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Integrating taxonomic signals from MAGs and contigs improves read annotation and taxonomic profiling of metagenomes.
- Published in:
- Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-47155-1
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- Publication type:
- Article
Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes.
- Published in:
- Genome Biology, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s13059-024-03236-4
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- Publication type:
- Article
Correction to: Changes to virus taxonomy and the ICTV Statutes ratifed by the International Committee on Taxonomy of Viruses (2023)
- Published in:
- 2023
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- Publication type:
- Correction Notice
Bacterial Oncotraits Rather than Spatial Organization Are Associated with Dysplasia in Ulcerative Colitis.
- Published in:
- Journal of Crohn's & Colitis, 2023, v. 17, n. 11, p. 1870, doi. 10.1093/ecco-jcc/jjad092
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- Publication type:
- Article
Author Correction: Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification.
- Published in:
- 2023
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- Publication type:
- Correction Notice
Identifying and tracking mobile elements in evolving compost communities yields insights into the nanobiome.
- Published in:
- ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00294-w
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- Publication type:
- Article
Changes to virus taxonomy and the ICTV Statutes ratified by the International Committee on Taxonomy of Viruses (2023)
- Published in:
- Archives of Virology, 2023, v. 168, n. 7, p. 1, doi. 10.1007/s00705-023-05797-4
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- Publication type:
- Article
Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification.
- Published in:
- 2023
- By:
- Publication type:
- Letter
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria.
- Published in:
- PLoS Biology, 2023, v. 21, n. 4, p. 1, doi. 10.1371/journal.pbio.3002083
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- Publication type:
- Article
Four principles to establish a universal virus taxonomy.
- Published in:
- PLoS Biology, 2023, v. 21, n. 2, p. 1, doi. 10.1371/journal.pbio.3001922
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- Publication type:
- Article
Abolishment of morphology-based taxa and change to binomial species names: 2022 taxonomy update of the ICTV bacterial viruses subcommittee.
- Published in:
- Archives of Virology, 2023, v. 168, n. 2, p. 1, doi. 10.1007/s00705-022-05694-2
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- Publication type:
- Article
Rational Design of Profile HMMs for Sensitive and Specific Sequence Detection with Case Studies Applied to Viruses, Bacteriophages, and Casposons.
- Published in:
- Viruses (1999-4915), 2023, v. 15, n. 2, p. 519, doi. 10.3390/v15020519
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- Publication type:
- Article
Recent changes to virus taxonomy ratified by the International Committee on Taxonomy of Viruses (2022).
- Published in:
- Archives of Virology, 2022, v. 167, n. 11, p. 2429, doi. 10.1007/s00705-022-05516-5
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- Publication type:
- Article
Nutrition or nature: using elementary flux modes to disentangle the complex forces shaping prokaryote pan-genomes.
- Published in:
- BMC Ecology & Evolution, 2022, v. 22, n. 1, p. 1, doi. 10.1186/s12862-022-02052-3
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- Publication type:
- Article
Gut virome profiling identifies a widespread bacteriophage family associated with metabolic syndrome.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31390-5
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- Publication type:
- Article
Differentiating between viruses and virus species by writing their names correctly.
- Published in:
- Archives of Virology, 2022, v. 167, n. 4, p. 1231, doi. 10.1007/s00705-021-05323-4
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- Publication type:
- Article
Novel high-resolution targeted sequencing of the cervicovaginal microbiome.
- Published in:
- BMC Biology, 2021, v. 19, n. 1, p. 1, doi. 10.1186/s12915-021-01204-z
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- Publication type:
- Article
Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021.
- Published in:
- Archives of Virology, 2021, v. 166, n. 11, p. 3239, doi. 10.1007/s00705-021-05205-9
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- Publication type:
- Article
Finding functional associations between prokaryotic virus orthologous groups: a proof of concept.
- Published in:
- BMC Bioinformatics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12859-021-04343-w
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- Publication type:
- Article
Changes to virus taxonomy and to the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2021).
- Published in:
- Archives of Virology, 2021, v. 166, n. 9, p. 2633, doi. 10.1007/s00705-021-05156-1
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- Publication type:
- Article
Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain.
- Published in:
- eLife, 2021, p. 1, doi. 10.7554/eLife.62719
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- Publication type:
- Article
The bacterial sulfur cycle in expanding dysoxic and euxinic marine waters.
- Published in:
- Environmental Microbiology, 2021, v. 23, n. 6, p. 2834, doi. 10.1111/1462-2920.15265
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- Publication type:
- Article
Optimized bacterial DNA isolation method for microbiome analysis of human tissues.
- Published in:
- MicrobiologyOpen, 2021, v. 10, n. 3, p. 1, doi. 10.1002/mbo3.1191
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- Publication type:
- Article
ITN—VIROINF: Understanding (Harmful) Virus-Host Interactions by Linking Virology and Bioinformatics.
- Published in:
- Viruses (1999-4915), 2021, v. 13, n. 5, p. 766, doi. 10.3390/v13050766
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- Publication type:
- Article
OGRE: Overlap Graph-based metagenomic Read clustEring.
- Published in:
- Bioinformatics, 2021, v. 37, n. 7, p. 905, doi. 10.1093/bioinformatics/btaa760
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- Publication type:
- Article
Editorial: Computational Methods for Microbiome Analysis.
