title: Methods for assembling reads and producing contigs.
abstract: Determining the genome sequence of an organism is often the first step towards its molecular characterization. Once a difficult and expensive task, nowadays it is an almost routine practice in many molecular biology labs. In this chapter we discuss in depth the various methods to assemble the short sequences (called reads) obtained from a massive sequencing system, using different software and strategies, and how to perform some fundamental quality controls on the data obtained.
authors.affiliation: Department of Biology, University of Florence, via Madonna del Piano 6, Sesto Fiorentino, Firenze, 50019, Italy, v.orlandini@ibp.cnr.it.
authors.forename: Valerio
authors.initials: V
authors.lastname: Orlandini
authors.forename: Marco
authors.initials: M
authors.lastname: Fondi
authors.forename: Renato
authors.initials: R
authors.lastname: Fani
mesh_terms: D000465:Algorithms; D001419:Bacteria / Q000235:genetics; D001483:Base Sequence; D020451:Contig Mapping / Q000379:methods*; D001330:Electronic Data Processing; D016680:Genome, Bacterial; D059014:High-Throughput Nucleotide Sequencing; D008969:Molecular Sequence Data; D011786:Quality Control; D017422:Sequence Analysis, DNA / Q000295:instrumentation* / Q000379:methods; D012984:Software