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Generation of a de novo transcriptome from equine lamellar tissue

Overview of attention for article published in BMC Genomics, October 2015
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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 (89th percentile)
  • High Attention Score compared to outputs of the same age and source (95th percentile)

Mentioned by

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1 news outlet
twitter
9 tweeters
facebook
2 Facebook pages
googleplus
1 Google+ user

Citations

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11 Dimensions

Readers on

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21 Mendeley
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Title
Generation of a de novo transcriptome from equine lamellar tissue
Published in
BMC Genomics, October 2015
DOI 10.1186/s12864-015-1948-8
Pubmed ID
Authors

Heather M. Holl, Shan Gao, Zhangjun Fei, Caroline Andrews, Samantha A. Brooks

Abstract

Laminitis, the structural failure of interdigitated tissue that suspends the distal skeleton within the hoof capsule, is a devastating disease that is the second leading cause of both lameness and euthanasia in the horse. Current transcriptomic research focuses on the expression of known genes. However, as this tissue is quite unique and equine gene annotation is largely derived from computational predictions, there are likely yet uncharacterized transcripts that may be involved in the etiology of laminitis. In order to create a novel annotation resource, we performed whole transcriptome sequencing of sagittal lamellar sections from one control and two laminitis affected horses. Whole transcriptome sequencing of the three samples resulted in 113 million reads. Overall, 88 % of the reads mapped to the equCab2 reference genome, allowing for the identification of 119,430 SNPs. The de novo assembly generated around 75,000 transcripts, of which 36,000 corresponded to known annotations. Annotated transcript models are hosted in a public data repository and thus can be easily accessed or loaded into genome browsers. RT-PCR of 12 selected assemblies confirmed structure and expression in lamellar tissue. Transcriptome sequencing represents a powerful tool to expand on equine annotation and identify novel targets for further laminitis research.

Twitter Demographics

The data shown below were collected from the profiles of 9 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 21 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 1 5%
Unknown 20 95%

Demographic breakdown

Readers by professional status Count As %
Researcher 8 38%
Student > Ph. D. Student 3 14%
Student > Doctoral Student 2 10%
Professor > Associate Professor 2 10%
Librarian 1 5%
Other 3 14%
Unknown 2 10%
Readers by discipline Count As %
Veterinary Science and Veterinary Medicine 8 38%
Agricultural and Biological Sciences 8 38%
Computer Science 1 5%
Chemical Engineering 1 5%
Unknown 3 14%

Attention Score in Context

This research output has an Altmetric Attention Score of 15. 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 26 October 2015.
All research outputs
#546,856
of 8,010,338 outputs
Outputs from BMC Genomics
#284
of 5,727 outputs
Outputs of similar age
#24,099
of 240,225 outputs
Outputs of similar age from BMC Genomics
#15
of 340 outputs
Altmetric has tracked 8,010,338 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 93rd percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 5,727 research outputs from this source. They receive a mean Attention Score of 4.1. This one has done particularly well, scoring higher than 95% 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 240,225 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 89% of its contemporaries.
We're also able to compare this research output to 340 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 95% of its contemporaries.