| scholarly article | Q13442814 |
| P2093 | author name string | J Vogel | |
| E G Wagner | |||
| G Bejerano | |||
| H Margalit | |||
| L Argaman | |||
| R Hershberg | |||
| S Altuvia | |||
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| P433 | issue | 12 | |
| P407 | language of work or name | English | Q1860 |
| P921 | main subject | Escherichia coli | Q25419 |
| P304 | page(s) | 941-50 | |
| P577 | publication date | 2001-06-26 | |
| P1433 | published in | Current Biology | Q1144851 |
| P1476 | title | Novel small RNA-encoding genes in the intergenic regions of Escherichia coli | |
| P478 | volume | 11 |
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| Q34296188 | A complex network of small non-coding RNAs regulate motility in Escherichia coli |
| Q28255704 | A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD |
| Q34040392 | A eukaryotic-like 3' untranslated region in Salmonella enterica hilD mRNA. |
| Q42578089 | A functional dlt operon, encoding proteins required for incorporation of d-alanine in teichoic acids in gram-positive bacteria, confers resistance to cationic antimicrobial peptides in Streptococcus pneumoniae |
| Q28244233 | A genetic approach for finding small RNAs regulators of genes of interest identifies RybC as regulating the DpiA/DpiB two-component system |
| Q34217325 | A genome-wide identification analysis of small regulatory RNAs in Mycobacterium tuberculosis by RNA-Seq and conservation analysis |
| Q28535217 | A genome-wide survey of highly expressed non-coding RNAs and biological validation of selected candidates in Agrobacterium tumefaciens |
| Q21093388 | A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti |
| Q29346565 | A high-throughput method to examine protein-nucleotide interactions identifies targets of the bacterial transcriptional regulatory protein fur. |
| Q44904086 | A multiobjective method for robust identification of bacterial small non-coding RNAs. |
| Q35035818 | A novel antisense RNA from the Salmonella virulence plasmid pSLT expressed by non-growing bacteria inside eukaryotic cells |
| Q24678523 | A novel fur- and iron-regulated small RNA, NrrF, is required for indirect fur-mediated regulation of the sdhA and sdhC genes in Neisseria meningitidis |
| Q42636436 | A novel hypoxic stress-responsive long non-coding RNA transcribed by RNA polymerase III in Arabidopsis |
| Q24791931 | A novel method for prokaryotic promoter prediction based on DNA stability |
| Q34198430 | A novel unanticipated type of pseudouridine synthase with homologs in bacteria, archaea, and eukarya |
| Q24654043 | A pH-responsive riboregulator |
| Q34779533 | A simple and efficient method to search for selected primary transcripts: non-coding and antisense RNAs in the human pathogen Enterococcus faecalis |
| Q42883177 | A small RNA activates CFA synthase by isoform-specific mRNA stabilization |
| Q31146213 | A small RNA encoded in the Rv2660c locus of Mycobacterium tuberculosis is induced during starvation and infection |
| Q24672099 | A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements inside and upstream of ribosome-binding sites |
| Q24536169 | A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli |
| Q35854632 | A small RNA that regulates motility and biofilm formation in response to changes in nutrient availability in Escherichia coli. |
| Q28299894 | A small bacterial RNA regulates a putative ABC transporter |
| Q34707860 | A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome |
| Q24684021 | A survey of small RNA-encoding genes in Escherichia coli |
| Q92420221 | APERO: a genome-wide approach for identifying bacterial small RNAs from RNA-Seq data |
| Q34145427 | Acis-Encoded Antisense Small RNA Regulated by the HP0165-HP0166 Two-Component System Controls Expression ofureBinHelicobacter pylori |
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| Q33361659 | Airpnp: Auto- and Integrated Regulation of Polynucleotide Phosphorylase. |
| Q28655783 | Alkane Biosynthesis Genes in Cyanobacteria and Their Transcriptional Organization |
| Q42132536 | An RpoS-dependent sRNA regulates the expression of a chaperone involved in protein folding |
| Q39678997 | An antisense RNA-mediated transcriptional attenuation mechanism functions in Escherichia coli |
| Q34033315 | An atlas of Hfq-bound transcripts reveals 3' UTRs as a genomic reservoir of regulatory small RNAs |
