Amplicon-seq of an enhancer region targeted by CRISPR to assess the mutations introduced by different sgRNA guides

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UID: 11325

Author(s): Delwel, Ruud

Description: Description from EMBL-EBI:

"Following a CRISPR enhancer scan covering the GATA2 super-enhancer region, the top sgRNAs were selected for further inspection. MUTZ3 cells were thus treated with the selected sgRNAs and the region of interested was subjected to amplicons sequencing (amplicon-seq). To that end, we used the Illumina PCR-based custom amplicon sequencing method using the TruSeq Custom Amplicon index kit (Illumina). The same experiment was conducted in K562 cells, which do not harbor an inv(3)/t(3;3), to investigate the role of MYB in this enhancer in other leukemia settings."

Detailed sample and protocol information via EMBL-EBI.

Subject of Study

Subject(s)

Access via EMBL-EBI

Accession #: E-MTAB-9945
Access Restrictions: Free to All
Access Instructions: Download dataset to access
Associated Publications: Smeenk L, Ottema S, Mulet-Lazaro R, Ebert A, Havermans M, Varea A, Fellner M, Pastoors D, van Herk S, Erpelinck-Verschueren C, Grob T, Hoogenboezem R, Kavelaars F, Matson D, Bresnick E, Bindels E, Kentsis A, Zuber J, Delwel R. Selective requirement of MYB for oncogenic hyperactivation of a translocated enhancer in leukemia. Cancer Discovery. 2021; 11(11):2868-2883.
Equipment Used: Illumina MiSeq
The MiSeq is an integrated instrument that performs clonal amplification, genomic DNA sequencing, and data analysis with base calling, alignment, variant calling, and reporting in a single run.
Dataset Format(s): TXT, IDF, SDRF
Dataset Size: 49 KB

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