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Selective and flexible depletion of problematic sequences from RNA-seq libraries at the cDNA stage

Overview of attention for article published in BMC Genomics, May 2014
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About this Attention Score

  • In the top 5% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (94th percentile)
  • High Attention Score compared to outputs of the same age and source (98th percentile)

Mentioned by

blogs
1 blog
twitter
17 X users
patent
106 patents
wikipedia
1 Wikipedia page

Citations

dimensions_citation
26 Dimensions

Readers on

mendeley
78 Mendeley
citeulike
1 CiteULike
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Title
Selective and flexible depletion of problematic sequences from RNA-seq libraries at the cDNA stage
Published in
BMC Genomics, May 2014
DOI 10.1186/1471-2164-15-401
Pubmed ID
Authors

Stuart K Archer, Nikolay E Shirokikh, Thomas Preiss

Abstract

A major hurdle to transcriptome profiling by deep-sequencing technologies is that abundant transcripts, such as rRNAs, can overwhelm the libraries, severely reducing transcriptome-wide coverage. Methods for depletion of such unwanted sequences typically require treatment of RNA samples prior to library preparation, are costly and not suited to unusual species and applications. Here we describe Probe-Directed Degradation (PDD), an approach that employs hybridisation to DNA oligonucleotides at the single-stranded cDNA library stage and digestion with Duplex-Specific Nuclease (DSN).

X Demographics

X Demographics

The data shown below were collected from the profiles of 17 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 78 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 1 1%
Ireland 1 1%
Unknown 76 97%

Demographic breakdown

Readers by professional status Count As %
Researcher 21 27%
Student > Ph. D. Student 16 21%
Student > Master 10 13%
Student > Bachelor 6 8%
Other 5 6%
Other 10 13%
Unknown 10 13%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 32 41%
Agricultural and Biological Sciences 31 40%
Environmental Science 1 1%
Computer Science 1 1%
Immunology and Microbiology 1 1%
Other 2 3%
Unknown 10 13%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 32. 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 13 February 2024.
All research outputs
#1,260,243
of 25,481,734 outputs
Outputs from BMC Genomics
#205
of 11,271 outputs
Outputs of similar age
#12,096
of 240,920 outputs
Outputs of similar age from BMC Genomics
#6
of 266 outputs
Altmetric has tracked 25,481,734 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 95th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 11,271 research outputs from this source. They receive a mean Attention Score of 4.8. This one has done particularly well, scoring higher than 98% 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 240,920 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 94% of its contemporaries.
We're also able to compare this research output to 266 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 98% of its contemporaries.