Joint single-cell DNA accessibility and protein epitope profiling reveals environmental regulation of epigenomic heterogeneity

• Published in: Nature communications Vol. 9; no. 1; pp. 4590 - 12
• Main Authors: Chen, Xingqi, Litzenburger, Ulrike M., Wei, Yuning, Schep, Alicia N., LaGory, Edward L., Choudhry, Hani, Giaccia, Amato J., Greenleaf, William J., Chang, Howard Y.
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 02.11.2018; Nature Publishing Group; Nature Portfolio
• Subjects: 13/31; 45; 45/22; 45/47; 49/31; 631/1647/2210/2211; 631/1647/514/2254; 64/60; Accessibility; Animals; Breast Neoplasms - genetics; Breast Neoplasms - pathology; Cell Hypoxia - genetics; Cell Line, Tumor; Cell surface; Chromatin; Chromatin - metabolism; Deoxyribonucleic acid; DNA; DNA - genetics; DNA fingerprinting; Environment; Environmental regulations; Epigenesis, Genetic; Epigenomics; Epithelial Cell Adhesion Molecule - metabolism; Epitopes; Epitopes - metabolism; Flow cytometry; Heterogeneity; Humanities and Social Sciences; Hypoxia; Lymphocytes - metabolism; Mice; multidisciplinary; Nucleotide Motifs - genetics; Proteins; Proteins - metabolism; Proteomics; Reproducibility of Results; Science; Science (multidisciplinary); Sequence Analysis, DNA; Single-Cell Analysis; Transcription Factors - metabolism; Transposase; Transposases - metabolism; Transposition; Tumor cells; Tumors

Here we introduce Protein-indexed Assay of Transposase Accessible Chromatin with sequencing (Pi-ATAC) that combines single-cell chromatin and proteomic profiling. In conjunction with DNA transposition, the levels of multiple cell surface or intracellular protein epitopes are recorded by index flow c...