- Published in:
- 2020
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- Publication type:
- Editorial
Prophages are associated with extensive CRISPR–Cas auto-immunity.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. 21, p. 12074, doi. 10.1093/nar/gkaa1071
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- Publication type:
- Article
Changes to virus taxonomy and the Statutes ratified by the International Committee on Taxonomy of Viruses (2020).
- Published in:
- Archives of Virology, 2020, v. 165, n. 11, p. 2737, doi. 10.1007/s00705-020-04752-x
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- Publication type:
- Article
Evolutionary Study of the Crassphage Virus at Gene Level.
- Published in:
- Viruses (1999-4915), 2020, v. 12, n. 9, p. 1035, doi. 10.3390/v12091035
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- Publication type:
- Article
Ecogenomics of the Marine Benthic Filamentous Cyanobacterium Adonisia.
- Published in:
- Microbial Ecology, 2020, v. 80, n. 2, p. 249, doi. 10.1007/s00248-019-01480-x
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- Publication type:
- Article
Genome reconstruction of the non-culturable spinach downy mildew Peronospora effusa by metagenome filtering.
- Published in:
- PLoS ONE, 2020, v. 15, n. 5, p. 1, doi. 10.1371/journal.pone.0225808
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- Publication type:
- Article
Taxonomy of prokaryotic viruses: 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee.
- Published in:
- Archives of Virology, 2020, v. 165, n. 5, p. 1253, doi. 10.1007/s00705-020-04577-8
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- Publication type:
- Article
Correction to: Binomial nomenclature for virus species: a consultation.
- Published in:
- 2020
- By:
- Publication type:
- Correction Notice
Genome-wide association studies of Shigella spp. and Enteroinvasive Escherichia coli isolates demonstrate an absence of genetic markers for prediction of disease severity.
- Published in:
- BMC Genomics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12864-020-6555-7
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- Publication type:
- Article
Metabolic models predict bacterial passengers in colorectal cancer.
- Published in:
- Cancer & Metabolism, 2020, v. 8, n. 1, p. 1, doi. 10.1186/s40170-020-0208-9
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- Publication type:
- Article
Binomial nomenclature for virus species: a consultation.
- Published in:
- Archives of Virology, 2020, v. 165, n. 2, p. 519, doi. 10.1007/s00705-019-04477-6
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- Publication type:
- Article
Integrating Computational Methods to Investigate the Macroecology of Microbiomes.
- Published in:
- Frontiers in Genetics, 2020, v. 10, p. 1, doi. 10.3389/fgene.2019.01344
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- Publication type:
- Article
Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages.
- Published in:
- Systematic Biology, 2020, v. 69, n. 1, p. 110, doi. 10.1093/sysbio/syz036
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- Publication type:
- Article
Evolution of BACON Domain Tandem Repeats in crAssphage and Novel Gut Bacteriophage Lineages.
- Published in:
- Viruses (1999-4915), 2019, v. 11, n. 12, p. 1085, doi. 10.3390/v11121085
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- Publication type:
- Article
Drug Discovery and Repurposing Inhibits a Major Gut Pathogen-Derived Oncogenic Toxin.
- Published in:
- Frontiers in Cellular & Infection Microbiology, 2019, v. 9, p. 1, doi. 10.3389/fcimb.2019.00364
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- Publication type:
- Article
Robust taxonomic classification of uncharted microbial sequences and bins with CAT and BAT.
- Published in:
- Genome Biology, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s13059-019-1817-x
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- Publication type:
- Article
Changes to virus taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2019).
- Published in:
- Archives of Virology, 2019, v. 164, n. 9, p. 2417, doi. 10.1007/s00705-019-04306-w
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- Publication type:
- Article
Using the structure of genome data in the design of deep neural networks for predicting amyotrophic lateral sclerosis from genotype.
- Published in:
- Bioinformatics, 2019, v. 35, n. 14, p. i538, doi. 10.1093/bioinformatics/btz369
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- Publication type:
- Article
The Third Annual Meeting of the European Virus Bioinformatics Center.
- Published in:
- 2019
- By:
- Publication type:
- Proceeding
Additional changes to taxonomy ratified in a special vote by the International Committee on Taxonomy of Viruses (October 2018).
- Published in:
- Archives of Virology, 2019, v. 164, n. 3, p. 943, doi. 10.1007/s00705-018-04136-2
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- Publication type:
- Article
Minimum Information about an Uncultivated Virus Genome (MIUViG).
- Published in:
- Nature Biotechnology, 2019, v. 37, n. 1, p. 29, doi. 10.1038/nbt.4306
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- Publication type:
- Article
The gill-associated microbiome is the main source of wood plant polysaccharide hydrolases and secondary metabolite gene clusters in the mangrove shipworm Neoteredo reynei.
- Published in:
- PLoS ONE, 2018, v. 13, n. 11, p. 1, doi. 10.1371/journal.pone.0200437
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- Publication type:
- Article
Changes to taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2018).
- Published in:
- Archives of Virology, 2018, v. 163, n. 9, p. 2601, doi. 10.1007/s00705-018-3847-1
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- Publication type:
- Article
Establishing normal metabolism and differentiation in hepatocellular carcinoma cells by culturing in adult human serum.
- Published in:
- Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-29763-2
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- Publication type:
- Article
Bioinformatics Meets Virology: The European Virus Bioinformatics Center's Second Annual Meeting.
- Published in:
- Viruses (1999-4915), 2018, v. 10, n. 5, p. 256, doi. 10.3390/v10050256
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- Publication type:
- Article