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. |
Year | DOI | Venue |
---|---|---|
2017 | 10.1093/nar/gkw1030 | NUCLEIC ACIDS RESEARCH |
Field | DocType | Volume |
Genome,Biological classification,Biology,IMG,Genomics,DNA,Metagenomics,Contig,Phylum,Genetics,Database | Journal | 45 |
Issue | ISSN | Citations |
D1 | 0305-1048 | 4 |
PageRank | References | Authors |
0.71 | 5 | 32 |
Name | Order | Citations | PageRank |
---|---|---|---|
A. David Páez-Espino | 1 | 4 | 0.71 |
I-Min A. Chen | 2 | 458 | 177.16 |
Krishna Palaniappan | 3 | 269 | 22.76 |
Anna Ratner | 4 | 143 | 11.04 |
Ken Chu | 5 | 240 | 21.08 |
Ernest Szeto | 6 | 333 | 42.92 |
Manoj Pillay | 7 | 58 | 4.56 |
Jinghua Huang | 8 | 4 | 0.71 |
Victor M. Markowitz | 9 | 906 | 351.62 |
Torben Nielsen | 10 | 17 | 1.47 |
Marcel Huntemann | 11 | 123 | 8.41 |
T. B. K. Reddy | 12 | 28 | 2.04 |
Georgios A. Pavlopoulos | 13 | 5 | 1.05 |
Matthew B. Sullivan | 14 | 4 | 0.71 |
Barbara J. Campbell | 15 | 4 | 0.71 |
Feng Chen | 16 | 4 | 0.71 |
Katherine D. McMahon | 17 | 8 | 1.74 |
Steven J. Hallam | 18 | 34 | 3.97 |
Vincent J. Denef | 19 | 4 | 0.71 |
Ricardo Cavicchioli | 20 | 4 | 1.39 |
Sean M. Caffrey | 21 | 4 | 0.71 |
Wolfgang R. Streit | 22 | 4 | 0.71 |
John Webster | 23 | 4 | 0.71 |
Kim M. Handley | 24 | 4 | 0.71 |
Ghasem H. Salekdeh | 25 | 4 | 0.71 |
Nicolas Tsesmetzis | 26 | 4 | 0.71 |
João C. Setubal | 27 | 4 | 0.71 |
Phillip B. Pope | 28 | 4 | 0.71 |
Wen-Tso Liu | 29 | 4 | 0.71 |
Adam R. Rivers | 30 | 4 | 0.71 |
Natalia Ivanova | 31 | 9 | 1.18 |
Nikos Kyrpides | 32 | 395 | 52.87 |