, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Haim M
authors: HM
authors: Barr
authors: Department of Dermatology, Yale University School of Medicine, New Haven, Connecticut 06520-8059, USA.
authors: Ruth
authors: R
authors: Halaban
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 761001, Israel.|Department of Biological Chemistry, Weizmann Institute of Science, Rehovot 761001, Israel.
authors: Ehud
authors: E
authors: Shapiro
mesh_terms: D000465:Algorithms; D045744:Cell Line, Tumor; D019070:Cell Lineage; D002478:Cells, Cultured; D006801:Humans; D008297:Male; D044085:Microfluidics / Q000379:methods; D008875:Middle Aged; D017422:Sequence Analysis, DNA / Q000191:economics / Q000379:methods* / Q000592:standards; D059010:Single-Cell Analysis / Q000191:economics / Q000379:methods* / Q000592:standards