ArticleViruses2021
ViralRecall-A Flexible Command-Line Tool for the Detection of Giant Virus Signatures in 'Omic Data.
Article in Viruses, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
62 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Bioinformatics Tools and Approaches for Virus Discovery in Genomic Data: A Systematic Review.Viruses · 2025Pooled it
- Genomic catalogue of giant viruses reveals expanded diversity and functional potential.Nature microbiology · 2026Article
- Mycodnaviridae is a clade of giant viruses that persistently infect zoosporic fungi.PLoS biology · 2026Article
- Giant viruses of the polar regions: diversity, endemism, adaptation and ecological structuring.FEMS microbiology ecology · 2026Review
- Latent endogenous giant viruses drive active infection and inheritance in a multicellular algal host.Nature microbiology · 2026Article
- Unveiling the biodiversity of large DNA viruses in intertidal mudflats via metagenomics.Nature communications · 2026Article
- A genomic view of Earth's biomes.Nature reviews. Genetics · 2026Review
- Article
- HI-FEVER: a Nextflow pipeline for the high-throughput discovery and annotation of endogenous viral elements.Bioinformatics (Oxford, England) · 2025Article
- Bacteriophage and megaviruses from outdoor microalgae ponds in Mesa, Arizona.Microbiology resource announcements · 2025Article
- Genome-resolved biogeography of Phaeocystales, cosmopolitan bloom-forming algae.Nature communications · 2025Article
- Giant endogenous viral elements in the genome of the model protistJournal of virology · 2025Article
- Naiavirus: an enveloped giant virus with a pleomorphic, flexible tail.Nature communications · 2025Article
- Repressive Cytosine Methylation is a Marker of Viral Gene Transfer Across Divergent Eukaryotes.Molecular biology and evolution · 2025Article
- A dinoflagellate-infecting giant virus with a micron-length tail.bioRxiv : the preprint server for biology · 2025Article
- GiantHunter: accurate detection of giant virus in metagenomic data using reinforcement-learning and Monte Carlo tree search.Bioinformatics (Oxford, England) · 2025Article
- Lineage-specific expansions of polinton-like viruses in photosynthetic cryptophytes.Microbiome · 2025Article
- Epigenetic silencing and genome dynamics determine the fate of giant virus endogenizations in Acanthamoeba.BMC biology · 2025Article
- Identification of shared viral sequences in peat moss metagenomes reveals elements of a possible Sphagnum core virome.Environmental microbiome · 2025Article
- Cryptic infection of a giant virus in a unicellular green alga.Science (New York, N.Y.) · 2025Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Giant viruses are widespread in the biosphere and play important roles in biogeochemical cycling and host genome evolution. Also known as nucleo-cytoplasmic large DNA viruses (NCLDVs), these eukaryotic viruses harbor the largest and most complex viral genomes known. Studies have shown that NCLDVs are frequently abundant in metagenomic datasets, and that sequences derived from these viruses can also be found endogenized in diverse eukaryotic genomes. The accurate detection of sequences derived from NCLDVs is therefore of great importance, but this task is challenging owing to both the high level of sequence divergence between NCLDV families and the extraordinarily high diversity of genes encoded in their genomes, including some encoding for metabolic or translation-related functions that are typically found only in cellular lineages. Here, we present ViralRecall, a bioinformatic tool for the identification of NCLDV signatures in 'omic data. This tool leverages a library of giant virus orthologous groups (GVOGs) to identify sequences that bear signatures of NCLDVs. We demonstrate that this tool can effectively identify NCLDV sequences with high sensitivity and specificity. Moreover, we show that it can be useful both for removing contaminating sequences in metagenome-assembled viral genomes as well as the identification of eukaryotic genomic loci that derived from NCLDV. ViralRecall is written in Python 3.5 and is freely available on GitHub: https://github.com/faylward/viralrecall.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.