Single-cell RNA-seq data of C. elegans early embryos.

We performed single-cell transcriptional profiling of Caenorhabditis elegans embryos to benchmark CONCORD, a dimensionality reduction and data integration framework for single-cell analysis. This dataset complements previously published late-stage embryogenesis transcriptomic studies by enriching for early-stage embryos through low-temperature culture conditions, enabling construction of a comprehensive, continuous map of the full embryogenesis process. Overall design: Wildtype N2 worms were grown on NGM plates and synchronized by bleaching. Eggs hatched on 10-cm plates and grown until L3/L4 stage. Then, plates were transferred to a 12°C and incubated for 48 h. Adult worms were lysed by bleaching, and embryos were dissociated into single cells. Cells were loaded onto a Chromium GEM-X chip, libraries were prepared following the 10x Genomics protocol.