title: Assembly of high-resolution restriction maps based on multiple complete digests of a redundant set of overlapping clones.
abstract: An approach to restriction-site mapping and contig building that uses fragment-size data from multiple complete digests of a set of clones that oversample a genomic region is presented. Maps containing both fragment-length data and clone-end data are maintained for each restriction enzyme. Synchronization between the maps for the different enzymes is achieved by requiring the clone-end maps for all enzymes to be compatible. Basic concepts that underlie multiple-complete-digest mapping--including the match/merge approach to map incorporation, extension vs assimilation, ambiguity, and clone-end compatibility--are presented. An initial application of multiple-complete-digest mapping to real data on a set of cosmid clones suggests that this mapping method has exceptional power to produce accurate maps that are well suited to the needs of large-scale DNA-sequencing projects.
authors.affiliation: Department of Computer Science, Washington University, St. Louis, Missouri, 63130, USA.
authors.forename: W
authors.initials: W
authors.lastname: Gillett
authors.forename: L
authors.initials: L
authors.lastname: Hanks
authors.forename: G K
authors.initials: GK
authors.lastname: Wong
authors.forename: J
authors.initials: J
authors.lastname: Yu
authors.forename: R
authors.initials: R
authors.lastname: Lim
authors.forename: M V
authors.initials: MV
authors.lastname: Olson
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D015825:Chromosomes, Fungal; D003001:Cloning, Molecular; D003360:Cosmids; D004247:DNA / Q000737:chemistry* / Q000235:genetics; D004262:DNA Restriction Enzymes / Q000378:metabolism; D004271:DNA, Fungal / Q000737:chemistry / Q000235:genetics; D015246:Deoxyribonuclease EcoRI; D015247:Deoxyribonuclease HindIII; D008433:Mathematics; D008962:Models, Theoretical; D009838:Oligodeoxyribonucleotides / Q000737:chemistry; D015183:Restriction Mapping; D012440:Saccharomyces / Q000235:genetics
chemical_list: D004271:DNA, Fungal; D009838:Oligodeoxyribonucleotides; D004247:DNA; D004262:DNA Restriction Enzymes; D015246:Deoxyribonuclease EcoRI; D015247:Deoxyribonuclease HindIII