| Title |
SCNVSim: somatic copy number variation and structure variation simulator
|
|---|---|
| Published in |
BMC Bioinformatics, February 2015
|
| DOI | 10.1186/s12859-015-0502-7 |
| Pubmed ID | |
| Authors |
Maochun Qin, Biao Liu, Jeffrey M Conroy, Carl D Morrison, Qiang Hu, Yubo Cheng, Mitsuko Murakami, Adekunle O Odunsi, Candace S Johnson, Lei Wei, Song Liu, Jianmin Wang |
| Abstract |
Somatically acquired structure variations (SVs) and copy number variations (CNVs) can induce genetic changes that are directly related to tumor genesis. Somatic SV/CNV detection using next-generation sequencing (NGS) data still faces major challenges introduced by tumor sample characteristics, such as ploidy, heterogeneity, and purity. A simulated cancer genome with known SVs and CNVs can serve as a benchmark for evaluating the performance of existing somatic SV/CNV detection tools and developing new methods. SCNVSim is a tool for simulating somatic CNVs and structure variations SVs. Other than multiple types of SV and CNV events, the tool is capable of simulating important features related to tumor samples including aneuploidy, heterogeneity and purity. SCNVSim generates the genomes of a cancer cell population with detailed information of copy number status, loss of heterozygosity (LOH), and event break points, which is essential for developing and evaluating somatic CNV and SV detection methods in cancer genomics studies. |
X Demographics
The data shown below were collected from the profiles of 11 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 3 | 27% |
| China | 1 | 9% |
| Israel | 1 | 9% |
| United Kingdom | 1 | 9% |
| Norway | 1 | 9% |
| Unknown | 4 | 36% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 6 | 55% |
| Members of the public | 5 | 45% |
Mendeley readers
The data shown below were compiled from readership statistics for 87 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Germany | 1 | 1% |
| France | 1 | 1% |
| Sweden | 1 | 1% |
| China | 1 | 1% |
| Spain | 1 | 1% |
| Japan | 1 | 1% |
| United States | 1 | 1% |
| Unknown | 80 | 92% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 24 | 28% |
| Student > Ph. D. Student | 19 | 22% |
| Student > Master | 13 | 15% |
| Student > Bachelor | 8 | 9% |
| Student > Doctoral Student | 7 | 8% |
| Other | 10 | 11% |
| Unknown | 6 | 7% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 24 | 28% |
| Biochemistry, Genetics and Molecular Biology | 23 | 26% |
| Computer Science | 17 | 20% |
| Engineering | 6 | 7% |
| Neuroscience | 3 | 3% |
| Other | 6 | 7% |
| Unknown | 8 | 9% |
Attention Score in Context
This research output has an Altmetric Attention Score of 6. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 19 August 2015.
All research outputs
#5,447,869
of 22,793,427 outputs
Outputs from BMC Bioinformatics
#1,951
of 7,280 outputs
Outputs of similar age
#60,966
of 255,870 outputs
Outputs of similar age from BMC Bioinformatics
#35
of 140 outputs
Altmetric has tracked 22,793,427 research outputs across all sources so far. Compared to these this one has done well and is in the 76th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 7,280 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.4. This one has gotten more attention than average, scoring higher than 72% of its peers.
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We're also able to compare this research output to 140 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 75% of its contemporaries.