CHROMATIN ACTIVATION PROFILING OF STEREOTYPED CHRONIC LYMPHOCYTIC LEUKEMIAS

We used chromatin-immunoprecipitation followed by sequencing (ChIP-Seq) with an antibody for the H3K27ac (a bona fide histone mark for regulatory element activation) in sorted CLL cells from 46 CLL, including 21 cases from stereotyped subsets #1, #2, #4, and #8, and 15 normal B cell subpopulations. To understand their functional impact, we integrated our data with 16 RNA-seq data. Files description: - H3K27ac_freq2_FDR_consensus_2022.txt count matrix from H3K27ac signals - H3K27ac_FDR_consensus_norm.Combat_2022.txt count matrix from H3K27ac signals after batch effect correction - metadata.csv metadata information - metadata_batchEffectCorrection.csv metadata information regarding the batch effect correction - RNAseq_norm.Combat_results.txt count matrix from RNAseq after batch effect correction - signature_RESAMPLING_ss8VSucll_2022.txt differentially acetylated regions between U-CLL and stereotyped subset #8 applying random sampling 100 times with a range of samples from 5 to n-1 in each category. The regions showing frequency >=20% were considered significant regions.