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MicroScope: ChIP-seq and RNA-seq software analysis suite for gene expression heatmaps

Overview of attention for article published in BMC Bioinformatics, September 2016
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (82nd percentile)
  • High Attention Score compared to outputs of the same age and source (92nd percentile)

Mentioned by

blogs
1 blog
twitter
8 tweeters

Citations

dimensions_citation
13 Dimensions

Readers on

mendeley
43 Mendeley
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Title
MicroScope: ChIP-seq and RNA-seq software analysis suite for gene expression heatmaps
Published in
BMC Bioinformatics, September 2016
DOI 10.1186/s12859-016-1260-x
Pubmed ID
Authors

Bohdan B. Khomtchouk, James R. Hennessy, Claes Wahlestedt

Abstract

Heatmaps are an indispensible visualization tool for examining large-scale snapshots of genomic activity across various types of next-generation sequencing datasets. However, traditional heatmap software do not typically offer multi-scale insight across multiple layers of genomic analysis (e.g., differential expression analysis, principal component analysis, gene ontology analysis, and network analysis) or multiple types of next-generation sequencing datasets (e.g., ChIP-seq and RNA-seq). As such, it is natural to want to interact with a heatmap's contents using an extensive set of integrated analysis tools applicable to a broad array of genomic data types. We propose a user-friendly ChIP-seq and RNA-seq software suite for the interactive visualization and analysis of genomic data, including integrated features to support differential expression analysis, interactive heatmap production, principal component analysis, gene ontology analysis, and dynamic network analysis. MicroScope is hosted online as an R Shiny web application based on the D3 JavaScript library: http://microscopebioinformatics.org/ . The methods are implemented in R, and are available as part of the MicroScope project at: https://github.com/Bohdan-Khomtchouk/Microscope .

Twitter Demographics

The data shown below were collected from the profiles of 8 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 43 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 43 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 15 35%
Student > Ph. D. Student 7 16%
Student > Master 6 14%
Student > Doctoral Student 2 5%
Student > Bachelor 2 5%
Other 6 14%
Unknown 5 12%
Readers by discipline Count As %
Agricultural and Biological Sciences 16 37%
Biochemistry, Genetics and Molecular Biology 12 28%
Computer Science 3 7%
Medicine and Dentistry 2 5%
Immunology and Microbiology 2 5%
Other 2 5%
Unknown 6 14%

Attention Score in Context

This research output has an Altmetric Attention Score of 10. 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 06 November 2016.
All research outputs
#2,176,241
of 16,639,069 outputs
Outputs from BMC Bioinformatics
#854
of 5,985 outputs
Outputs of similar age
#47,938
of 270,949 outputs
Outputs of similar age from BMC Bioinformatics
#3
of 26 outputs
Altmetric has tracked 16,639,069 research outputs across all sources so far. Compared to these this one has done well and is in the 86th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 5,985 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 5.1. This one has done well, scoring higher than 85% 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 270,949 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 82% of its contemporaries.
We're also able to compare this research output to 26 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 92% of its contemporaries.