| Title |
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
|
|---|---|
| Published in |
Nucleic Acids Research, October 2016
|
| DOI | 10.1093/nar/gkw1030 |
| Pubmed ID | |
| Authors |
David Paez-Espino, I.-Min A. Chen, Krishna Palaniappan, Anna Ratner, Ken Chu, Ernest Szeto, Manoj Pillay, Jinghua Huang, Victor M. Markowitz, Torben Nielsen, Marcel Huntemann, T. B. K. Reddy, Georgios A. Pavlopoulos, Matthew B. Sullivan, Barbara J. Campbell, Feng Chen, Katherine McMahon, Steve J. Hallam, Vincent Denef, Ricardo Cavicchioli, Sean M. Caffrey, Wolfgang R. Streit, John Webster, Kim M. Handley, Ghasem H. Salekdeh, Nicolas Tsesmetzis, Joao C. Setubal, Phillip B. Pope, Wen-Tso Liu, Adam R. Rivers, Natalia N. Ivanova, Nikos C. Kyrpides |
| Abstract |
Viruses represent the most abundant life forms on the planet. Recent experimental and computational improvements have led to a dramatic increase in the number of viral genome sequences identified primarily from metagenomic samples. As a result of the expanding catalog of metagenomic viral sequences, there exists a need for a comprehensive computational platform integrating all these sequences with associated metadata and analytical tools. Here we present IMG/VR (https://img.jgi.doe.gov/vr/), the largest publicly available database of 3908 isolate reference DNA viruses with 264 413 computationally identified viral contigs from >6000 ecologically diverse metagenomic samples. Approximately half of the viral contigs are grouped into genetically distinct quasi-species clusters. Microbial hosts are predicted for 20 000 viral sequences, revealing nine microbial phyla previously unreported to be infected by viruses. Viral sequences can be queried using a variety of associated metadata, including habitat type and geographic location of the samples, or taxonomic classification according to hallmark viral genes. IMG/VR has a user-friendly interface that allows users to interrogate all integrated data and interact by comparing with external sequences, thus serving as an essential resource in the viral genomics community. |
X Demographics
The data shown below were collected from the profiles of 88 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 | 30 | 34% |
| Australia | 3 | 3% |
| United Kingdom | 3 | 3% |
| France | 3 | 3% |
| Spain | 2 | 2% |
| Netherlands | 2 | 2% |
| Germany | 2 | 2% |
| Canada | 2 | 2% |
| Greece | 2 | 2% |
| Other | 6 | 7% |
| Unknown | 33 | 38% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 43 | 49% |
| Scientists | 42 | 48% |
| Practitioners (doctors, other healthcare professionals) | 2 | 2% |
| Science communicators (journalists, bloggers, editors) | 1 | 1% |
Mendeley readers
The data shown below were compiled from readership statistics for 256 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Brazil | 3 | 1% |
| United States | 2 | <1% |
| Italy | 1 | <1% |
| Spain | 1 | <1% |
| Unknown | 249 | 97% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 68 | 27% |
| Researcher | 55 | 21% |
| Student > Master | 35 | 14% |
| Student > Bachelor | 13 | 5% |
| Student > Doctoral Student | 10 | 4% |
| Other | 34 | 13% |
| Unknown | 41 | 16% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 83 | 32% |
| Biochemistry, Genetics and Molecular Biology | 58 | 23% |
| Environmental Science | 15 | 6% |
| Immunology and Microbiology | 12 | 5% |
| Computer Science | 10 | 4% |
| Other | 26 | 10% |
| Unknown | 52 | 20% |
Attention Score in Context
This research output has an Altmetric Attention Score of 89. 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 07 May 2021.
All research outputs
#475,001
of 25,364,603 outputs
Outputs from Nucleic Acids Research
#120
of 27,540 outputs
Outputs of similar age
#9,225
of 318,995 outputs
Outputs of similar age from Nucleic Acids Research
#1
of 344 outputs
Altmetric has tracked 25,364,603 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 98th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 27,540 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 7.1. This one has done particularly well, scoring higher than 99% 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 318,995 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 97% of its contemporaries.
We're also able to compare this research output to 344 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 99% of its contemporaries.