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Articles by Binbin Lai
Transcription factors TCF-1 and GATA3 are key factors for the epigenetic priming of early innate lymphoid progenitors toward distinct cell fates
The differentiation of innate lymphoid cells (ILCs) from hematopoietic stem cells needs to go through several multipotent progenitor stages. However, it remains unclear whether the fates of multipotent progenitors are predefined by epigenetic states. Here, we report the identification of distinct accessible chromatin regions in all lymphoid progenitors (ALPs), EILPs, and ILC precursors (ILCPs).
Genome-wide profiling of nucleosome position and chromatin accessibility in single cells using scMNase-seq
Abstract Nucleosome organization is important for chromatin compaction and accessibility. Profiling nucleosome positioning genome-wide in single cells provides critical information to understand the cell-to-cell heterogeneity of chromatin states within a cell population. This protocol describes single-cell micrococcal nuclease sequencing (scMNase-seq), a method for detecting genome-wide nucleosome positioning and chromatin accessibility simultaneously from a small number of cells or single cells.
The transcription factor TCF-1 enforces commitment to the innate lymphoid cell lineage
Abstract Innate lymphoid cells (ILCs) play important functions in immunity and tissue homeostasis, but their development is poorly understood. Through the use of single-cell approaches, we examined the transcriptional and functional heterogeneity of ILC progenitors, and studied the precursor–product relationships that link the subsets identified.
Transcriptional and Epigenomic Regulation of Adipogenesis
Minireview Ji-Eun Lee, Hannah Schmidt, Binbin Lai, Kai Ge DOI: 10.1128/MCB.00601-18 ABSTRACT Understanding adipogenesis, the process of adipocyte development, may provide new ways to treat obesity and related metabolic diseases. Adipogenesis is controlled by coordinated actions of lineage-determining transcription factors and epigenomic regulators. Peroxisome proliferator-activated receptor gamma (PPARγ) and C/EBPα are master “adipogenic” transcription factors.
Publisher Correction: Principles of nucleosome organization revealed by single-cell micrococcal nuclease sequencing
In Fig. 1c of this Letter, an error during the production process meant that the graph in the left panel was duplicated in the right panel. The right panel of Fig. 1c has been corrected online.
Principles of nucleosome organization revealed by single-cell micrococcal nuclease sequencing
a, Average density profiles of nucleosomes (red) and subnucleosome-sized particles (blue) relative to the TSSs of active genes (left) and CTCF-binding sites (right) for bulk-cell naive CD4 T cell MNase-seq data. b, Average density profiles of nucleosomes (red) and subnucleosome-sized particles (blue) relative to the TSSs of active genes (left) and CTCF-binding sites (right) for pooled mouse ESC scMNase-seq data (top) and bulk-cell mouse ESC MNase-seq data (bottom).
Trac-looping measures genome structure and chromatin accessibility
(a) Percentage of peaks involved in Trac-looping interactions for different histone modifications. (b) Percentage of in situ HiC-derived interactions anchored at different histone modification regions that were also detected by Trac-looping. (c) Heat map showing percentage of Trac-looping interactions anchored at different pairs of histone modification peaks. (d) Genomic distribution of Trac-looping interactions.
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