Cheung, JosephEstivill, Xavier, 1955-Khaja, RaziMacDonald, Jeffrey RLau, KenTsui, Lap-CheeScherer, Stephen W.2014-12-182014-12-182003Cheung J, Estivill X, Khaja R, MacDonald RJ, Lau K, Tsui L et al. Genome-wide detection of segmental duplications and potential assembly errors in the human genome sequence. Genome Biology. 2003 Mar;4(4):R25. DOI: 10.1186/gb-2003-4-4-r251465-6906http://hdl.handle.net/10230/22998Background: Previous studies have suggested that recent segmental duplications, which are often involved in chromosome rearrangements underlying genomic disease, account for some 5% of the human genome. We have developed rapid computational heuristics based on BLAST analysis to detect segmental duplications, as well as regions containing potential sequence misassignments in the human genome assemblies. Results: Our analysis of the June 2002 public human genome assembly revealed that 107.4 of 3,043.1 megabases (Mb) (3.53%) of sequence contained segmental duplications, each with size equal or more than 5 kb and 90% identity. We have also detected that 38.9 Mb (1.28%) of sequence within this assembly is likely to be involved in sequence misassignment errors. Furthermore, we have identified a significant subset (199,965 of 2,327,473 or 8.6%) of single-nucleotide polymorphisms (SNPs) in the public databases that are not true SNPs but are potential paralogous sequence variants./nConclusion: Using two distinct computational approaches, we have identified most of the sequences in the human genome that have undergone recent segmental duplications. Near-identical segmental duplications present a major challenge to the completion of the human genome sequence. Potential sequence misassignments detected in this study would require additional efforts to resolve.application/pdfeng© 2003 Cheung et al,; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL: http://dx.doi.org/10.1186/gb-2003-4-4-r25.Genoma humàMalaltiesinfo:eu-repo/semantics/articlehttp://dx.doi.org/10.1186/gb-2003-4-4-r25info:eu-repo/semantics/openAccess