NELF-A controls Drosophila healthspan by regulating heat-shock protein-mediated cellular protection and heterochromatin maintenance [ChIP-seq]

Comparison of differential H3K9me2 enrichment in Day 50 adult heterozygous NELF-A*/+ mutant (BX) and control sibling (Sib) fly heads (2 biological replicates). Overall design: Read quality check was performed using FASTQC and adaptors were trimmed. Reads were mapped to Drosophila reference genome (BDGP6.22.98) using STAR (v2.5) with following parameters: (--alignEndsType EndToEnd --alignIntronMax 1). Downstream analysis was performed using Galaxy platform. Peak calling was performed using MACS2 (v2.1.1), using an effective genome size of 120000000 --no model --extsize 200 --broad --keep-dup auto --bdg. Differential peaks between NELF-A*/+ (BX) and control siblings (Sib) was performed using MACS2 bdgdiff with following parameters: -g 100 -l 200. Alignment files (bam format) were transformed into read coverage files (bigwig format) using DeepTools: bamCompare (v3.3.2), normalized by readcount, scores representing ChIP minus Input.