Bench protocols from Reynoso, Pauluzzi, et al., 2017
Download: RNA extraction and targeted rRNA degradation from INTACT-purified nuclei (PDF)
Download: Mapping of T-DNA insertion sites using sequence capture and Illumina-Miseq (PDF)
Protocols
Protocols from CSHL course - July 2017
Download: Identification of Open Chromatin Regions in Plant Genomes Using ATAC-Seq (PDF)
Download: ATAC-seq data analysis: read mapping, peak calling, and data visualization (PDF)
Bench protocols - December 2016
Download: TRAP bench protocol (PDF)
Download: Biotin-dT RNA prep protocol (PDF)
Download: Random primer-based non-strand specific RNA-seq library prep protocol (PDF)
Resources from Ron et al., 2014
INTACT and TRAP vectors:
Agrobacterium rhizogenes:
For CRISPR/Cas9 we recommend using the vectors published by the Puchta lab.
INTACT (Isolation of Nuclei TAgged in specific Cell Types)
Download: INTACT protocol (PDF)
TRAP (Translating Ribosome Affinity Purification)
