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VISIONET: intuitive visualisation of overlapping transcription factor networks, with applications in cardiogenic gene discovery

Overview of attention for article published in BMC Bioinformatics, May 2015
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Title
VISIONET: intuitive visualisation of overlapping transcription factor networks, with applications in cardiogenic gene discovery
Published in
BMC Bioinformatics, May 2015
DOI 10.1186/s12859-015-0578-0
Pubmed ID
Authors

Hieu T Nim, Milena B Furtado, Mauro W Costa, Nadia A Rosenthal, Hiroaki Kitano, Sarah E Boyd

Abstract

Existing de novo software platforms have largely overlooked a valuable resource, the expertise of the intended biologist users. Typical data representations such as long gene lists, or highly dense and overlapping transcription factor networks often hinder biologists from relating these results to their expertise. VISIONET, a streamlined visualisation tool built from experimental needs, enables biologists to transform large and dense overlapping transcription factor networks into sparse human-readable graphs via numerically filtering. The VISIONET interface allows users without a computing background to interactively explore and filter their data, and empowers them to apply their specialist knowledge on far more complex and substantial data sets than is currently possible. Applying VISIONET to the Tbx20-Gata4 transcription factor network led to the discovery and validation of Aldh1a2, an essential developmental gene associated with various important cardiac disorders, as a healthy adult cardiac fibroblast gene co-regulated by cardiogenic transcription factors Gata4 and Tbx20. We demonstrate with experimental validations the utility of VISIONET for expertise-driven gene discovery that opens new experimental directions that would not otherwise have been identified.

X Demographics

X Demographics

The data shown below were collected from the profiles of 4 X users who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 27 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Spain 1 4%
United States 1 4%
Belgium 1 4%
Unknown 24 89%

Demographic breakdown

Readers by professional status Count As %
Researcher 11 41%
Student > Ph. D. Student 4 15%
Other 2 7%
Professor > Associate Professor 2 7%
Student > Bachelor 1 4%
Other 4 15%
Unknown 3 11%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 8 30%
Agricultural and Biological Sciences 8 30%
Computer Science 2 7%
Pharmacology, Toxicology and Pharmaceutical Science 1 4%
Sports and Recreations 1 4%
Other 4 15%
Unknown 3 11%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 2. 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 16 September 2015.
All research outputs
#14,555,398
of 23,310,485 outputs
Outputs from BMC Bioinformatics
#4,828
of 7,382 outputs
Outputs of similar age
#140,515
of 265,433 outputs
Outputs of similar age from BMC Bioinformatics
#92
of 134 outputs
Altmetric has tracked 23,310,485 research outputs across all sources so far. This one is in the 35th percentile – i.e., 35% of other outputs scored the same or lower than it.
So far Altmetric has tracked 7,382 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.4. This one is in the 30th percentile – i.e., 30% of its peers scored the same or lower than it.
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 265,433 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 44th percentile – i.e., 44% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 134 others from the same source and published within six weeks on either side of this one. This one is in the 27th percentile – i.e., 27% of its contemporaries scored the same or lower than it.