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                    "term": "Sequencing",
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                        "title": "Population genomics of domestic and wild yeasts",
                        "abstract": "Since the completion of the genome sequence of Saccharomyces cerevisiae in 1996 (refs 1, 2), there has been a large increase in complete genome sequences, accompanied by great advances in our understanding of genome evolution. Although little is known about the natural and life histories of yeasts in the wild, there are an increasing number of studies looking at ecological and geographic distributions, population structure and sexual versus asexual reproduction. Less well understood at the whole genome level are the evolutionary processes acting within populations and species that lead to adaptation to different environments, phenotypic differences and reproductive isolation. Here we present one- to fourfold or more coverage of the genome sequences of over seventy isolates of the baker's yeast S. cerevisiae and its closest relative, Saccharomyces paradoxus. We examine variation in gene content, single nucleotide polymorphisms, nucleotide insertions and deletions, copy numbers and transposable elements. We find that phenotypic variation broadly correlates with global genome-wide phylogenetic relationships. S. paradoxus populations are well delineated along geographic boundaries, whereas the variation among worldwide S. cerevisiae isolates shows less differentiation and is comparable to a single S. paradoxus population. Rather than one or two domestication events leading to the extant baker's yeasts, the population structure of S. cerevisiae consists of a few well-defined, geographically isolated lineages and many different mosaics of these lineages, supporting the idea that human influence provided the opportunity for cross-breeding and production of new combinations of pre-existing variations. ©2009 Macmillan Publishers Limited. All rights reserved.",
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                            {
                                "name": "Liti G."
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                            {
                                "name": "Carter D.M."
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                            {
                                "name": "Moses A.M."
                            },
                            {
                                "name": "Warringer J."
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                            {
                                "name": "Parts L."
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                                "name": "James S.A."
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                                "name": "Davey R.P."
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                                "name": "Goodhead I."
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                                "name": "Sims S."
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                                "name": "Smith F."
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                            {
                                "name": "Blomberg A."
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                                "name": "Durbin R."
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                            {
                                "name": "Louis E.J."
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                        "journal": "Nature"
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                    "term": "DNA replication and recombination",
                    "uri": "http://edamontology.org/topic_3127"
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                    "term": "Sequence analysis",
                    "uri": "http://edamontology.org/topic_0080"
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                        "title": "SWeBLAST: A Sliding Window Web-based BLAST tool for recombinant analysis",
                        "abstract": "We describe a simple Perl computer tool for matching successive subsequences of a query sequence using the BLAST facilities of Genbank. SWeBLAST helps identify 'parents' of recombinant sequences, even when these are themselves unrelated, thus it is complementary to methods that compare sets of aligned homologous sequences, and avoids the significant problem of these methods in having first to decide which sequences to compare. SWeBLAST searches may also be valuable for checking the recombination history of genes proposed for use as transgenes. © 2008 Elsevier B.V. All rights reserved.",
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                            {
                                "name": "Fourment M."
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                            {
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            "description": "A perl program that looks for recombinations in non-aligned sequences using BLAST.",
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        },
        {
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                        "title": "ChEMBL: A large-scale bioactivity database for drug discovery",
                        "abstract": "ChEMBL is an Open Data database containing binding, functional and ADMET information for a large number of drug-like bioactive compounds. These data are manually abstracted from the primary published literature on a regular basis, then further curated and standardized to maximize their quality and utility across a wide range of chemical biology and drug-discovery research problems. Currently, the database contains 5.4 million bioactivity measurements for more than 1 million compounds and 5200 protein targets. Access is available through a web-based interface, data downloads and web services at: https://www.ebi.ac.uk/ chembldb. © The Author(s) 2011. Published by Oxford University Press.",
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                            {
                                "name": "Gaulton A."
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                            {
                                "name": "Bellis L.J."
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                            {
                                "name": "Chambers J."
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                                "name": "Hersey A."
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                            {
                                "name": "Light Y."
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                                "name": "Michalovich D."
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                            {
                                "name": "Overington J.P."
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                        "date": "2012-01-01T00:00:00Z",
                        "journal": "Nucleic Acids Research"
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