Literature DB >> 29019985

DNA sequencing at 40: past, present and future.

Jay Shendure1,2, Shankar Balasubramanian3,4, George M Church5, Walter Gilbert6, Jane Rogers7, Jeffery A Schloss8, Robert H Waterston1.   

Abstract

This review commemorates the 40th anniversary of DNA sequencing, a period in which we have already witnessed multiple technological revolutions and a growth in scale from a few kilobases to the first human genome, and now to millions of human and a myriad of other genomes. DNA sequencing has been extensively and creatively repurposed, including as a 'counter' for a vast range of molecular phenomena. We predict that in the long view of history, the impact of DNA sequencing will be on a par with that of the microscope.

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Year:  2017        PMID： 29019985     DOI： 10.1038/nature24286

Source DB:  PubMed          Journal:  Nature        ISSN： 0028-0836            Impact factor:   49.962


  153 in total

1.  Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding.

Authors:  Kevin Judd McKernan; Heather E Peckham; Gina L Costa; Stephen F McLaughlin; Yutao Fu; Eric F Tsung; Christopher R Clouser; Cisyla Duncan; Jeffrey K Ichikawa; Clarence C Lee; Zheng Zhang; Swati S Ranade; Eileen T Dimalanta; Fiona C Hyland; Tanya D Sokolsky; Lei Zhang; Andrew Sheridan; Haoning Fu; Cynthia L Hendrickson; Bin Li; Lev Kotler; Jeremy R Stuart; Joel A Malek; Jonathan M Manning; Alena A Antipova; Damon S Perez; Michael P Moore; Kathleen C Hayashibara; Michael R Lyons; Robert E Beaudoin; Brittany E Coleman; Michael W Laptewicz; Adam E Sannicandro; Michael D Rhodes; Rajesh K Gottimukkala; Shan Yang; Vineet Bafna; Ali Bashir; Andrew MacBride; Can Alkan; Jeffrey M Kidd; Evan E Eichler; Martin G Reese; Francisco M De La Vega; Alan P Blanchard
Journal:  Genome Res       Date:  2009-06-22       Impact factor: 9.043

2.  Sequences, sequences, and sequences.

Authors:  F Sanger
Journal:  Annu Rev Biochem       Date:  1988       Impact factor: 23.643

3.  Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.

Authors: 
Journal:  Nature       Date:  2000-12-14       Impact factor: 49.962

4.  Design and synthesis of a 3'-O-allyl photocleavable fluorescent nucleotide as a reversible terminator for DNA sequencing by synthesis.

Authors:  Hameer Ruparel; Lanrong Bi; Zengmin Li; Xiaopeng Bai; Dae Hyun Kim; Nicholas J Turro; Jingyue Ju
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-13       Impact factor: 11.205

5.  Highly multiplexed subcellular RNA sequencing in situ.

Authors:  Je Hyuk Lee; Evan R Daugharthy; Jonathan Scheiman; Reza Kalhor; Joyce L Yang; Thomas C Ferrante; Richard Terry; Sauveur S F Jeanty; Chao Li; Ryoji Amamoto; Derek T Peters; Brian M Turczyk; Adam H Marblestone; Samuel A Inverso; Amy Bernard; Prashant Mali; Xavier Rios; John Aach; George M Church
Journal:  Science       Date:  2014-02-27       Impact factor: 47.728

6.  Environmental genome shotgun sequencing of the Sargasso Sea.

Authors:  J Craig Venter; Karin Remington; John F Heidelberg; Aaron L Halpern; Doug Rusch; Jonathan A Eisen; Dongying Wu; Ian Paulsen; Karen E Nelson; William Nelson; Derrick E Fouts; Samuel Levy; Anthony H Knap; Michael W Lomas; Ken Nealson; Owen White; Jeremy Peterson; Jeff Hoffman; Rachel Parsons; Holly Baden-Tillson; Cynthia Pfannkoch; Yu-Hui Rogers; Hamilton O Smith
Journal:  Science       Date:  2004-03-04       Impact factor: 47.728

7.  Multiplex amplification of large sets of human exons.

Authors:  Gregory J Porreca; Kun Zhang; Jin Billy Li; Bin Xie; Derek Austin; Sara L Vassallo; Emily M LeProust; Bill J Peck; Christopher J Emig; Fredrik Dahl; Yuan Gao; George M Church; Jay Shendure
Journal:  Nat Methods       Date:  2007-10-14       Impact factor: 28.547

