Probabilistic inference for nucleosome positioning with MNase-based or sonicated short-read data.
We describe a model-based method, PING, for predicting nucleosome positions in MNase-Seq and MNase- or sonicated-ChIP-Seq data. PING compares favorably to NPS and TemplateFilter in scalability, accuracy and robustness to low read density. To demonstrate that PING predictions from widely available so...
Main Authors: | Xuekui Zhang, Gordon Robertson, Sangsoon Woo, Brad G Hoffman, Raphael Gottardo |
---|---|
Format: | Article |
Language: | English |
Published: |
Public Library of Science (PLoS)
2012-01-01
|
Series: | PLoS ONE |
Online Access: | http://europepmc.org/articles/PMC3290535?pdf=render |
Similar Items
-
MNase Digestion Protection Patterns of the Linker DNA in Chromatosomes
by: Chang-Hui Shen, et al.
Published: (2021-08-01) -
Inference Plans for Hybrid Probabilistic Inference
by: Cheng, Ellie Y.
Published: (2024) -
Circulating Nucleosomes and Nucleosome Modifications as Biomarkers in Cancer
by: Peter McAnena, et al.
Published: (2017-01-01) -
Practical probabilistic inference
by: Morris, Quaid Donald Jozef, 1972-
Published: (2006) -
On the role of transcription in positioning nucleosomes
by: Jiang, Zhongling, et al.
Published: (2022)