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Gene expression pattern of single mES cells during cell cycle stages

ABSTRACT: In this study, we aimed to study the gene expression patterns at single cell level across the different cell cycle stages in mESC. We performed single cell RNA-Seq experiment on mESC that were stained with Hoechst 33342 and Flow cytometry sorted for G1, S and G2M stages of cell cycle. Single cell RNA-Seq was performed using Fluidigm C1 system and libraries were generated using Nextera XT (Illumina) kit.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Mus musculus

SUBMITTER: Kedar Natarajan

PROVIDER: E-MTAB-2805 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells.

Buettner Florian F Natarajan Kedar N KN Casale F Paolo FP Proserpio Valentina V Scialdone Antonio A Theis Fabian J FJ Teichmann Sarah A SA Marioni John C JC Stegle Oliver O

Nature biotechnology 20150119 2

Recent technical developments have enabled the transcriptomes of hundreds of cells to be assayed in an unbiased manner, opening up the possibility that new subpopulations of cells can be found. However, the effects of potential confounding factors, such as the cell cycle, on the heterogeneity of gene expression and therefore on the ability to robustly identify subpopulations remain unclear. We present and validate a computational approach that uses latent variable models to account for such hidd ...[more]

PMID: 25599176

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