Development of a High-Throughput Pipeline to Characterize Microglia Morphological States at a Single-Cell Resolution

We thank the Ciernia Lab and Pavlidis Lab members for their thoughtful feedback and suggestions during lab meetings throughout the progression of this project. We also thank Wai Hang (Tom) Cheng, whose help was instrumental with learning how to image on the Axioscan slidescanner and getting started with microglia morphology analysis; Nicholas Michelson, whose help was invaluable when troubleshooting code in ImageJ for various features of MicrogliaMorphology; and Dylan Terstege, who generously provided the materials for FASTMAP alignment to the Allen Brain Atlas before they were published. We also thank Dr. Brian MacVicar for sharing his lab's Cx3cr1-GFP mice with us, which we used for the 2xLPS in vivo experiments. We are grateful for the resources made available through the Dynamic Brain Circuits cluster and the NeuroImaging and NeuroComputation Core at the UBC Djavad Mowafaghian Centre for Brain Health (RRID:SCR_019086) that supported this work.

This work was supported by the Canadian Open Neuroscience Platform Student’s Scholar Award (10901 to J.K.); University of British Columbia Four Year Doctoral Fellowship (6569 to J.K.); Canadian Institutes for Health Research (CRC-RS 950-232402 to A.V.C.); Natural Sciences and Engineering Research Council of Canada (RGPIN-2019-04450, DGECR-2019-00069 to A.V.C.); Scottish Rite Charitable Foundation (21103 to A.V.C.) and the Brain Canada Foundation (AWD-023132 to A.V.C.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.