Sequencing technologies and genome sequencing.
Pareek CS, Smoczynski R, Tretyn A.
J Appl Genet. 2011 Nov;52(4):413-35. doi: 10.1007/s13353-011-0057-x. Epub 2011 Jun 23.
Whole genome sequencing.
Ng PC, Kirkness EF.
Methods Mol Biol. 2010;628:215-26. doi: 10.1007/978-1-60327-367-1_12.
Human genome sequencing using unchained base reads on self-assembling DNA nanoarrays.
Drmanac R, Sparks AB, Callow MJ, Halpern AL, Burns NL, Kermani BG, Carnevali P, Nazarenko I, Nilsen GB, Yeung G, Dahl F, Fernandez A, Staker B, Pant KP, Baccash J, Borcherding AP, Brownley A, Cedeno R, Chen L, Chernikoff D, Cheung A, Chirita R, Curson B, Ebert JC, Hacker CR, Hartlage R, Hauser B, Huang S, Jiang Y, Karpinchyk V, Koenig M, Kong C, Landers T, Le C, Liu J, McBride CE, Morenzoni M, Morey RE, Mutch K, Perazich H, Perry K, Peters BA, Peterson J, Pethiyagoda CL, Pothuraju K, Richter C, Rosenbaum AM, Roy S, Shafto J, Sharanhovich U, Shannon KW, Sheppy CG, Sun M, Thakuria JV, Tran A, Vu D, Zaranek AW, Wu X, Drmanac S, Oliphant AR, Banyai WC, Martin B, Ballinger DG, Church GM, Reid CA.
Science. 2010 Jan 1;327(5961):78-81. doi: 10.1126/science.1181498. Epub 2009 Nov 5.
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data.
McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altshuler D, Gabriel S, Daly M, DePristo MA.
Genome Res. 2010 Sep;20(9):1297-303. doi: 10.1101/gr.107524.110. Epub 2010 Jul 19.
Genome Sequencing.
Yoshinaga Y, Daum C, He G, O'Malley R.
Methods Mol Biol. 2018;1775:37-52. doi: 10.1007/978-1-4939-7804-5_4.
Comparison of next-generation sequencing systems.
Liu L, Li Y, Li S, Hu N, He Y, Pong R, Lin D, Lu L, Law M.
J Biomed Biotechnol. 2012;2012:251364. doi: 10.1155/2012/251364. Epub 2012 Jul 5.
Genome sequencing guide: An introductory toolbox to whole-genome analysis methods.
Burian AN, Zhao W, Lo TW, Thurtle-Schmidt DM.
Biochem Mol Biol Educ. 2021 Sep;49(5):815-825. doi: 10.1002/bmb.21561. Epub 2021 Aug 11.
PlasmidFinder and In Silico pMLST: Identification and Typing of Plasmid Replicons in Whole-Genome Sequencing (WGS).
Carattoli A, Hasman H.
Methods Mol Biol. 2020;2075:285-294. doi: 10.1007/978-1-4939-9877-7_20.
Analyzing Modern Biomolecules: The Revolution of Nucleic-Acid Sequencing - Review.
Dorado G, Gálvez S, Rosales TE, Vásquez VF, Hernández P.
Biomolecules. 2021 Jul 28;11(8):1111. doi: 10.3390/biom11081111.
Long-read sequencing of 111 rice genomes reveals significantly larger pan-genomes.
Zhang F, Xue H, Dong X, Li M, Zheng X, Li Z, Xu J, Wang W, Wei C.
Genome Res. 2022 May;32(5):853-863. doi: 10.1101/gr.276015.121. Epub 2022 Apr 8.
