ArticleBioinformatics (Oxford, England)2012
Identification and removal of ribosomal RNA sequences from metatranscriptomes.
Article in Bioinformatics (Oxford, England), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 119 papers.
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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.
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Who cites it
119 citing papers in PubMed.
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- Novel, active, and uncultured hydrocarbon-degrading microbes in the ocean.Applied and environmental microbiology · 2024Article
- Global patterns in the growth potential of soil bacterial communities.Nature communications · 2024Article
- In vivo neuroprotective capacity of a Dunaliella salina extract - comprehensive transcriptomics and metabolomics study.NPJ science of food · 2024Article
- Lipases and carboxylesterases affect moth sex pheromone compounds involved in interspecific mate recognition.Nature communications · 2023Article
- Interplay between autotrophic and heterotrophic prokaryotic metabolism in the bathypelagic realm revealed by metatranscriptomic analyses.Microbiome · 2023Article
- Untangling an insect's virome from its endogenous viral elements.BMC genomics · 2023Article
- Isolation and genome sequencing of cytomegaloviruses from Natal multimammate mice (The Journal of general virology · 2023Article
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- Metagenomics and metatranscriptomics reveal broadly distributed, active, novel methanotrophs in the Gulf of Mexico hypoxic zone and in the marine water column.FEMS microbiology ecology · 2023Article
59 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
summaryHere, we present riboPicker, a robust framework for the rapid, automated identification and removal of ribosomal RNA sequences from metatranscriptomic datasets. The results can be exported for subsequent analysis, and the databases used for the web-based version are updated on a regular basis. riboPicker categorizes rRNA-like sequences and provides graphical visualizations and tabular outputs of ribosomal coverage, alignment results and taxonomic classifications. AVAILABILITY AND IMPLEMENTATION: This open-source application was implemented in Perl and can be used as stand-alone version or accessed online through a user-friendly web interface. The source code, user help and additional information is available at http://ribopicker.sourceforge.net/. CONTACT: rschmied@sciences.sdsu.edu; rschmied@sciences.sdsu.edu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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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.