The first step in the definition of transcriptional regulatory networks is to establish correct relationships between transcription factors (TFs) and their target genes, together with the effect of their regulatory activity (activator or repressor). Fundamental advances in this direction have been made possible by the introduction of experimental techniques such as Chromatin Immunoprecipitation, which, coupled with next-generation sequencing technologies (ChIP-Seq), permit the genome-wide identification of TF binding sites. This chapter provides a survey on how data of this kind are to be processed and integrated with expression and other types of data to infer transcriptional regulatory rules and codes.

ChIP-Seq data analysis to define transcriptional regulatory networks / G. Pavesi (ADVANCES IN BIOCHEMICAL ENGINEERING, BIOTECHNOLOGY). - In: Network Biology / [a cura di] I. Nookaew. - [s.l] : Springer, 2017. - ISBN 9783319564593. - pp. 1-14 [10.1007/10_2016_43]

ChIP-Seq data analysis to define transcriptional regulatory networks

G. Pavesi
2017

Abstract

The first step in the definition of transcriptional regulatory networks is to establish correct relationships between transcription factors (TFs) and their target genes, together with the effect of their regulatory activity (activator or repressor). Fundamental advances in this direction have been made possible by the introduction of experimental techniques such as Chromatin Immunoprecipitation, which, coupled with next-generation sequencing technologies (ChIP-Seq), permit the genome-wide identification of TF binding sites. This chapter provides a survey on how data of this kind are to be processed and integrated with expression and other types of data to infer transcriptional regulatory rules and codes.
ChIP-Seq; RNA-Seq; Transcription factors; Transcription regulation; Binding Sites; Chromatin Immunoprecipitation; Data Mining; Databases, Genetic; Gene Expression Regulation; Gene Regulatory Networks; High-Throughput Nucleotide Sequencing; Humans; Male; Sequence Analysis, DNA; Transcription Factors; Transcriptome; Biotechnology; Bioengineering; Medicine (all); Applied Microbiology and Biotechnology
Settore BIO/11 - Biologia Molecolare
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/2434/528076
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