Human placenta multi-omics analysis pipelines (snRNA-seq, snATAC-seq)
01.early_pregnancy_pipeline
02.late_pregnancy_pipeline
#Codes to analysis placenta multiomic data at early/late pregnancy. (Similar steps are omitted in late pregnancy)
03.In_vivo_in_vitro_comparison #Codes to compare in vitro and in vivo STB data.
04.ChIP-seq_and_cuttag_pipeline #Codes to analysis ChIP-seq and CUT&TAG datasets
Platform: Environment 1: R v3.6.3, python v3.8.5 Enrironment 2: R v4.1.3, python v3.10.5 (for GLUE integration, snapATACv2.2.0, pycistarget etc.)
[DOI: 10.5281/zenodo.10212321]
https://doi.org/10.5281/zenodo.10212321
Citation:
Wang, M. et al. Single-nucleus multi-omic profiling of human placental syncytiotrophoblasts identifies cellular trajectories during pregnancy. Nat Genet 56, 294-305 (2024) https://doi.org/10.1038/s41588-023-01647-w