Source data for analysis of super-enhancer interactomes v1

Super-enhancer interactomes from single-cells link clustering and transcription

Derek Le, Antonina Hafner, Sadhana Gaddam, Kevin Wang, Alistair Boettiger

This Zenodo repository contains data files associated with our analysis.

Software for processing the data is available in the associated github repository:  https://github.com/BoettigerLab/SEclustering-2024

Additional information can be found in the associated manuscript, currently in preparation -- once it is posted on BioRxiv, it will be linked here. 

This deposition currently includes1) SuperEnhancerLoci.xlsx - a master data table linking the genomic sequence barcode data from the corrected tables (described below) to the corresponding super-enhancer and their genomic coordinates in mm10.2) Corrected_Data_Tables_by_FOV.zip -- contains drift corrected and chromatically corrected x,y,z coordinates and cellular barcode data to track cell type and coordinate barcode data to identify genomic sequences. 3) Processed_Seq_Data.zip -- re-processed sequencing based data used in this study.4) FOF-CT_Spot_tables.zip -- draft versions of the 4DN FOF-CT formatted data-standard spot tables.  See data format description here: https://fish-omics-format.readthedocs.io/en/latest/ 5) Probe_Sequences.zip -- fasta files, bed files, and codebook tables for the RNA and DNA probe sequences used in this study.