Processing and analyzing ChIP-seq data: from short reads to regulatory interactions.
- Leleu M Swiss Institute of Bioinformatics, Lausanne, Switzerland.
- Lefebvre G
- Rougemont J
- 2010-09-24
Published in:
- Briefings in functional genomics. - 2010
Base Sequence
Chromatin
Chromatin Immunoprecipitation
Chromosome Mapping
Genome
High-Throughput Nucleotide Sequencing
Humans
Saccharomyces cerevisiae
Sequence Analysis, DNA
Transcription, Genetic
English
Chromatin-immunoprecipitation and sequencing (ChIP-seq) is a rapidly maturing technology that draws on the power of high-throughput short-read sequencing to decipher chromatin states with unprecedented precision and breadth. Although some aspects of the experimental protocol require careful tuning, the bottleneck currently firmly lies with the downstream data analysis. We give an overview of the better-established aspects of genome mapping and data normalization and we describe the more recent progress in peak calling and their statistical analysis and provide a brief overview of popular follow-up analyses such as genomic feature categorization and motif search.
- Language
-
- English
- Open access status
- bronze
- Identifiers
-
- DOI 10.1093/bfgp/elq022
- PMID 20861161
- Persistent URL
- https://sonar.ch/global/documents/112445
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