biostudies-arrayexpressCarl MANNHomo sapiensbowtie2, samtools, sambambasambamba, Deeptoolshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-17105Map H3-K27-acetyl marks associated with potential enhancers, promoters, and transcriptionally active chromatin in primary human fibroblasts from fetal lung (WI38), adult lung, adult abdomen, and adult breast under conditions of proliferation, X-irradiation, and treatment with 20 pg/ml IL1-alpha for 24 hours.biostudies-arrayexpressLibrary Construction - PCR amplification of Cut & Tag fragmented DNA using Illmina multiplex oligonucleotide primers.Sample Treatment - For irradiation, 40 Gy of 120 kV X-rays, then additional incubation for 10 days. For irradation + IL1-alpha, 40 Gy of 120 kV X-rays, then additional incubation for 9 days followed by incubation with 20 pg/ml IL1-apha for 1 day. For etoposide-induced senescence, treatment with 100 microM etoposide for 2 days followed by incubation for 8 days without etoposide.Sequencing - Illumina NextSeq sequencing of multiplexed librariesGrowth Protocol - DMEM (4.5g/l glucose) + 10% FBS + stabilized glutamate + pyruvate + pen/strep in an incubator with 5% CO2 + 5% O2Sample Collection - Trypsinized cells and used 50,000 for Cut & Tag with the nuclear permeabilization protocol described by the Henikoff lab.Nucleic Acid Extraction - Phenol-chloroform extraction after the Cut & Tag reaction followed by ethanol precipitation.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - Fastq.gz files were aligned to the GRCh38 genome using bowtie2 with the following parameters: --end-to-end --very-sensitive --no-mixed --no-discordant -k 1 -X 1000 -I 25. The resulting sam files were converted to bam files with samtools view. Duplicates were removed with sambamba markdup -r and reads mapping to the mitochondrial genome were removed.Data Transformation - Bam files were sorted and indexed with sambamba and then converted to bigwig files with deeptools bamCoverage using CPM normalization and excluding the Encode hg38 blacklist regions.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsNextSeq 550RNA-seq of coding RNAHomo sapiensCarl MANNfalseH3-K27Ac Cut & Tag of primary human fibroblastsMap H3-K27-acetyl marks associated with potential enhancers, promoters, and transcriptionally active chromatin in primary human fibroblasts from fetal lung (WI38), adult lung, adult abdomen, and adult breast under conditions of proliferation, X-irradiation, and treatment with 20 pg/ml IL1-alpha for 24 hours.2026-07-09T00:00:00Z2026-07-09T17:25:56.338Z2026-05-20T18:20:19.005ZE-MTAB-17105ERP193648E-MTAB-17100E-MTAB-14625E-MTAB-16030E-MTAB-14201EFO_0002944EFO_0004170EFO_0003789EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184EFO_0003969