CARIP-Seq and ChIP-Seq: Methods to Identify Chromatin-Associated RNAs and Protein-DNA Interactions in Embryonic Stem Cells

Benjamin L. Kidder

doi:10.3791/57481

/

CARIP-Seq and ChIP-Seq: Methods to Identify Chromatin-Associated RNAs and Protein-DNA Interactions in Embryonic Stem Cells

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CARIP-Seq and ChIP-Seq: Methods to Identify Chromatin-Associated RNAs and Protein-DNA Interactions in Embryonic Stem Cells

9,651 Views

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11:13 min

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May 25, 2018

DOI:

10.3791/57481-v

DOI:

10.3791/57481-v

•

11:13 min

May 25, 2018

•

2 Views

Benjamin L. Kidder^1,2

¹Department of Oncology,Wayne State University School of Medicine, ²Karmanos Cancer Institute,Wayne State University School of Medicine

Summary

Here, we describe methods to perform ChIP-Seq and CARIP-Seq, including library preparation for next-generation sequencing, to generate global epigenomic and chromatin-associated RNA maps in ES cells.

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CARIP-Seq ChIP-Seq Chromatin-associated RNAs Protein-DNA Interactions Embryonic Stem Cells Epigenetics Transcription Factors Epigenetic Regulators Histone Modifications Chromatin Immunoprecipitation Sonication Formaldehyde Cross-linking Glycine Phosphate Buffered Saline Trypsinization MEF Medium Fetal Bovine Serum Sonication Buffer Sodium Dodecyl Sulfate

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CARIP-Seq and ChIP-Seq: Methods to Identify Chromatin-Associated RNAs and Protein-DNA Interactions in Embryonic Stem Cells

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