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COGNAT: a web server for comparative analysis of genomic neighborhoods

Overview of attention for article published in Biology Direct, November 2017
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3 tweeters

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Title
COGNAT: a web server for comparative analysis of genomic neighborhoods
Published in
Biology Direct, November 2017
DOI 10.1186/s13062-017-0196-z
Pubmed ID
Authors

Olesya I. Klimchuk, Kirill A. Konovalov, Vadim V. Perekhvatov, Konstantin V. Skulachev, Daria V. Dibrova, Armen Y. Mulkidjanian

Abstract

In prokaryotic genomes, functionally coupled genes can be organized in conserved gene clusters enabling their coordinated regulation. Such clusters could contain one or several operons, which are groups of co-transcribed genes. Those genes that evolved from a common ancestral gene by speciation (i.e. orthologs) are expected to have similar genomic neighborhoods in different organisms, whereas those copies of the gene that are responsible for dissimilar functions (i.e. paralogs) could be found in dissimilar genomic contexts. Comparative analysis of genomic neighborhoods facilitates the prediction of co-regulated genes and helps to discern different functions in large protein families. We intended, building on the attribution of gene sequences to the clusters of orthologous groups of proteins (COGs), to provide a method for visualization and comparative analysis of genomic neighborhoods of evolutionary related genes, as well as a respective web server. Here we introduce the COmparative Gene Neighborhoods Analysis Tool (COGNAT), a web server for comparative analysis of genomic neighborhoods. The tool is based on the COG database, as well as the Pfam protein families database. As an example, we show the utility of COGNAT in identifying a new type of membrane protein complex that is formed by paralog(s) of one of the membrane subunits of the NADH:quinone oxidoreductase of type 1 (COG1009) and a cytoplasmic protein of unknown function (COG3002). This article was reviewed by Drs. Igor Zhulin, Uri Gophna and Igor Rogozin.

Twitter Demographics

The data shown below were collected from the profiles of 3 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 14 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 14 100%

Demographic breakdown

Readers by professional status Count As %
Student > Bachelor 5 36%
Professor 1 7%
Professor > Associate Professor 1 7%
Student > Ph. D. Student 1 7%
Student > Master 1 7%
Other 1 7%
Unknown 4 29%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 7 50%
Agricultural and Biological Sciences 2 14%
Immunology and Microbiology 1 7%
Medicine and Dentistry 1 7%
Design 1 7%
Other 0 0%
Unknown 2 14%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. 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 27 November 2017.
All research outputs
#7,622,436
of 12,196,902 outputs
Outputs from Biology Direct
#303
of 554 outputs
Outputs of similar age
#188,340
of 338,446 outputs
Outputs of similar age from Biology Direct
#21
of 27 outputs
Altmetric has tracked 12,196,902 research outputs across all sources so far. This one is in the 23rd percentile – i.e., 23% of other outputs scored the same or lower than it.
So far Altmetric has tracked 554 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 6.4. This one is in the 7th percentile – i.e., 7% of its peers scored the same or lower than it.
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 338,446 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 34th percentile – i.e., 34% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 27 others from the same source and published within six weeks on either side of this one. This one is in the 22nd percentile – i.e., 22% of its contemporaries scored the same or lower than it.