ArticlePloS one2012
A genome-wide identification analysis of small regulatory RNAs in Mycobacterium tuberculosis by RNA-Seq and conservation analysis.
Article in PloS one, 2012. 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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Who cites it
29 citing papers in PubMed, 48 citations in OpenAlex.
- Transcriptome analysis and molecular characterization of novel small RNAs in Mycobacterium tuberculosis Lineage 1.World journal of microbiology & biotechnology · 2024Article
- Article
- Modulatory Impact of the sRNA Mcr11 in Two Clinical Isolates of Mycobacterium tuberculosis.Current microbiology · 2022Article
- Small RNAs Asserting Big Roles in Mycobacteria.Non-coding RNA · 2021Review
- Small Noncoding RNAs and Their Role in the Pathogenesis of Mycobacterium tuberculosis Infection.Biochemistry. Biokhimiia · 2021Review
- sncRNA-1 Is a Small Noncoding RNA Produced byFrontiers in microbiology · 2020Article
- Structure and functional implications of WYL domain-containing bacterial DNA damage response regulator PafBC.Nature communications · 2019Article
- Application of Transcriptomics to Enhance Early Diagnostics of Mycobacterial Infections, with an Emphasis onVeterinary sciences · 2019Review
- Characterisation of genes differentially expressed in macrophages by virulent and attenuated Mycobacterium tuberculosis through RNA-Seq analysis.Scientific reports · 2019Article
- Article
- A Genome-Wide Prediction and Identification of Intergenic Small RNAs by Comparative Analysis inFrontiers in microbiology · 2017Article
- Expression, maturation and turnover of DrrS, an unusually stable, DosR regulated small RNA in Mycobacterium tuberculosis.PloS one · 2017Article
- Analysis of Small RNAs in Streptococcus mutans under Acid Stress-A New Insight for Caries Research.International journal of molecular sciences · 2016Article
- An automated approach for global identification of sRNA-encoding regions in RNA-Seq data from Mycobacterium tuberculosis.Acta biochimica et biophysica Sinica · 2016Article
- RNA-Seq analysis uncovers non-coding small RNA system of Mycobacterium neoaurum in the metabolism of sterols to accumulate steroid intermediates.Microbial cell factories · 2016Article
- Dormant non-culturable Mycobacterium tuberculosis retains stable low-abundant mRNA.BMC genomics · 2015Article
- Article
- Genome-wide analyses in bacteria show small-RNA enrichment for long and conserved intergenic regions.Journal of bacteriology · 2015Article
- Small RNAs in mycobacteria: an unfolding story.Frontiers in cellular and infection microbiology · 2014Review
- Deep sequencing-based identification of small regulatory RNAs in Synechocystis sp. PCC 6803.PloS one · 2014Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We propose a new method for smallRNAs (sRNAs) identification. First we build an effective target genome (ETG) by means of a strand-specific procedure. Then we propose a new bioinformatic pipeline based mainly on the combination of two types of information: the first provides an expression map based on RNA-seq data (Reads Map) and the second applies principles of comparative genomics leading to a Conservation Map. By superimposing these two maps, a robust method for the search of sRNAs is obtained. We apply this methodology to investigate sRNAs in Mycobacterium tuberculosis H37Rv. This bioinformatic procedure leads to a total list of 1948 candidate sRNAs. The size of the candidate list is strictly related to the aim of the study and to the technology used during the verification process. We provide performance measures of the algorithm in identifying annotated sRNAs reported in three recent published studies.
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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.