rohaniopatel.bsky.social @rohaniopatel.bsky.social · 05/12/2024Raw pairwise distances from sequential Oligopaints DNA FISH data have limited ability to separate chromatin traces from different cell types. Using FISHnet boundary calls, we can segregate chromatin traces based on cell type. (6/8) 110 1
rohaniopatel.bsky.social @rohaniopatel.bsky.social · 05/12/2024We ensemble sequential Oligopaints DNA FISH data where we mask individual allele data based on FISHnet domain calls and aggregate the masks. We envision that FISHnet will empower studies into how single-allele chromatin conformations results in ensemble features. (5/8) 120 2
rohaniopatel.bsky.social @rohaniopatel.bsky.social · 05/12/2024FISHnet found chromatin domains on published data in human cells (Bintu, Mateo … Boettiger, Zhuang, 2018). When we line up the frequency of single-allele boundary calls we find they line up with bulk Hi-C TADs/subTADs and CTCF/Cohesin peaks. (4/8) 120 2
rohaniopatel.bsky.social @rohaniopatel.bsky.social · 05/12/2024With simulated data, we showed that FISHnet is robust in calling domains in sequential Oligopaints DNA FISH data including when we create datasets with missing signal like real-world data. We also show linear interpolation as an effective tool to deal with missing signal. (3/8) 110 1
rohaniopatel.bsky.social @rohaniopatel.bsky.social · 05/12/2024FISHnet is a graph theory method that capture hierarchical chromatin domains using 4 key steps. (2/8) 110 1
rohaniopatel.bsky.social @rohaniopatel.bsky.social · 05/12/2024Howdy! I'm thrilled to showcase FISHnet, a computational tool designed to identify chromatin domains within sequential Oligopaints DNA FISH data. Check it out on BioRxiv: www.biorxiv.org/content/10.1... 🧵 ⬇️ ⬇️ ⬇️ (1/8). 120 2
