| Title |
SoftSearch: Integration of Multiple Sequence Features to Identify Breakpoints of Structural Variations
|
|---|---|
| Published in |
PLOS ONE, December 2013
|
| DOI | 10.1371/journal.pone.0083356 |
| Pubmed ID | |
| Authors |
Steven N. Hart, Vivekananda Sarangi, Raymond Moore, Saurabh Baheti, Jaysheel D. Bhavsar, Fergus J. Couch, Jean-Pierre A. Kocher |
| Abstract |
Structural variation (SV) represents a significant, yet poorly understood contribution to an individual's genetic makeup. Advanced next-generation sequencing technologies are widely used to discover such variations, but there is no single detection tool that is considered a community standard. In an attempt to fulfil this need, we developed an algorithm, SoftSearch, for discovering structural variant breakpoints in Illumina paired-end next-generation sequencing data. SoftSearch combines multiple strategies for detecting SV including split-read, discordant read-pair, and unmated pairs. Co-localized split-reads and discordant read pairs are used to refine the breakpoints. |
X Demographics
The data shown below were collected from the profiles of 2 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Canada | 1 | 50% |
| Unknown | 1 | 50% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 1 | 50% |
| Members of the public | 1 | 50% |
Mendeley readers
The data shown below were compiled from readership statistics for 70 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| France | 3 | 4% |
| United States | 3 | 4% |
| Italy | 2 | 3% |
| Sweden | 1 | 1% |
| Germany | 1 | 1% |
| Ukraine | 1 | 1% |
| South Africa | 1 | 1% |
| Unknown | 58 | 83% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 22 | 31% |
| Researcher | 17 | 24% |
| Student > Master | 8 | 11% |
| Other | 4 | 6% |
| Student > Bachelor | 4 | 6% |
| Other | 8 | 11% |
| Unknown | 7 | 10% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 28 | 40% |
| Biochemistry, Genetics and Molecular Biology | 15 | 21% |
| Computer Science | 8 | 11% |
| Medicine and Dentistry | 3 | 4% |
| Mathematics | 1 | 1% |
| Other | 5 | 7% |
| Unknown | 10 | 14% |