| Q34238067 | An in silico model for identification of small RNAs in whole bacterial genomes: characterization of antisense RNAs in pathogenic Escherichia coli and Streptococcus agalactiae strains |
| Q28235324 | An integrated approach for finding overlooked genes in Shigella |
| Q24547055 | An internal antisense RNA regulates expression of the photosynthesis gene isiA |
| Q46151936 | Analyses of mRNA destabilization and translational inhibition mediated by Hfq-binding small RNAs |
| Q58606297 | Analysis Suggests Common Appearance of scaRNAs in Type II Systems and Their Association With Bacterial Virulence |
| Q34864846 | Analysis of Escherichia coli RNase E and RNase III activity in vivo using tiling microarrays |
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| Q74238208 | Antisense RNAs everywhere? |
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| Q31147226 | Antisense transcripts with FANTOM2 clone set and their implications for gene regulation |
| Q34129310 | Antisense-RNA regulation and RNA interference |
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| Q35749698 | Automated parallel isolation of multiple species of non-coding RNAs by the reciprocal circulating chromatography method |
| Q60936628 | Bacterial Small RNAs in the Genus spp |
| Q34537427 | Bacterial antisense RNAs: how many are there, and what are they doing? |
| Q37389545 | Bacterial chromosome-encoded small regulatory RNAs |
| Q35872000 | Bacterial small RNAs in the Genus Rickettsia |
| Q34587370 | Bacterial/archaeal/organellar polyadenylation |
| Q24791802 | Beyond the proteome: non-coding regulatory RNAs |
| Q21263182 | Biocomputational prediction of small non-coding RNAs in Streptomyces |
| Q24599020 | Biological functions and biogenesis of secreted bacterial outer membrane vesicles |
| Q34762383 | Cell wall stress activates expression of a novel stress response facilitator (SrfA) under σ22 (AlgT/U) control in Pseudomonas aeruginosa |
| Q21562607 | Cellular electron microscopy imaging reveals the localization of the Hfq protein close to the bacterial membrane |
| Q34264478 | Challenging the dogma: the hidden layer of non‐protein‐coding RNAs in complex organisms |
| Q34713695 | Change is good: variations in common biological mechanisms in the epsilonproteobacterial genera Campylobacter and Helicobacter |
| Q34752034 | Characterization of 582 natural and synthetic terminators and quantification of their design constraints |
| Q46449462 | Characterization of the micA gene encoding a small regulatory σE-dependent RNA in Salmonella enterica serovar Typhimurium |
| Q42059829 | Characterization of the role of ribonucleases in Salmonella small RNA decay |
| Q28254721 | Characterization of the small untranslated RNA RyhB and its regulon in Vibrio cholerae |
| Q47142216 | Chromosomal Targeting by the Type III-A CRISPR-Cas System Can Reshape Genomes in Staphylococcus aureus |
| Q34240883 | Clostridium difficile Hfq can replace Escherichia coli Hfq for most of its function |
| Q28252581 | Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation |
| Q33288607 | Combined experimental and computational approach to identify non-protein-coding RNAs in the deep-branching eukaryote Giardia intestinalis |
| Q34942970 | Comparative analysis of non-coding RNAs in the antibiotic-producing Streptomyces bacteria |
| Q34388505 | Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling |
| Q24621557 | Comparative genomics boosts target prediction for bacterial small RNAs |
| Q37151759 | Complex transcriptional and post-transcriptional regulation of an enzyme for lipopolysaccharide modification |
| Q28686251 | Computational analysis of bacterial RNA-Seq data |
| Q38217501 | Computational analysis of conserved RNA secondary structure in transcriptomes and genomes |
| Q34105562 | Computational analysis of riboswitch-based regulation |
| Q44932493 | Computational approaches for the discovery of bacterial small RNAs |
| Q38007394 | Computational approaches to discovering noncoding RNA. |
| Q34530574 | Computational discovery and RT-PCR validation of novel Burkholderia conserved and Burkholderia pseudomallei unique sRNAs |
| Q34635306 | Computational genomics of noncoding RNA genes |
| Q24680567 | Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics |
