ATAC Sequencing | NYU Langone Health

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Applied Bioinformatics Laboratories Services ATAC Sequencing

ATAC Sequencing

Among the services that the Applied Bioinformatics Laboratories offer is assay for transposase-accessible chromatin through sequencing, or ATAC-seq. ATAC-seq can provide chromatin accessibility across the genome. It can identify open chromatin sites and show the interaction between locations of open chromatin, DNA-binding proteins, nucleosomes, and compaction of chromatin at the nucleotide level.

Request an ATAC-Seq Service

To request this service from us, please provide the following:

  • a sample sheet with the corresponding conditions for the samples
  • the organism(s) of the particular study
  • the link to the generated FASTQ data (obtained from NYU Langone’s Genome Technology Center or another sequencing facility)

You receive the following from us:

  • a comprehensive report
  • quality assessment (read quality, alignment statistics, and enrichment plots)
  • individual bigWig files for visualization using a genome browser
  • principal component analysis plot for assessment of sample similarities
  • BED files of identified chromatin accessibility peaks
  • distribution of identified peaks in genomic regions of interest (promoters, introns, exons, etc.)
  • annotated peak tables and differential binding analysis (logarithm of fold change, statistics, and normalized peak intensity value of each sample)

Additional or Customized Analyses

We also provide the following analyses:

  • gene-ontology term and pathway enrichment analysis
  • binding motif discovery
  • integration with gene expression (using RNA-seq data, if available)
  • customized plots

Each of these may be subject to an additional charge.

Additional Resources

Below you can find links to the computational pipelines that we typically use for our analyses: