An Improved Method for Shotgun DNA Sequencing

The universal primers and the shotgun DNA sequencing method.

An Algorithm for Whole Genome Shotgun Sequencing

The push to sequence the entire human genome is gearing up [1]. Recently there has been disagreement within the genome community as to the best approach for sequencing the human genome. While many scientists believe that clone mapping is the best solution, others argue that whole genome shotgun sequencing is a cheaper and faster alternative. Arguments for [2] and against [3] whole genome shotgu...

A General Coverage Theory for Shotgun DNA Sequencing

The classical theory of shotgun DNA sequencing accounts for neither the placement dependencies that are a fundamental consequence of the forward-reverse sequencing strategy, nor the edge effect that arises for small to moderate-sized genomic targets. These phenomena are relevant to a number of sequencing scenarios, including large-insert BAC and fosmid clones, filtered genomic libraries, and ma...

Gap statistics for whole genome shotgun DNA sequencing projects

MOTIVATION Investigators utilize gap estimates for DNA sequencing projects. Standard theories assume sequences are independently and identically distributed, leading to appreciable under-prediction of gaps. RESULTS Using a statistical scaling factor and data from 20 representative whole genome shotgun projects, we construct regression equations that relate coverage to a normalized gap measure...

Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing.

Rapid identification of viruses is needed to monitor the blood supply for emerging threats. Here we present a method that meets these criteria and allows for the shotgun sequencing of novel, uncultured DNA viruses directly from human blood. This method employs selection based on the physical properties of viruses combined with sequence-independent amplification and cloning. We show that both si...