FAANG Reference Data Datasets for the Pig Ipec-J2 and Chicken SL-29 Epithelial Cell Lines

Crooijmans, R. P. M. A. (Speaker), Madsen, O. (Contributor), Groenen, M. (Contributor)

Activity: Talk or presentation › Oral presentation › Other

Description

We have developed a FAANG data set for a pig and chicken epithelial cell line respectively, that we propose to be used a reference for laboratories aiming to implement ChIP-seq procedures. For pig we have chosen the small intestinal epithelial cell line IPEC-J2 which was established from normal intestinal epithelium cells isolated from the jejunum of a neonatal, unsuckled pig. For chicken we have chosen the SL-29 epithelial cell line, derived from a 11 day old chicken embryo. The chicken SL-29 and pig Ipec-J2 cell lines are available from the ATCC (www.lgcstandards-atcc.org ) and DSMZ (www.dsmz.de) repositories respectively. For both cell lines we have obtained the following data: (1) ChIP-seq for 4 histone marks (H3K27ac, H3K4me3, H3K27m33, H3K4me1) (2) ChIP-seq for the highly conserved insulator-binding protein CCCTC-binding factor (CTCF) (3) DNA methylation (50x whole genome bisulphite sequences) (4) Whole genome sequences (30x) (5) Stranded RNA-seq. We also have developed a set of different PCR primers that can be used for quality control of the above mentioned ChIP experiments. This allows evaluation of the ChIP experiments prior to sequencing the DNA.
Period16 Jan 2017
Event titleThe Plant and Animal Genome XXIIV Conference (PAG)
Event typeConference
LocationSan Diego, United States
Degree of RecognitionInternational