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Quality control of microbiota metagenomics by k-mer analysis

Overview of attention for article published in BMC Genomics, March 2015
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  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (90th percentile)
  • High Attention Score compared to outputs of the same age and source (96th percentile)

Mentioned by

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30 X users
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1 patent
reddit
1 Redditor

Citations

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23 Dimensions

Readers on

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161 Mendeley
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1 CiteULike
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Title
Quality control of microbiota metagenomics by k-mer analysis
Published in
BMC Genomics, March 2015
DOI 10.1186/s12864-015-1406-7
Pubmed ID
Authors

Florian Plaza Onate, Jean-Michel Batto, Catherine Juste, Jehane Fadlallah, Cyrielle Fougeroux, Doriane Gouas, Nicolas Pons, Sean Kennedy, Florence Levenez, Joel Dore, S Dusko Ehrlich, Guy Gorochov, Martin Larsen

Abstract

The biological and clinical consequences of the tight interactions between host and microbiota are rapidly being unraveled by next generation sequencing technologies and sophisticated bioinformatics, also referred to as microbiota metagenomics. The recent success of metagenomics has created a demand to rapidly apply the technology to large case-control cohort studies and to studies of microbiota from various habitats, including habitats relatively poor in microbes. It is therefore of foremost importance to enable a robust and rapid quality assessment of metagenomic data from samples that challenge present technological limits (sample numbers and size). Here we demonstrate that the distribution of overlapping k-mers of metagenome sequence data predicts sequence quality as defined by gene distribution and efficiency of sequence mapping to a reference gene catalogue.

X Demographics

X Demographics

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 161 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Brazil 4 2%
Sweden 3 2%
United States 2 1%
Estonia 2 1%
Canada 1 <1%
France 1 <1%
Germany 1 <1%
Egypt 1 <1%
Unknown 146 91%

Demographic breakdown

Readers by professional status Count As %
Researcher 41 25%
Student > Ph. D. Student 32 20%
Student > Bachelor 19 12%
Student > Master 17 11%
Student > Doctoral Student 13 8%
Other 22 14%
Unknown 17 11%
Readers by discipline Count As %
Agricultural and Biological Sciences 67 42%
Biochemistry, Genetics and Molecular Biology 38 24%
Computer Science 10 6%
Medicine and Dentistry 8 5%
Immunology and Microbiology 7 4%
Other 9 6%
Unknown 22 14%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 18. 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 18 November 2023.
All research outputs
#2,029,978
of 25,559,053 outputs
Outputs from BMC Genomics
#459
of 11,282 outputs
Outputs of similar age
#25,514
of 278,136 outputs
Outputs of similar age from BMC Genomics
#11
of 289 outputs
Altmetric has tracked 25,559,053 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 92nd percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 11,282 research outputs from this source. They receive a mean Attention Score of 4.8. 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 278,136 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 90% of its contemporaries.
We're also able to compare this research output to 289 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 96% of its contemporaries.