ArticleViruses2022
Microseek: A Protein-Based Metagenomic Pipeline for Virus Diagnostic and Discovery.
Article in Viruses, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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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.
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Who cites it
20 citing papers in PubMed, 25 citations in OpenAlex.
- Detection and phylogenetic characterization of Jingmen tick virus inMicrobiology spectrum · 2026Article
- Detection and genetic characterization of Tembusu virus and other flaviviruses from mosquitoes in Lao PDR.PloS one · 2026Article
- Molecular detection of human-derived Jingmenvirus in multiple mosquito species from Yaoundé, Cameroon.Parasites & vectors · 2025Article
- Report of the fourth conference on next-generation sequencing (NGS) for adventitious virus detection in biologics for humans and animals: Validation and implementation of NGS.Biologicals : journal of the International Association of Biological Standardization · 2025Article
- Fluke-borne viruses are a risk factor for diseases caused by carcinogenic trematodes.bioRxiv : the preprint server for biology · 2025Article
- Viral Metagenomic Next-Generation Sequencing for One Health Discovery and Surveillance of (Re)Emerging Viruses: A Deep Review.International journal of molecular sciences · 2025Review
- A new potential mosquito-borne virus: detection of Human-derived Jingmenvirus in several-species of mosquitoes from Yaoundé, Cameroon.Research square · 2025Article
- Broad range molecular detection methods identify onlyOne health (Amsterdam, Netherlands) · 2024Article
- Insights into the virome of Hyalomma marginatum in the Danube Delta: a major vector of Crimean-Congo hemorrhagic fever virus in Eastern Europe.Parasites & vectors · 2024Article
- Complete genome sequence of a vampire bat-related rabies virus obtained by metagenomics from a patient with encephalitis of unknown etiology, French Guiana.Microbiology resource announcements · 2024Article
- Circovirus Hepatitis in Immunocompromised Patient, Switzerland.Emerging infectious diseases · 2024Article
- FLT3L governs the development of partially overlapping hematopoietic lineages in humans and mice.Cell · 2024Article
- Article
- Longitudinal Study of Viral Diversity Associated with Mosquito Species Circulating in Cambodia.Viruses · 2023Article
- Article
- Article
- Agnostic Sequencing for Detection of Viral Pathogens.Clinical microbiology reviews · 2023Review
- Enhanced Viral Metagenomics with Lazypipe 2.Viruses · 2023Article
- Circovirus Hepatitis Infection in Heart-Lung Transplant Patient, France.Emerging infectious diseases · 2023Article
- A Search for Tick-Associated, Bronnoya-like Virus Spillover into Sheep.Microorganisms · 2023Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present Microseek, a pipeline for virus identification and discovery based on RVDB-prot, a comprehensive, curated and regularly updated database of viral proteins. Microseek analyzes metagenomic Next Generation Sequencing (mNGS) raw data by performing quality steps, de novo assembly, and by scoring the Lowest Common Ancestor (LCA) from translated reads and contigs. Microseek runs on a local computer. The outcome of the pipeline is displayed through a user-friendly and dynamic graphical interface. Based on two representative mNGS datasets derived from human tissue and plasma specimens, we illustrate how Microseek works, and we report its performances. In silico spikes of known viral sequences, but also spikes of fake
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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.