| Q28216022 | Computational identification of noncoding RNAs in E. coli by comparative genomics |
| Q43092801 | Computational prediction of microRNAs encoded in viral and other genomes. |
| Q38091663 | Computational small RNA prediction in bacteria |
| Q41962413 | Conservation and Occurrence of Trans-Encoded sRNAs in the Rhizobiales |
| Q33270966 | Considerations in the identification of functional RNA structural elements in genomic alignments |
| Q41845831 | Construction of an rsmX co-variance model and identification of five rsmX non-coding RNAs in Pseudomonas syringae pv. tomato DC3000. |
| Q48184769 | Contribution of bacterial promoter elements to transcription start site detection accuracy. |
| Q28286135 | Control of Fur synthesis by the non-coding RNA RyhB and iron-responsive decoding |
| Q54257865 | Controlled branched-chain amino acids auxotrophy in Listeria monocytogenes allows isoleucine to serve as a host signal and virulence effector. |
| Q91594621 | Coordinate regulation of the expression of SdsR toxin and its downstream pphA gene by RyeA antitoxin in Escherichia coli |
| Q33784837 | Coxiella burnetii transcriptional analysis reveals serendipity clusters of regulation in intracellular bacteria |
| Q34324601 | CrcZ and CrcX regulate carbon source utilization in Pseudomonas syringae pathovar tomato strain DC3000 |
| Q24612172 | CrfA, a small noncoding RNA regulator of adaptation to carbon starvation in Caulobacter crescentus |
| Q38087172 | Cycling of RNAs on Hfq. |
| Q37411754 | De novo computational prediction of non-coding RNA genes in prokaryotic genomes |
| Q21145046 | Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq |
| Q34001909 | Deep sequencing reveals as-yet-undiscovered small RNAs in Escherichia coli |
| Q37736367 | Depleting Mycobacterium tuberculosis of the transcription termination factor Rho causes pervasive transcription and rapid death |
| Q47194252 | Design rules of synthetic non-coding RNAs in bacteria |
| Q24556624 | Detection of 5'- and 3'-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli |
| Q33237759 | Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change |
| Q49923834 | Determination of the small RNA GcvB regulon in the Gram-negative bacterial pathogen Pasteurella multocida and identification of the GcvB seed binding region. |
| Q35668989 | Differential RNA-seq (dRNA-seq) for annotation of transcriptional start sites and small RNAs in Helicobacter pylori. |
| Q34504665 | Differential expression of small RNAs under chemical stress and fed-batch fermentation in E. coli |
| Q36293132 | Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq - ryhB encodes the regulatory RNA RyhB and a peptide, RyhP |
| Q36357793 | Discovery of Fur binding site clusters in Escherichia coli by information theory models. |
| Q34508819 | Disruption of small RNA signaling caused by competition for Hfq. |
| Q36112351 | Disruption of the carA gene in Pseudomonas syringae results in reduced fitness and alters motility |
| Q46163042 | Distribution of the MCS4 RNA genes in mycoplasmas belonging to the Mycoplasma mycoides cluster |
| Q41498041 | Divergence of functional effects among bacterial sRNA paralogs |
| Q36833010 | DsbA and MgrB regulate steA expression through the two-component system PhoQ/PhoP in Salmonella enterica |
| Q38983056 | Dual-function small regulatory RNAs in bacteria |
| Q37249990 | Dynamic features of gene expression control by small regulatory RNAs. |
| Q39396236 | Dynamics of Salmonella small RNA expression in non-growing bacteria located inside eukaryotic cells |
| Q31033377 | EcoBrowser: a web-based tool for visualizing transcriptome data of Escherichia coli |
| Q34157196 | Effect of periodontal pathogens on the metatranscriptome of a healthy multispecies biofilm model |
| Q51532630 | Efficient transcription initiation in bacteria: an interplay of protein-DNA interaction parameters. |
| Q35164024 | Emerging themes in manganese transport, biochemistry and pathogenesis in bacteria |
| Q38092220 | Envelope control of outer membrane vesicle production in Gram-negative bacteria |
| Q26765871 | Environmental Regulation of Yersinia Pathophysiology |
| Q39749470 | Epidemiology and virulence insights from MRSA and MSSA genome analysis |
