The Theory and Practice of Genome Sequence Assembly
The current genomic revolution was made possible by joint advances in genome sequencing technologies and computational approaches for analyzing sequence data. The close interaction between biologists and computational scientists is perhaps most apparent in the development of approaches for sequencin...
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| Veröffentlicht in: | Annual review of genomics and human genetics 2015-08, Vol.16 (1), p.153-172 |
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| container_title | Annual review of genomics and human genetics |
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| creator | Simpson, Jared T Pop, Mihai |
| description | The current genomic revolution was made possible by joint advances in genome sequencing technologies and computational approaches for analyzing sequence data. The close interaction between biologists and computational scientists is perhaps most apparent in the development of approaches for sequencing entire genomes, a feat that would not be possible without sophisticated computational tools called genome assemblers (short for genome sequence assemblers). Here, we survey the key developments in algorithms for assembling genome sequences since the development of the first DNA sequencing methods more than 35 years ago. |
| doi_str_mv | 10.1146/annurev-genom-090314-050032 |
| format | Article |
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Here, we survey the key developments in algorithms for assembling genome sequences since the development of the first DNA sequencing methods more than 35 years ago.</description><subject>algorithm</subject><subject>Algorithms</subject><subject>bioinformatics</subject><subject>Chromosomes, Artificial, Bacterial</subject><subject>Cloning, Molecular</subject><subject>Computer Graphics</subject><subject>Genome</subject><subject>genome sequencing</subject><subject>Genomics - methods</subject><subject>Humans</subject><subject>Sequence Analysis, DNA - methods</subject><subject>sequence assembly</subject><subject>shotgun sequencing</subject><issn>1527-8204</issn><issn>1545-293X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqVkF1LwzAUhoMobk7_ghS88aZ68tUmeOMYOoWBgrvwLqTNqU76MZtV2b83tdNrvQgJ4Tnve3gIOaNwQalILm1ddy1-xC9YN1UMGjgVMUgAzvbImEohY6b5837_ZmmsGIgROfL-DQCUEnBIRkxqrkEmY8KXrxiF07TbyNYuemxtvlnlGDVFNO8LMHrC9w7r8DX1Hqus3B6Tg8KWHk9294Qsb2-Ws7t48TC_n00XsZUcNjHlzOUI1rHEFQlmrNB5LjLAzElkmUu0UAodUCxyxxPGFStASZtpJtIC-YScD7Hrtgkb-I2pVj7HsrQ1Np03NOVSU56k6g8oKA0hNg3o1YDmbeN9i4VZt6vKtltDwfR-zc6v-fZrBr9m8BumT3dFXVah-539ERqA6wHoU2wZclb46f_V8QUpUpAm</recordid><startdate>20150824</startdate><enddate>20150824</enddate><creator>Simpson, Jared T</creator><creator>Pop, Mihai</creator><general>Annual Reviews</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope></search><sort><creationdate>20150824</creationdate><title>The Theory and Practice of Genome Sequence Assembly</title><author>Simpson, Jared T ; Pop, Mihai</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-a530t-132dce0ad26df6eb2f9cc4b0ebd5e2bd69488ed01efcd362382f085ab9247fe3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>algorithm</topic><topic>Algorithms</topic><topic>bioinformatics</topic><topic>Chromosomes, Artificial, Bacterial</topic><topic>Cloning, Molecular</topic><topic>Computer Graphics</topic><topic>Genome</topic><topic>genome sequencing</topic><topic>Genomics - methods</topic><topic>Humans</topic><topic>Sequence Analysis, DNA - methods</topic><topic>sequence assembly</topic><topic>shotgun sequencing</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Simpson, Jared T</creatorcontrib><creatorcontrib>Pop, Mihai</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><jtitle>Annual review of genomics and human genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Simpson, Jared T</au><au>Pop, Mihai</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The Theory and Practice of Genome Sequence Assembly</atitle><jtitle>Annual review of genomics and human genetics</jtitle><addtitle>Annu Rev Genomics Hum Genet</addtitle><date>2015-08-24</date><risdate>2015</risdate><volume>16</volume><issue>1</issue><spage>153</spage><epage>172</epage><pages>153-172</pages><issn>1527-8204</issn><eissn>1545-293X</eissn><abstract>The current genomic revolution was made possible by joint advances in genome sequencing technologies and computational approaches for analyzing sequence data. 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| identifier | ISSN: 1527-8204 |
| ispartof | Annual review of genomics and human genetics, 2015-08, Vol.16 (1), p.153-172 |
| issn | 1527-8204 1545-293X |
| language | eng |
| recordid | cdi_pubmed_primary_25939056 |
| source | Annual Reviews Complete A-Z List; MEDLINE; EZB-FREE-00999 freely available EZB journals |
| subjects | algorithm Algorithms bioinformatics Chromosomes, Artificial, Bacterial Cloning, Molecular Computer Graphics Genome genome sequencing Genomics - methods Humans Sequence Analysis, DNA - methods sequence assembly shotgun sequencing |
| title | The Theory and Practice of Genome Sequence Assembly |
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