KAUST DepartmentBiological and Environmental Sciences and Engineering (BESE) Division
Online Publication Date2020-11-20
Print Publication Date2020-11-20
Embargo End Date2021-11-21
Permanent link to this recordhttp://hdl.handle.net/10754/666076
MetadataShow full item record
AbstractChIP-Seq is a widespread experimental method for determining the global enrichment of chromatin modifications and genome-associated factors. Whereas it is straightforward to compare the relative genomic distribution of these epigenetic features, researchers have also made efforts to compare their signal strength using external references for normalization. New work now suggests that these "spike-ins" could lead to inaccurate conclusions due to intrinsic issues of the methodology and instead calls for new criteria of experimental reporting that may permit internal standardization when certain parameters are fulfilled.
CitationFischle, W. (2020). A new approach for quantifying epigenetic landscapes. Journal of Biological Chemistry, 295(47), 15838–15839. doi:10.1074/jbc.h120.016430
- CHIPIN: ChIP-seq inter-sample normalization based on signal invariance across transcriptionally constant genes.
- Authors: Polit L, Kerdivel G, Gregoricchio S, Esposito M, Guillouf C, Boeva V
- Issue date: 2021 Aug 17
- ChIPseqSpikeInFree: a ChIP-seq normalization approach to reveal global changes in histone modifications without spike-in.
- Authors: Jin H, Kasper LH, Larson JD, Wu G, Baker SJ, Zhang J, Fan Y
- Issue date: 2020 Feb 15
- A physical basis for quantitative ChIP-sequencing.
- Authors: Dickson BM, Tiedemann RL, Chomiak AA, Cornett EM, Vaughan RM, Rothbart SB
- Issue date: 2020 Nov 20
- Native internally calibrated chromatin immunoprecipitation for quantitative studies of histone post-translational modifications.
- Authors: Grzybowski AT, Shah RN, Richter WF, Ruthenburg AJ
- Issue date: 2019 Dec
- Genome-Wide Profiling of Histone Modifications with ChIP-Seq.
- Authors: Ricci WA, Levin L, Zhang X
- Issue date: 2020