| Q54376808 | Escherichia coli glycogen genes are organized in a single glgBXCAP transcriptional unit possessing an alternative suboperonic promoter within glgC that directs glgAP expression. |
| Q34206788 | Evolution of the metabolic and regulatory networks associated with oxygen availability in two phytopathogenic enterobacteria |
| Q35867666 | Evolutionary dynamics of small RNAs in 27 Escherichia coli and Shigella genomes |
| Q56272004 | Evolutionary patterns of non-coding RNAs |
| Q39758764 | Experimental and computational analysis of transcriptional start sites in the cyanobacterium Prochlorococcus MED4. |
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| Q27024583 | Experimental approaches to identify small RNAs and their diverse roles in bacteria--what we have learnt in one decade of MicA research |
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| Q24622806 | Experimental discovery of small RNAs in Staphylococcus aureus reveals a riboregulator of central metabolism |
| Q33575820 | Experimental identification and characterization of 97 novel npcRNA candidates in Salmonella enterica serovar Typhi |
| Q43932569 | Experimental identification of small non-coding regulatory RNAs in the opportunistic human pathogen Burkholderia cenocepacia J2315. |
| Q36316484 | Expression, maturation and turnover of DrrS, an unusually stable, DosR regulated small RNA in Mycobacterium tuberculosis |
| Q28247175 | Feedback control of glucosamine-6-phosphate synthase GlmS expression depends on the small RNA GlmZ and involves the novel protein YhbJ in Escherichia coli |
| Q42187000 | First insights into the unexplored two-component system YehU/YehT in Escherichia coli |
| Q29541839 | From conformational chaos to robust regulation: the structure and function of the multi-enzyme RNA degradosome |
| Q90400843 | Functional Characterization of a Global Virulence Regulator Hfq and Identification of Hfq-Dependent sRNAs in the Plant Pathogen Pantoea ananatis |
| Q28584594 | Functional and Structural Analysis of a Highly-Expressed Yersinia pestis Small RNA following Infection of Cultured Macrophages |
| Q34593209 | Functional and structural analysis of HicA3-HicB3, a novel toxin-antitoxin system of Yersinia pestis |
| Q36397172 | Fur-mediated global regulatory circuits in pathogenic Neisseria species. |
| Q24563573 | GadY, a small-RNA regulator of acid response genes in Escherichia coli |
| Q28768627 | Genes for small, noncoding RNAs under sporulation control in Bacillus subtilis |
| Q36768126 | Genetic control by cis-acting regulatory RNAs in Bacillus subtilis: general principles and prospects for discovery |
| Q33799810 | Genome-Wide Detection of Small Regulatory RNAs in Deep-Sea Bacterium Shewanella piezotolerans WP3 |
| Q34888345 | Genome-wide analyses in bacteria show small-RNA enrichment for long and conserved intergenic regions |
| Q34404708 | Genome-wide analysis of small RNAs expressed by Yersinia pestis identifies a regulator of the Yop-Ysc type III secretion system |
| Q33864638 | Genome-wide analysis of the regulatory function mediated by the small regulatory psm-mec RNA of methicillin-resistant Staphylococcus aureus |
| Q34191891 | Genome-wide detection of novel regulatory RNAs in E. coli |
| Q33525404 | Genome-wide detection of predicted non-coding RNAs in Rhizobium etli expressed during free-living and host-associated growth using a high-resolution tiling array |
| Q28241086 | Genome-wide identification of Hfq-regulated small RNAs in the fire blight pathogen Erwinia amylovora discovered small RNAs with virulence regulatory function |
| Q95778916 | Genome-wide search reveals a novel GacA-regulated small RNA in Pseudomonas species |
| Q24563506 | Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome |
| Q24618137 | Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions |
| Q30401150 | Genomes of the most dangerous epidemic bacteria have a virulence repertoire characterized by fewer genes but more toxin-antitoxin modules |
| Q24633132 | Genomic SELEX for Hfq-binding RNAs identifies genomic aptamers predominantly in antisense transcripts |
| Q41926065 | Global Mapping of Small RNA-Target Interactions in Bacteria |
| Q33654823 | Global gene expression analysis of long-term stationary phase effects in E. coli K12 MG1655 |
| Q37735533 | Global mapping transcriptional start sites revealed both transcriptional and post-transcriptional regulation of cold adaptation in the methanogenic archaeon Methanolobus psychrophilus |
