| Title |
rRNASelector: A computer program for selecting ribosomal RNA encoding sequences from metagenomic and metatranscriptomic shotgun libraries
|
|---|---|
| Published in |
Journal of Microbiology, September 2011
|
| DOI | 10.1007/s12275-011-1213-z |
| Pubmed ID | |
| Authors |
Jae-Hak Lee, Hana Yi, Jongsik Chun |
| Abstract |
Metagenomic and metatranscriptomic shotgun sequencing techniques are gaining popularity as more cost-effective next-generation sequencing technologies become commercially available. The initial stage of bioinfor-matic analysis generally involves the identification of phylogenetic markers such as ribosomal RNA genes. The sequencing reads that do not code for rRNA can then be used for protein-based analysis. Hidden Markov model is a well-known method for pattern recognition. Hidden Markov models that are trained on well-curated rRNA sequence databases have been successfully used to identify DNA sequence coding for rRNAs in pro-karyotes. Here, we introduce rRNASelector, which is a computer program for selecting rRNA genes from massive metagenomic and metatranscriptomic sequences using hidden Markov models. The program successfully identified prokaryotic 5S, 26S, and 23S rRNA genes from Roche 454 FLX Titanium-based metagenomic and metatranscriptomic libraries. The rRNASelector program is available at http://sw.ezbiocloud.net/rrnaselector . |
X Demographics
The data shown below were collected from the profiles of 2 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 1 | 50% |
| Unknown | 1 | 50% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 2 | 100% |
Mendeley readers
The data shown below were compiled from readership statistics for 65 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 2 | 3% |
| United States | 2 | 3% |
| Ireland | 1 | 2% |
| Brazil | 1 | 2% |
| Sweden | 1 | 2% |
| France | 1 | 2% |
| Denmark | 1 | 2% |
| Norway | 1 | 2% |
| Spain | 1 | 2% |
| Other | 1 | 2% |
| Unknown | 53 | 82% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 19 | 29% |
| Student > Ph. D. Student | 14 | 22% |
| Student > Master | 14 | 22% |
| Other | 3 | 5% |
| Professor > Associate Professor | 3 | 5% |
| Other | 8 | 12% |
| Unknown | 4 | 6% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 36 | 55% |
| Biochemistry, Genetics and Molecular Biology | 15 | 23% |
| Medicine and Dentistry | 3 | 5% |
| Mathematics | 2 | 3% |
| Environmental Science | 1 | 2% |
| Other | 3 | 5% |
| Unknown | 5 | 8% |
Attention Score in Context
This research output has an Altmetric Attention Score of 5. 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 May 2020.
All research outputs
#6,665,264
of 23,975,976 outputs
Outputs from Journal of Microbiology
#130
of 842 outputs
Outputs of similar age
#37,114
of 127,591 outputs
Outputs of similar age from Journal of Microbiology
#1
of 6 outputs
Altmetric has tracked 23,975,976 research outputs across all sources so far. This one has received more attention than most of these and is in the 72nd percentile.
So far Altmetric has tracked 842 research outputs from this source. They receive a mean Attention Score of 3.2. This one has done well, scoring higher than 84% 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 127,591 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 70% of its contemporaries.
We're also able to compare this research output to 6 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them