High‐throughput DNA sequencing – concepts and limitations

Abstract

Recent advances in DNA sequencing have revolutionized the field of genomics, making it possible for even single research groups to generate large amounts of sequence data very rapidly and at a substantially lower cost. These high-throughput sequencing technologies make deep transcriptome sequencing and transcript quantification, whole genome sequencing and resequencing available to many more researchers and projects. However, while the cost and time have been greatly reduced, the error profiles and limitations of the new platforms differ significantly from those of previous sequencing technologies. The selection of an appropriate sequencing platform for particular types of experiments is an important consideration, and requires a detailed understanding of the technologies available; including sources of error, error rate, as well as the speed and cost of sequencing. We review the relevant concepts and compare the issues raised by the current high-throughput DNA sequencing technologies. We analyze how future developments may overcome these limitations and what challenges remain.

A Handbook for DNA‐Encoded Chemistry

“…Today, cutting-edge, deep-sequencing platforms are capable of collecting millions to billions of DNA-sequence reads per run in just a week [22][23][24], thus allowing the simultaneous deconvolution of multiple panning experiments using libraries containing millions of compounds in a single shot. Employing DNA-encoded strategies, researchers are quickly provided with instant (structure-activity relationship) databases after each selection experiment: an invaluable set of information for medicinal chemistry optimization of the selected structures and/or the design of successive DNA-encoded affinity maturation libraries [1,2,25].…”

Estimate of Within Population Incremental Selection Through Branch Imbalance in Lineage Trees

“…Such cases are far from being rare and become more and more frequent as the depth of genetic sampling increases in many domains (45)(46)(47)(48)(49).…”

Review of massively parallel DNA sequencing technologies

“…Whilst this technique is extremely promising, there are still challenges to be overcome both technical, such as controlling the passage of bases though the nanopore to allow sequencing of consecutive bases, and those related to system performance, such as pore shelf life and parallelisation (Branton et al 2008;Kircher and Kelso 2010). Perhaps the most advanced to date is the platform under development by Oxford Nanopore Technologies, which uses a-haemolysin nanopores modified with a cyclodextrin ring covalently bound in the barrel.…”