ArticleGenome biology2019
bin3C: exploiting Hi-C sequencing data to accurately resolve metagenome-assembled genomes.
Article in Genome biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 63 papers.
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
63 citing papers in PubMed.
- Phagocytosis of microbial symbionts supports embryonic nutrition in the sponge Halichondria panicea.Microbiome · 2026Article
- VirBinn improves viral genome binning from metagenomic Hi-C through graph diffusion.Bioinformatics (Oxford, England) · 2026Article
- Gut Hi-C metagenomes of severe COVID-19 patients: bacteria and yeast involved in gut-lung axis.mSphere · 2026Article
- Hi-C Metagenome Deconvolution of Double-Crested Cormorant (Microorganisms · 2026Article
- Gut virome dynamics: from commensal to critical player in health and disease.Nature reviews. Gastroenterology & hepatology · 2026Review
- Benchmarking alignment strategies for Hi-C reads in metagenomic Hi-C data.Genome biology · 2026Article
- The chromosomal genome sequence of the spongeWellcome open research · 2026Article
- Computational Tools and Resources for Long-read Metagenomic Sequencing Using Nanopore and PacBio.Genomics, proteomics & bioinformatics · 2025Review
- Mutualism between degraders and nondegraders stabilizes the function of a natural biopolymer-degrading community.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- MetaHiCNet: a web server for normalizing and visualizing microbial Hi-C interaction networks.Nucleic acids research · 2025Article
- Benchmarking metagenomic binning tools on real datasets across sequencing platforms and binning modes.Nature communications · 2025Article
- The chromosomal genome sequence of the bigfin reef squid,Wellcome open research · 2025Article
- The chromosomal genome sequence of the stone spongeWellcome open research · 2025Article
- The chromosomal genome sequence of the fragile freshwater sponge,Wellcome open research · 2025Article
- The chromosomal genome sequence of the giant barrel sponge,Wellcome open research · 2025Article
- The chromosomal genome sequence of the kidney sponge,Wellcome open research · 2025Article
- The chromosomal genome sequence of the spongeWellcome open research · 2025Article
- The chromosomal genome sequence of the sponge,Wellcome open research · 2025Article
- The chromosomal genome sequence of the marine spongeWellcome open research · 2025Article
- The scaffold-level genome sequence of an encrusting sponge,Wellcome open research · 2025Article
3 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
Most microbes cannot be easily cultured, and metagenomics provides a means to study them. Current techniques aim to resolve individual genomes from metagenomes, so-called metagenome-assembled genomes (MAGs). Leading approaches depend upon time series or transect studies, the efficacy of which is a function of community complexity, target abundance, and sequencing depth. We describe an unsupervised method that exploits the hierarchical nature of Hi-C interaction rates to resolve MAGs using a single time point. We validate the method and directly compare against a recently announced proprietary service, ProxiMeta. bin3C is an open-source pipeline and makes use of the Infomap clustering algorithm ( https://github.com/cerebis/bin3C ).
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.