The real cost of sequencing: scaling computation to keep pace with data generation

Paul Muir; Shantao Li; Shaoke Lou; Daifeng Wang; Daniel J Spakowicz; Leonidas Salichos; Jing Zhang; George M Weinstock; Farren Isaacs; Joel Rozowsky; Mark Gerstein

doi:10.1186/s13059-016-0917-0

The real cost of sequencing: scaling computation to keep pace with data generation

Genome Biol. 2016 Mar 23:17:53. doi: 10.1186/s13059-016-0917-0.

Authors

Paul Muir^{1

2

3}, Shantao Li⁴, Shaoke Lou^{4

5}, Daifeng Wang^{4

5}, Daniel J Spakowicz^{4

5}, Leonidas Salichos^{4

5}, Jing Zhang^{4

5}, George M Weinstock⁶, Farren Isaacs^{1

2}, Joel Rozowsky^{4

5}, Mark Gerstein^{7

8

9}

Affiliations

¹ Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, 06520, USA.
² Systems Biology Institute, Yale University, West Haven, CT, 06516, USA.
³ Integrated Graduate Program in Physical and Engineering Biology, Yale University, New Haven, CT, 06520, USA.
⁴ Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, 06520, USA.
⁵ Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, 06520, USA.
⁶ The Jackson Laboratory for Genomic Medicine, Farmington, CT, 06032, USA.
⁷ Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, 06520, USA. mark@gersteinlab.org.
⁸ Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, 06520, USA. mark@gersteinlab.org.
⁹ Department of Computer Science, Yale University, New Haven, CT, 06520, USA. mark@gersteinlab.org.

Abstract

As the cost of sequencing continues to decrease and the amount of sequence data generated grows, new paradigms for data storage and analysis are increasingly important. The relative scaling behavior of these evolving technologies will impact genomics research moving forward.

Publication types

Research Support, N.I.H., Extramural

MeSH terms

Algorithms
Biomedical Research
Computational Biology / methods
Computational Biology / trends*
Genomics
High-Throughput Nucleotide Sequencing / economics*
High-Throughput Nucleotide Sequencing / methods
Humans
Information Storage and Retrieval

Abstract

Publication types

MeSH terms

Grants and funding