Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 533046
Title FAANG Reference Data Datasets for the Pig Ipec-J2 and Chicken SL-29 Epithelial Cell Lines
Author(s) Crooijmans, Richard
Event The Plant and Animal Genome XXIIV Conference (PAG), San Diego, 2017-1-16/2017-1-16
Department(s) Animal Breeding and Genetics
WIAS
Publication type Unpublished lecture
Publication year 2017
Abstract 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.
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