Transcriptional profiling of the epigenetic regulator Smchd1
- Author(s)
- Liu, R; Chen, K; Jansz, N; Blewitt, ME; Ritchie, ME;
- Journal Title
- Genom Data
- Publication Type
- Journal Article
- Abstract
- Smchd1 is an epigenetic repressor with important functions in healthy cellular processes and disease. To elucidate its role in transcriptional regulation, we performed two independent genome-wide RNA-sequencing studies comparing wild-type and Smchd1 null samples in neural stem cells and lymphoma cell lines. Using an R-based analysis pipeline that accommodates observational and sample-specific weights in the linear modeling, we identify key genes dysregulated by Smchd1 deletion such as clustered protocadherins in the neural stem cells and imprinted genes in both experiments. Here we provide a detailed description of this analysis, from quality control to read mapping and differential expression analysis. These data sets are publicly available from the Gene Expression Omnibus database (accession numbers GSE64099 and GSE65747).
- Publisher
- Elsevier
- Research Division(s)
- Molecular Medicine
- PubMed ID
- 26981392
- Publisher's Version
- https://doi.org/10.1016/j.gdata.2015.12.027
- Open Access at Publisher's Site
http://www.sciencedirect.com/science/article/pii/S2213596015301306- NHMRC Grants
- NHMRC/1045936,
- ARC Grants
- ARC/DP1096092,
- Terms of Use/Rights Notice
- Refer to copyright notice on published article.
Creation Date: 2016-04-05 01:43:58
Last Modified: 2016-04-05 02:36:03