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De novo assembly and analysis of RNA-seq data

Overview of attention for article published in Nature Methods, October 2010
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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 (93rd percentile)
  • Good Attention Score compared to outputs of the same age and source (73rd percentile)

Mentioned by

blogs
2 blogs
twitter
2 tweeters
wikipedia
2 Wikipedia pages

Readers on

mendeley
861 Mendeley
citeulike
40 CiteULike
Title
De novo assembly and analysis of RNA-seq data
Published in
Nature Methods, October 2010
DOI 10.1038/nmeth.1517
Pubmed ID
Authors

Gordon Robertson, Jacqueline Schein, Readman Chiu, Richard Corbett, Matthew Field, Shaun D Jackman, Karen Mungall, Sam Lee, Hisanaga Mark Okada, Jenny Q Qian, Malachi Griffith, Anthony Raymond, Nina Thiessen, Timothee Cezard, Yaron S Butterfield, Richard Newsome, Simon K Chan, Rong She, Richard Varhol, Baljit Kamoh, Anna-Liisa Prabhu, Angela Tam, YongJun Zhao, Richard A Moore, Martin Hirst, Marco A Marra, Steven J M Jones, Pamela A Hoodless, Inanc Birol, Robertson G, Schein J, Chiu R, Corbett R, Field M, Jackman SD, Mungall K, Lee S, Okada HM, Qian JQ, Griffith M, Raymond A, Thiessen N, Cezard T, Butterfield YS, Newsome R, Chan SK, She R, Varhol R, Kamoh B, Prabhu AL, Tam A, Zhao Y, Moore RA, Hirst M, Marra MA, Jones SJ, Hoodless PA, Birol I

Abstract

We describe Trans-ABySS, a de novo short-read transcriptome assembly and analysis pipeline that addresses variation in local read densities by assembling read substrings with varying stringencies and then merging the resulting contigs before analysis. Analyzing 7.4 gigabases of 50-base-pair paired-end Illumina reads from an adult mouse liver poly(A) RNA library, we identified known, new and alternative structures in expressed transcripts, and achieved high sensitivity and specificity relative to reference-based assembly methods.

Twitter Demographics

The data shown below were collected from the profiles of 2 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 861 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 42 5%
United Kingdom 17 2%
Germany 11 1%
France 9 1%
Brazil 9 1%
Canada 8 <1%
Spain 8 <1%
Sweden 8 <1%
Italy 6 <1%
Other 53 6%
Unknown 690 80%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 249 29%
Researcher 241 28%
Student > Master 125 15%
Professor > Associate Professor 52 6%
Student > Bachelor 48 6%
Other 146 17%
Readers by discipline Count As %
Agricultural and Biological Sciences 624 72%
Biochemistry, Genetics and Molecular Biology 97 11%
Computer Science 57 7%
Unspecified 24 3%
Medicine and Dentistry 16 2%
Other 43 5%

Attention Score in Context

This research output has an Altmetric Attention Score of 17. 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 June 2017.
All research outputs
#576,492
of 8,761,118 outputs
Outputs from Nature Methods
#854
of 2,958 outputs
Outputs of similar age
#5,167
of 76,973 outputs
Outputs of similar age from Nature Methods
#16
of 61 outputs
Altmetric has tracked 8,761,118 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 2,958 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 21.6. This one has gotten more attention than average, scoring higher than 71% 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 76,973 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 93% of its contemporaries.
We're also able to compare this research output to 61 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 73% of its contemporaries.