Embryo Devel

Biase

• Biase, F. H., Cao, X. & Zhong, S. Cell fate inclination within 2-cell and 4-cell mouse embryos revealed by single-cell RNA sequencing. Genome Res. 24, 1787–1796 (2014)

• Manual data

Note

Cell annotations were manually copied from GEO and converted to txt format on 08/02/2017. The resulting txt file is stored here and is used to generate the scater object and the report.

Accession	Protocol	Size	Scripts	Download	Report
GSE57249	SMARTer	25737 features 56 samples	bash R	SCESet	html

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Deng

• Deng, Q., Ramsköld, D., Reinius, B. & Sandberg, R. Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells. Science 343, 193–196 (2014)

Reads

Accession	Protocol	Size	Scripts	Download	Report
GSE45719	Smart-Seq Smart-Seq2	22431 features 268 samples	bash R	SCESet	html

RPKMs

Accession	Protocol	Size	Scripts	Download	Report
GSE45719	Smart-Seq Smart-Seq2	22431 features 268 samples	bash R	SCESet	html

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Fan

• Fan, X. et al. Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos. Genome Biol. 16, 148 (2015)

Accession	Protocol	Size	Scripts	Download	Report
GSE53386	SUPeR-seq	26357 features 69 samples	bash R	SCESet	html

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Goolam

• Goolam, M. et al. Heterogeneity in Oct4 and Sox2 Targets Biases Cell Fate in 4-Cell Mouse Embryos. Cell 165, 61–74 (2016)

Accession	Protocol	Size	Scripts	Download	Report
E-MTAB-3321	Smart-Seq2	41480 features 124 samples	bash R	SCESet	html