ReviewMethods (San Diego, Calif.)2010
Genomic SELEX: a discovery tool for genomic aptamers.
Review in Methods (San Diego, Calif.), 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 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
29 citing papers in PubMed, 63 citations in OpenAlex.
- Comprehensive mapping of transcription terminator Rho utilization (Rut) sites across the Bacillus subtilis genome.Nucleic acids research · 2025Article
- Discovering riboswitches: the past and the future.Trends in biochemical sciences · 2023Review
- A scalable framework for the discovery of functional helicase substrates and helicase-driven regulatory switches.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Aptamers for Viral Detection and Inhibition.ACS infectious diseases · 2022Review
- Prokaryotic ncRNAs: Master regulators of gene expression.Current research in pharmacology and drug discovery · 2022Article
- Comparison of protein capture from a human cancer cell line by genomic G-quadruplex DNA sequences toward aptamer discovery.Analytical and bioanalytical chemistry · 2021Article
- Implementation of High-Throughput Sequencing (HTS) in Aptamer Selection Technology.International journal of molecular sciences · 2020Review
- Cataloguing and Selection of mRNAs Localized to Dendrites in Neurons and Regulated by RNA-Binding Proteins in RNA Granules.Biomolecules · 2020Review
- Aptamers in HIV research diagnosis and therapy.RNA biology · 2018Review
- Key Aspects of Nucleic Acid Library Design for in Vitro Selection.International journal of molecular sciences · 2018Review
- Recent advances in understanding the mechanisms of sexually dimorphic plasticity: insights from beetle weapons and future directions.Current opinion in insect science · 2018Review
- A bacterial three-hybrid assay detects Escherichia coli Hfq-sRNA interactions in vivo.Nucleic acids research · 2018Article
- Article
- Article
- Natural RNA Polymerase Aptamers Regulate Transcription in E. coli.Molecular cell · 2017Article
- A human microRNA precursor binding to folic acid discovered by small RNA transcriptomic SELEX.RNA (New York, N.Y.) · 2016Article
- Revealing protein-lncRNA interaction.Briefings in bioinformatics · 2016Review
- The OB-fold domain 1 of human POT1 recognizes both telomeric and non-telomeric DNA motifs.Biochimie · 2015Article
- Prostate-specific RNA aptamer: promising nucleic acid antibody-like cancer detection.Scientific reports · 2015Article
- Aptamer Selection Technology and Recent Advances.Molecular therapy. Nucleic acids · 2015Review
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genomic SELEX is a discovery tool for genomic aptamers, which are genomically encoded functional domains in nucleic acid molecules that recognize and bind specific ligands. When combined with genomic libraries and using RNA-binding proteins as baits, Genomic SELEX used with high-throughput sequencing enables the discovery of genomic RNA aptamers and the identification of RNA-protein interaction networks. Here we describe how to construct and analyze genomic libraries, how to choose baits for selections, how to perform the selection procedure and finally how to analyze the enriched sequences derived from deep sequencing. As a control procedure, we recommend performing a "Neutral" SELEX experiment in parallel to the selection, omitting the selection step. This control experiment provides a background signal for comparison with the positively selected pool. We also recommend deep sequencing the initial library in order to facilitate the final in silico analysis of enrichment with respect to the initial levels. Counter selection procedures, using modified or inactive baits, allow strengthening the binding specificity of the winning selected sequences.
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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.