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X Demographics
Mendeley readers
Attention Score in Context
| Title |
DaVIE: Database for the Visualization and Integration of Epigenetic data
|
|---|---|
| Published in |
Frontiers in Genetics, September 2014
|
| DOI | 10.3389/fgene.2014.00325 |
| Pubmed ID | |
| Authors |
Anthony P. Fejes, Meaghan J. Jones, Michael S. Kobor |
| Abstract |
One of the challenges in the analysis of large data sets, particularly in a population-based setting, is the ability to perform comparisons across projects. This has to be done in such a way that the integrity of each individual project is maintained, while ensuring that the data are comparable across projects. These issues are beginning to be observed in human DNA methylation studies, as the Illumina 450k platform and next generation sequencing-based assays grow in popularity and decrease in price. This increase in productivity is enabling new insights into epigenetics, but also requires the development of pipelines and software capable of handling the large volumes of data. The specific problems inherent in creating a platform for the storage, comparison, integration, and visualization of DNA methylation data include data storage, algorithm efficiency and ability to interpret the results to derive biological meaning from them. Databases provide a ready-made solution to these issues, but as yet no tools exist that that leverage these advantages while providing an intuitive user interface for interpreting results in a genomic context. We have addressed this void by integrating a database to store DNA methylation data with a web interface to query and visualize the database and a set of libraries for more complex analysis. The resulting platform is called DaVIE: Database for the Visualization and Integration of Epigenetics data. DaVIE can use data culled from a variety of sources, and the web interface includes the ability to group samples by sub-type, compare multiple projects and visualize genomic features in relation to sites of interest. We have used DaVIE to identify patterns of DNA methylation in specific projects and across different projects, identify outlier samples, and cross-check differentially methylated CpG sites identified in specific projects across large numbers of samples. A demonstration server has been setup using GEO data at http://echelon.cmmt.ubc.ca/dbaccess/, with login "guest" and password "guest." Groups may download and install their own version of the server following the instructions on the project's wiki. |
X Demographics
The data shown below were collected from the profiles of 33 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 | 6 | 18% |
| Canada | 5 | 15% |
| Switzerland | 3 | 9% |
| United Kingdom | 2 | 6% |
| Australia | 2 | 6% |
| Spain | 1 | 3% |
| India | 1 | 3% |
| Belgium | 1 | 3% |
| France | 1 | 3% |
| Other | 1 | 3% |
| Unknown | 10 | 30% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 16 | 48% |
| Scientists | 15 | 45% |
| Science communicators (journalists, bloggers, editors) | 2 | 6% |
Mendeley readers
The data shown below were compiled from readership statistics for 50 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Turkey | 1 | 2% |
| Sweden | 1 | 2% |
| Canada | 1 | 2% |
| Unknown | 47 | 94% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 15 | 30% |
| Researcher | 14 | 28% |
| Professor | 5 | 10% |
| Student > Bachelor | 4 | 8% |
| Student > Master | 3 | 6% |
| Other | 7 | 14% |
| Unknown | 2 | 4% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 15 | 30% |
| Agricultural and Biological Sciences | 14 | 28% |
| Medicine and Dentistry | 5 | 10% |
| Computer Science | 4 | 8% |
| Neuroscience | 2 | 4% |
| Other | 5 | 10% |
| Unknown | 5 | 10% |
Attention Score in Context
This research output has an Altmetric Attention Score of 18. 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 04 October 2014.
All research outputs
#1,916,292
of 24,598,501 outputs
Outputs from Frontiers in Genetics
#414
of 13,259 outputs
Outputs of similar age
#20,712
of 254,788 outputs
Outputs of similar age from Frontiers in Genetics
#8
of 118 outputs
Altmetric has tracked 24,598,501 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 92nd percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 13,259 research outputs from this source. They receive a mean Attention Score of 3.8. This one has done particularly well, scoring higher than 96% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 254,788 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 91% of its contemporaries.
We're also able to compare this research output to 118 others from the same source and published within six weeks on either side of this one. This one has done particularly well, scoring higher than 94% of its contemporaries.