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It's #mito mania today in @NatureBiotech @NEJM. The fruits of great collaborative work lead by @LeifLudwig @MWalkerMDPhD @bloodgenes @VamsiMootha and Aviv Regev nature.com/articles/s4158…
nejm.org/doi/full/10.10… 1/n
First, @LeifLudwig and Christoph Muus figured out how to retain mtDNA in droplet-based scATAC, which we term mtscATAC-seq. This enabled scalable solutions for performing human lineage tracing using somatic mtDNA variation 2/n
This throws the door wide-open to ask integrative analyses of cell state and clonal cell lineage in human cells without the need to engineer genetic barcodes. For example, we observed clonal bias in an in vitro system of monocyte/erythroid differentiation 3/n
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Caleb Lareau
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Thanks @aayushraman @tangming2005. Here's a few thoughts on how I see the landscape of tools (thread) 1/n
In HiChIP data analyses, there are two primary problems that we are trying to solve. A) Which anchors (i.e. genomic loci) should be used as a feature set and B) which loops (i.e. interactions between pairs of loci) are important in the data. 2/n
Depending on what you are hoping to use your data for, there are a variety of ways to think about anchors and loops. Two uses of HiChIP that come to mind are "which gene is this enhancer talking to" and "which loops are differential between my celltype/condition of interest" 3/n
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