8.  The diploid genome sequence of an individual human.

Authors:  Samuel Levy; Granger Sutton; Pauline C Ng; Lars Feuk; Aaron L Halpern; Brian P Walenz; Nelson Axelrod; Jiaqi Huang; Ewen F Kirkness; Gennady Denisov; Yuan Lin; Jeffrey R MacDonald; Andy Wing Chun Pang; Mary Shago; Timothy B Stockwell; Alexia Tsiamouri; Vineet Bafna; Vikas Bansal; Saul A Kravitz; Dana A Busam; Karen Y Beeson; Tina C McIntosh; Karin A Remington; Josep F Abril; John Gill; Jon Borman; Yu-Hui Rogers; Marvin E Frazier; Stephen W Scherer; Robert L Strausberg; J Craig Venter
Journal:  PLoS Biol       Date:  2007-09-04       Impact factor: 8.029

9.  Fast and accurate short read alignment with Burrows-Wheeler transform.

Authors:  Heng Li; Richard Durbin
Journal:  Bioinformatics       Date:  2009-05-18       Impact factor: 6.937

10.  Continuous observation of the stochastic motion of an individual small-molecule walker.

Authors:  Gökçe Su Pulcu; Ellina Mikhailova; Lai-Sheung Choi; Hagan Bayley
Journal:  Nat Nanotechnol       Date:  2014-12-08       Impact factor: 39.213
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  185 in total

1.  Assessment of human diploid genome assembly with 10x Linked-Reads data.

Authors:  Lu Zhang; Xin Zhou; Ziming Weng; Arend Sidow
Journal:  Gigascience       Date:  2019-11-01       Impact factor: 6.524

2.  3D mapping and accelerated super-resolution imaging of the human genome using in situ sequencing.

Authors:  Huy Q Nguyen; Shyamtanu Chattoraj; David Castillo; Son C Nguyen; Guy Nir; Antonios Lioutas; Elliot A Hershberg; Nuno M C Martins; Paul L Reginato; Mohammed Hannan; Brian J Beliveau; George M Church; Evan R Daugharthy; Marc A Marti-Renom; C-Ting Wu
Journal:  Nat Methods       Date:  2020-07-27       Impact factor: 28.547

Review 3.  Carbon-based archiving: current progress and future prospects of DNA-based data storage.

Authors:  Zhi Ping; Dongzhao Ma; Xiaoluo Huang; Shihong Chen; Longying Liu; Fei Guo; Sha Joe Zhu; Yue Shen
Journal:  Gigascience       Date:  2019-06-01       Impact factor: 6.524

Review 4.  Overview of Next-Generation Sequencing Technologies.

Authors:  Barton E Slatko; Andrew F Gardner; Frederick M Ausubel
Journal:  Curr Protoc Mol Biol       Date:  2018-04

5.  High-Throughput Functional Evaluation of KCNQ1 Decrypts Variants of Unknown Significance.

Authors:  Carlos G Vanoye; Reshma R Desai; Katarina L Fabre; Shannon L Gallagher; Franck Potet; Jean-Marc DeKeyser; Daniela Macaya; Jens Meiler; Charles R Sanders; Alfred L George
Journal:  Circ Genom Precis Med       Date:  2018-11

Review 6.  Towards a comprehensive catalogue of validated and target-linked human enhancers.

Authors:  Molly Gasperini; Jacob M Tome; Jay Shendure
Journal:  Nat Rev Genet       Date:  2020-01-27       Impact factor: 53.242

7.  Long-Term Population Studies Uncover the Genome Structure and Genetic Basis of Xenobiotic and Host Plant Adaptation in the Herbivore Tetranychus urticae.

Authors:  Nicky Wybouw; Olivia Kosterlitz; Andre H Kurlovs; Sabina Bajda; Robert Greenhalgh; Simon Snoeck; Huyen Bui; Astrid Bryon; Wannes Dermauw; Thomas Van Leeuwen; Richard M Clark
Journal:  Genetics       Date:  2019-02-11       Impact factor: 4.562

8.  MutS protein-based fiber optic particle plasmon resonance biosensor for detecting single nucleotide polymorphisms.

Authors:  Loan Thi Ngo; Wei-Kai Wang; Yen-Ta Tseng; Ting-Chou Chang; Pao-Lin Kuo; Lai-Kwan Chau; Tze-Ta Huang
Journal:  Anal Bioanal Chem       Date:  2021-03-13       Impact factor: 4.142

9.  Transcriptome Engineering with RNA-Targeting Type VI-D CRISPR Effectors.

Authors:  Silvana Konermann; Peter Lotfy; Nicholas J Brideau; Jennifer Oki; Maxim N Shokhirev; Patrick D Hsu
Journal:  Cell       Date:  2018-03-15       Impact factor: 41.582

10.  Folding and Misfolding of Human Membrane Proteins in Health and Disease: From Single Molecules to Cellular Proteostasis.

Authors:  Justin T Marinko; Hui Huang; Wesley D Penn; John A Capra; Jonathan P Schlebach; Charles R Sanders
Journal:  Chem Rev       Date:  2019-01-04       Impact factor: 60.622
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