Mapping Regulatory Elements Using Single-cell ATAC-Seq

Verna Simon, Fariborz Rakhshan, Sandeep Potluri, Amelia Mazzone, Ying Li, Bruce Eckloff, Julie Cunningham, Alexandre Gaspar Maia

Research output: Contribution to journalArticlepeer-review

Abstract

The Medical Genome Facility Genome Analysis Core has successfully performed single-cell transcriptome experiments for more than 6 years. Using the Fluidigm C1 and 10x Genomics Chromium platforms, we have captured and labeled single cells from over 470 samples. We continue to expand the number of procedures we perform for Mayo Clinic investigators, and this year we are making available the 10x Genomics ATAC-Seq (Assay for Transposase-Accessible Chromatin using sequencing) protocol. In collaboration with the Gaspar Maia lab in the Mayo Clinic College of Medicine, we have run pilot experiments charting regulatory elements in an ovarian cancer PDX model. Here we discuss our methods and present some promising preliminary results.

Original languageEnglish (US)
Pages (from-to)S16
JournalJournal of biomolecular techniques : JBT
Volume31
StatePublished - Aug 1 2020

ASJC Scopus subject areas

  • Molecular Biology

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