@article{19f60c7cd4a34574af52472c3744e3b3,
title = "Cell type prioritization in single-cell data",
abstract = "We present Augur, a method to prioritize the cell types most responsive to biological perturbations in single-cell data. Augur employs a machine-learning framework to quantify the separability of perturbed and unperturbed cells within a high-dimensional space. We validate our method on single-cell RNA sequencing, chromatin accessibility and imaging transcriptomics datasets, and show that Augur outperforms existing methods based on differential gene expression. Augur identified the neural circuits restoring locomotion in mice following spinal cord neurostimulation.",
author = "Skinnider, {Michael A.} and Squair, {Jordan W.} and Claudia Kathe and Anderson, {Mark A.} and Matthieu Gautier and Matson, {Kaya J.E.} and Marco Milano and Hutson, {Thomas H.} and Quentin Barraud and Phillips, {Aaron A.} and Foster, {Leonard J.} and {La Manno}, Gioele and Levine, {Ariel J.} and Gr{\'e}goire Courtine",
note = "Funding Information: We thank D. Arneson, D. Avey, R. Mitra, A. Haber, O. Yilmaz, G. Chew, J. Polo, L. Adlung, I. Amit, D. Kim, D. Anderson, M. Basiri, R. Wirka, T. Quertermous and F. Zhang for providing data and/or cell type annotations. This work was supported by a Consolidator Grant from the European Research Council (ERC-2015-CoG HOW2WALKAGAIN 682999) (to G.C.), the Swiss National Science Foundation (to G.C.; subsidy 310030_185214 and 310030_192558), Genome Canada and Genome British Columbia (to L.J.F.; project 214PRO) and Wings for Life (to M.A.S.). This work was also supported in part by the Intramural Research Program of the NIH, NINDS (to K.J.E.M. and A.J.L.). This work was enabled in part by the support provided by WestGrid and Compute Canada (to A.A.P. and L.J.F.), and through computational resources and services provided by Advanced Research Computing at the University of British Columbia (to L.J.F.). M.A.S. is supported by the Canadian Institutes of Health Research (CIHR) (Vanier Canada Graduate Scholarship, Michael Smith Foreign Study Supplement), an Izaak Walton Killam Memorial Pre-Doctoral Fellowship, a UBC Four Year Fellowship, a Vancouver Coastal Health–CIHR–UBC MD/PhD Studentship, a Brain Canada Hubert van Tol fellowship and a BCRegMed Collaborative Research Travel Grant. J.W.S. is supported by a CIHR Banting postdoctoral fellowship and a Marie Sk{\l}odowska-Curie individual fellowship (No. 842578). M.A.A. and M.M. are supported by a SNF Ambizione fellowship (PZ00P3_185728). M.A.A. is supported by Wings for Life and the Morton Cure Paralysis Fund. Publisher Copyright: {\textcopyright} 2020, The Author(s), under exclusive licence to Springer Nature America, Inc.",
year = "2021",
month = jan,
doi = "10.1038/s41587-020-0605-1",
language = "English (US)",
volume = "39",
pages = "30--34",
journal = "Nature biotechnology",
issn = "1087-0156",
publisher = "Nature Publishing Group",
number = "1",
}