Sherman MA, Barton AR, Lodato MA, et al. PaSD-qc: quality control for single cell whole-genome sequencing data using power spectral density estimation. Nucleic Acids Res. 2018;46(4):e20. doi:10.1093/nar/gkx1195
Buenrostro JD, Corces R, Lareau CA, et al. Integrated Single-Cell Analysis Maps the Continuous Regulatory Landscape of Human Hematopoietic Differentiation. Cell. 2018;173(6):1535-1548.e16. doi:10.1016/j.cell.2018.03.074
Quadrato G, Nguyen T, Macosko EZ, et al. Cell diversity and network dynamics in photosensitive human brain organoids. Nature. 2017;545(7652):48-53. doi:10.1038/nature22047
Saunders A, Macosko EZ, Wysoker A, et al. Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain. Cell. 2018;174(4):1015-1030.e16. doi:10.1016/j.cell.2018.07.028
Puram SV, Tirosh I, Parikh AS, et al. Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer. Cell. 2017;171(7):1611-1624.e24. doi:10.1016/j.cell.2017.10.044
Ding J, Condon A, Shah SP. Interpretable dimensionality reduction of single cell transcriptome data with deep generative models. Nat Commun. 2018;9(1):2002. doi:10.1038/s41467-018-04368-5
Yuan GC, Cai L, Elowitz M, et al. Challenges and emerging directions in single-cell analysis. Genome Biol. 2017;18(1):84. doi:10.1186/s13059-017-1218-y
Montoro DT, Haber AL, Biton M, et al. A revised airway epithelial hierarchy includes CFTR-expressing ionocytes. Nature. 2018;560(7718):319-324. doi:10.1038/s41586-018-0393-7
Lodato MA, Rodin RE, Bohrson CL, et al. Aging and neurodegeneration are associated with increased mutations in single human neurons. Science. 2018;359(6375):555-559. doi:10.1126/science.aao4426
Marshall JL, Doughty BR, Subramanian V, et al. HyPR-seq: Single-cell quantification of chosen RNAs via hybridization and sequencing of DNA probes. Proc Natl Acad Sci U S A. 2020;117(52):33404-33413. doi:10.1073/pnas.2010738117