| Q39163563 | Growth Phase-dependent Variation of RNase BN/Z Affects Small RNAs: REGULATION OF 6S RNA. |
| Q91935778 | Hfq Globally Binds and Destabilizes sRNAs and mRNAs in Yersinia pestis |
| Q35164605 | Hfq affects the length and the frequency of short oligo(A) tails at the 3' end of Escherichia coli rpsO mRNAs |
| Q50030594 | Hfq and Hfq-dependent small RNAs are major contributors to multicellular development in Salmonella enterica serovar Typhimurium |
| Q29615791 | Hfq and its constellation of RNA |
| Q64067281 | Hfq-dependent mRNA unfolding promotes sRNA-based inhibition of translation |
| Q24536474 | Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA. |
| Q90044685 | Hierarchy in Hfq Chaperon Occupancy of Small RNA Targets Plays a Major Role in Their Regulation |
| Q33369087 | High-throughput, kingdom-wide prediction and annotation of bacterial non-coding RNAs |
| Q35620619 | How do base-pairing small RNAs evolve? |
| Q34473835 | How to find small non-coding RNAs in bacteria |
| Q34089873 | HrrF is the Fur-regulated small RNA in nontypeable Haemophilus influenzae |
| Q34342486 | Identification and characterization of a cis-encoded antisense RNA associated with the replication process of Salmonella enterica serovar Typhi |
| Q24621796 | Identification and functional characterization of small non-coding RNAs in Xanthomonas oryzae pathovar oryzae |
| Q42377413 | Identification of 15 candidate structured noncoding RNA motifs in fungi by comparative genomics |
| Q24685579 | Identification of 17 Pseudomonas aeruginosa sRNAs and prediction of sRNA-encoding genes in 10 diverse pathogens using the bioinformatic tool sRNAPredict2 |
| Q24530580 | Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus. |
| Q57817952 | Identification of a Novel Small RNA in ZJ-T and Its Characterization With Phenotype MicroArray Technology |
| Q24677345 | Identification of a large noncoding RNA in extremophilic eubacteria |
| Q21263198 | Identification of chromosomal alpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobium meliloti strain 1021 |
| Q21092872 | Identification of cyanobacterial non-coding RNAs by comparative genome analysis |
| Q24653390 | Identification of differentially expressed small non-coding RNAs in the legume endosymbiont Sinorhizobium meliloti by comparative genomics |
| Q33530853 | Identification of differentially expressed small non-protein-coding RNAs in Staphylococcus aureus displaying both the normal and the small-colony variant phenotype |
| Q38619515 | Identification of new genes in Sinorhizobium meliloti using the Genome Sequencer FLX system |
| Q24684824 | Identification of new noncoding RNAs in Listeria monocytogenes and prediction of mRNA targets |
| Q36164568 | Identification of novel sRNAs involved in biofilm formation, motility, and fimbriae formation in Escherichia coli |
| Q34425836 | Identification of novel small RNAs and characterization of the 6S RNA of Coxiella burnetii |
| Q24601229 | Identification of novel small RNAs using comparative genomics and microarrays |
| Q28181005 | Identification of putative noncoding RNAs among the RIKEN mouse full-length cDNA collection |
| Q24548795 | Identification of small Hfq-binding RNAs in Listeria monocytogenes |
| Q24651584 | Identification of small RNAs in Mycobacterium tuberculosis |
| Q54411459 | Identification of small noncoding RNAs in Helicobacter pylori by a bioinformatics-based approach. |
| Q24561961 | Identification of tandem duplicate regulatory small RNAs in Pseudomonas aeruginosa involved in iron homeostasis |
| Q34740470 | Identifying and characterizing Hfq-RNA interactions |
| Q47102732 | Impact of bacterial sRNAs in stress responses. |
| Q57039543 | In silico 'fishing' using known small regulatory RNA (sRNA) candidates as the decoy from Escherichia coli, Salmonella typhi and Salmonella typhimurium manifested 14 novel sRNA candidates in the orthologous region of Proteus mirabilis |
| Q35120775 | In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements |
| Q34026223 | In vivo mRNA profiling of uropathogenic Escherichia coli from diverse phylogroups reveals common and group-specific gene expression profiles |
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| Q40631587 | Inhibition of Phagocytic Killing of Escherichia coli in Drosophila Hemocytes by RNA Chaperone Hfq. |
