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References from EnVhogDB: an extended view of the viral protein families on Earth through a vast collection of HMM profiles. Local targets link to admitted publications; unresolved targets remain external evidence.
Total metagenomes outperform viromes in recovering viral diversity from sulfuric soils
10.1093/ismeco/ycae017 · 2024 · External reference
IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata
10.1093/nar/gkac1037 · 2023 · External reference
Viruses as Winners in the Game of Life
10.1146/annurev-virology-100114-054952 · 2016 · External reference
Charting the diversity of uncultured viruses of Archaea and Bacteria
10.1186/s12915-019-0723-8 · 2019 · External reference
EnVhogDB profiles
10.5281/zenodo.17086059 · 2025 · External reference
EnVhogDB supplementary materials
10.5281/zenodo.17086808 · 2025 · External reference
Transmission and dynamics of mother-infant gut viruses during pregnancy and early life
10.1038/s41467-024-45257-4 · 2024 · External reference
PhaMMseqs: a new pipeline for constructing phage gene phamilies using MMseqs2
10.1093/g3journal/jkac233 · 2022 · External reference
Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation
10.1093/nar/gkw975 · 2017 · External reference
VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses
10.1186/s40168-020-00990-y · 2021 · External reference
A new tool for the Identification of Viral Elements in Microbial Dark Matter
10.24072/pci.microbiol.100152 · 2025 · External reference
Prodigal: prokaryotic gene recognition and translation initiation site identification
10.1186/1471-2105-11-119 · 2010 · External reference
VIBRANT: automated recovery, annotation and curation of microbial viruses, and evaluation of viral community function from genomic sequences
10.1186/s40168-020-00867-0 · 2020 · External reference
The global virome: How much diversity and how many independent origins?
10.1111/1462-2920.16207 · 2022 · External reference
Orthologous Gene Clusters and Taxon Signature Genes for Viruses of Prokaryotes
10.1128/jb.01801-12 · 2013 · External reference
Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases
10.1038/s41586-019-1237-9 · 2019 · External reference
Metagenome-derived virus-microbe ratios across ecosystems
10.1038/s41396-023-01431-y · 2023 · External reference
Context similarity scoring improves protein sequence alignments in the midnight zone
10.1093/bioinformatics/btu697 · 2015 · External reference
MMseqs2 desktop and local web server app for fast, interactive sequence searches
10.1093/bioinformatics/bty1057 · 2019 · External reference
Uniclust databases of clustered and deeply annotated protein sequences and alignments
10.1093/nar/gkw1081 · 2017 · External reference
Fast and sensitive taxonomic assignment to metagenomic contigs
10.1093/bioinformatics/btab184 · 2021 · External reference
Pfam: The protein families database in 2021
10.1093/nar/gkaa913 · 2021 · External reference
Numerous cultivated and uncultivated viruses encode ribosomal proteins
10.1038/s41467-019-08672-6 · 2019 · External reference
Are There 10$^{\textrm{31}}$ Virus Particles on Earth, or More, or Fewer?
10.1128/jb.00052-20 · 2020 · External reference
Forty-nine metagenomic-assembled genomes from an aquatic virome expand Caudoviricetes by 45 potential new families and the newly uncovered Gossevirus of Bamfordvirae
10.1099/jgv.0.001967 · 2024 · External reference
Transposable Prophages in Leptospira: An Ancient, Now Diverse, Group Predominant in Causative Agents of Weil’s Disease
10.3390/ijms222413434 · 2021 · External reference
Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages
10.1093/ve/veac123 · 2022 · External reference
Porcine circoviruses: current status, knowledge gaps and challenges
10.1016/j.virusres.2020.198044 · 2020 · External reference
Uncovering Earth’s virome
10.1038/nature19094 · 2016 · External reference
EnVhogDB code for building the database
10.5281/zenodo.17098288 · 2025 · External reference
EnVhogDB raw data
10.5281/zenodo.17086476 · 2025 · External reference
Pandoraviruses: Amoeba Viruses with Genomes Up to 2.5 Mb Reaching That of Parasitic Eukaryotes
10.1126/science.1239181 · 2013 · External reference
Identifying viruses from metagenomic data using deep learning
10.1007/s40484-019-0187-4 · 2020 · External reference
Exploring the viral world through metagenomics
10.1016/j.coviro.2011.06.004 · 2011 · External reference
Assessment of viral community functional potential from viral metagenomes may be hampered by contamination with cellular sequences
10.1098/rsob.130160 · 2013 · External reference
VirSorter: mining viral signal from microbial genomic data
10.7717/peerj.985 · 2015 · External reference
Viral but not bacterial community successional patterns reflect extreme turnover shortly after rewetting dry soils
10.1038/s41559-023-02207-5 · 2023 · External reference
Giant virus diversity and host interactions through global metagenomics
10.1038/s41586-020-1957-x · 2020 · External reference
Protein homology detection by HMM–HMM comparison
10.1093/bioinformatics/bti125 · 2004 · External reference
MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets
10.1038/nbt.3988 · 2017 · External reference
Clustering huge protein sequence sets in linear time
10.1038/s41467-018-04964-5 · 2018 · External reference
PHROG: families of prokaryotic virus proteins clustered using remote homology
10.1093/nargab/lqab067 · 2021 · External reference
Viral infections likely mediate microbial controls on ecosystem responses to global warming
10.1093/femsec/fiad016 · 2023 · External reference
efam: an e xpanded, metaproteome-supported HMM profile database of viral protein fam ilies
10.1093/bioinformatics/btab451 · 2021 · External reference
Discovering and exploring the hidden diversity of human gut viruses using highly enriched virome samples
10.1101/2024.02.19.580813 · 2024 · External reference