Discovering and exploring the hidden diversity of the human gut viruses using highly enriched virome samples.
DOI10.5281/zenodo.10512460Zenodo10512460MaRDI QIDQ6683891FDOQ6683891
Dataset published at Zenodo repository.
Moreno Zolfo, Curtis Huttenhower, Cristina Menni, Hiroaki Kitano, Paolo Manghi, Nicola Segata, Sagun Maharjan, Federica Pinto, Alessia Visconti, Matteo Ciciani, Omar Rota-Stabelli, Francesco Asnicar, Vitor Heidrich, Jordan Jensen, Anna Cereseto, Aitor Blanco-Míguez, Andrea Silverj, Eric Franzosa, Takuji Yamada
Publication date: 15 January 2024
Copyright license: Creative Commons Attribution 4.0 International
Discovering and exploring the hidden diversity of the human gut viruses using highly enriched virome samples Viruses are crucially important in the human microbiome. By leveraging enriched Viral-Like Particle (VLP) viromes, through metagenomic assembly and sequence clustering, we retrieved thousands of viral contigs by from viromes and metagenomes.This upload contains the public collection of 162,000 viral sequnces we retrieved. Sequences are clustered into 3,944 VSCs (Viral Sequence Clusters) that are labelled as known (kVSCs) or unknown (uVSCs), and further grouped into 1,345 Viral Sequence Groups (VSGs). Files File Description VSC5_rep_fnas_nr99_45k_metaphlanDB.fna.gz The 45,872 representative sequences (dereplicated at 99% identity), included in the MetaPhlan 4.1 module, in FASTA format. VSCs_groups.csv Metadata of the 45,872 representative sequences included in the MetaPhlan 4.1 module. VSC5_rep_fnas_full_47k.fna.gz The non-dereplicated set of 47,820 representative sequences. VSC5_complete_162k_labelled.fna.gz The complete set of 162,876 sequences of potential viral origin extracted from metagenomes and viromes: 5651 Highly Enriched Virome Contigs (HEVC) 126,894 contigs from the unbinned metagenomes of Pasolli et al. 30,331 contigs from viromes CRISPR_VSG-to-species.csv CRISPR_VSG-to-SGBs.csv The host-associations of each VSG group (each line is a match between VSG-species and VSG-SGB). VSC_profiling_examples.zip An archive containing a test / tutorial subsampled dataset. SupplementaryData See Supplementary Figures and Tables in the original biorxiv publication. Citation Discovering and exploring the hidden diversity of the human gut viruses using highly enriched virome samples - bioRxiv 2024 Moreno Zolfo, Andrea Silverj, Aitor Blanco-Mguez, Paolo Manghi, Omar Rota-Stabelli, Vitor Heidrich, Jordan Jensen, Sagun Maharjan, Eric Franzosa, Cristina Menni, Alessia Visconti, Federica Pinto, Matteo Ciciani, Curtis Huttenhower, Anna Cereseto, Francesco Asnicar, Hiroaki Kitano, Takuji Yamada, Nicola Segata.
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