Lawrence-et-al-2024-Cell

This repository contains the code needed to reproduce bioinformatics results and plots in the paper from

Microglia maintain structural integrity during fetal brain morphogenesis (Cell)

Akindé René Lawrence, Alice Canzi, Cécile Bridlance, Nicolas Olivié, Claire Lansonneur, et al. Microglia maintain structural integrity during fetal brain morphogenesis. Cell, 2024, 187(4), pp.962-980.e19. 10.1016/j.cell.2024.01.012.

Available at: https://doi.org/10.1016/j.cell.2024.01.012

Code

Analysis was performed in the paper as described, in R.

• Figure 1A-D
• Figure S1
• Figure S4
• Table S1

Public datasets

scRNA-seq microglia data analyses contain public available data from:

Publication	Accession	Sequencing technology	Number of cells	Microglia state reported
Hammond et al. 2019 Immunity	GEO: GSE121654 & authors	10X 3’ Chromium v1, v2	76,149	ATM: 2,517
Li et al. 2019 Neuron	GEO: GSE123025 & authors	Smart-seq2	1,816	PAM: 228
La Manno et al. 2021 Nature	http://mousebrain.org/development (“dev_all.loom”)	10X Chromium v2	1,711	ATM-like: 510 Cycling MG: 415

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^{Metadata was requested from Hammond et al. (2019) and Li et al. (2019). A repository is now available for the pseudo-object from Hammond et al. (2019).}