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Sequencing technologies have placed a wide range of genomic analyses within the capabilities of many laboratories. However, sequencing costs often set limits to the amount of sequences that can be generated and, consequently, the biological outcomes that can be achieved from an experimental design. In this Review, we discuss the issue of sequencing depth in the design of next-generation sequencing experiments. We review current guidelines and precedents on the issue of coverage, as well as their underlying considerations, for four major study designs, which include de novo genome sequencing, genome resequencing, transcriptome sequencing and genomic location analyses (for example, chromatin immunoprecipitation followed by sequencing (ChIP-seq) and chromosome conformation capture (3C)).

Original publication

DOI

10.1038/nrg3642

Type

Journal article

Journal

Nat rev genet

Publication Date

02/2014

Volume

15

Pages

121 - 132

Keywords

Animals, Chromatin Immunoprecipitation, Gene Expression Profiling, Genomics, Guidelines as Topic, High-Throughput Nucleotide Sequencing, Humans