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| Q38199289 | Ménage à trois: post-transcriptional control of the key enzyme for cell envelope synthesis by a base-pairing small RNA, an RNase adaptor protein, and a small RNA mimic |
| Q36901756 | New developments in post-transcriptional regulation of operons by small RNAs |
| Q38062722 | New type I toxin-antitoxin families from "wild" and laboratory strains of E. coli: Ibs-Sib, ShoB-OhsC and Zor-Orz |
| Q28727945 | Non-coding RNA and its potential role in Mycobacterium tuberculosis pathogenesis |
| Q24530589 | Noncoding RNA genes identified in AT-rich hyperthermophiles |
| Q35159531 | Noncoding regulatory RNAs database |
| Q22122367 | Non–coding RNA genes and the modern RNA world |
| Q37543423 | Novel RpoS-Dependent Mechanisms Strengthen the Envelope Permeability Barrier during Stationary Phase |
| Q28755945 | Novel long non-protein coding RNAs involved in Arabidopsis differentiation and stress responses |
| Q24562310 | Novel non-coding RNAs in Dictyostelium discoideum and their expression during development |
| Q34389899 | NrsZ: a novel, processed, nitrogen-dependent, small non-coding RNA that regulates Pseudomonas aeruginosa PAO1 virulence |
| Q89824505 | On a stake-out: Mycobacterial small RNA identification and regulation |
| Q37735074 | Organization and expression of the polynucleotide phosphorylase gene (pnp) of Streptomyces: Processing of pnp transcripts in Streptomyces antibioticus |
| Q92867207 | Outer Membrane Porins |
| Q33259655 | Oxygen limitation modulates pH regulation of catabolism and hydrogenases, multidrug transporters, and envelope composition in Escherichia coli K-12. |
| Q37661752 | POGO-DB--a database of pairwise-comparisons of genomes and conserved orthologous genes |
| Q34365956 | Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification |
| Q43576806 | Pervasive post-transcriptional control of genes involved in amino acid metabolism by the Hfq-dependent GcvB small RNA. |
| Q37392501 | Poly(A)-assisted RNA decay and modulators of RNA stability |
| Q34006620 | Positive regulation by small RNAs and the role of Hfq |
| Q46254732 | Positive regulation of psbA gene expression by cis-encoded antisense RNAs in Synechocystis sp. PCC 6803. |
| Q36386026 | Post-transcriptional regulation of gene expression in Yersinia species |
| Q34564953 | Posttranscriptional control of the Salmonella enterica flagellar hook protein FlgE |
| Q50079191 | Predicting antisense RNAs in the genomes of Escherichia coli and Salmonella typhimurium using promoter-search algorithm PlatProm |
| Q24810301 | Predicting non-coding RNA genes in Escherichia coli with boosted genetic programming |
| Q37318569 | Predicting sRNAs and their targets in bacteria |
| Q34716327 | Prediction of CsrA-regulating small RNAs in bacteria and their experimental verification in Vibrio fischeri |
| Q27496618 | Prediction of Sinorhizobium meliloti sRNA genes and experimental detection in strain 2011 |
| Q38638667 | Prediction of bacterial small RNAs in the RsmA (CsrA) and ToxT pathways: a machine learning approach |
| Q41170399 | Prediction of candidate small non-coding RNAs in Agrobacterium by computational analysis |
| Q31105323 | Prediction of small, noncoding RNAs in bacteria using heterogeneous data |
| Q42120575 | Proteome-wide alterations in Escherichia coli translation rates upon anaerobiosis. |
| Q28469313 | Quantitative characteristics of gene regulation by small RNA |
| Q35012331 | RNA loop-loop interactions as dynamic functional motifs. |
| Q35766845 | RNA regulation: a new genetics? |
| Q37309280 | RNA switches regulate initiation of translation in bacteria. |
| Q36153900 | RNA-Seq of Borrelia burgdorferi in Multiple Phases of Growth Reveals Insights into the Dynamics of Gene Expression, Transcriptome Architecture, and Noncoding RNAs |
| Q89975694 | RNA-Sequencing Analyses of Small Bacterial RNAs and their Emergence as Virulence Factors in Host-Pathogen Interactions |
| Q35161552 | RNA-mediated control of virulence gene expression in bacterial pathogens |
| Q37122347 | RNA-mediated regulation in pathogenic bacteria |
| Q34749879 | RNA-protein interactions |
| Q35839664 | RNA-seq Brings New Insights to the Intra-Macrophage Transcriptome of Salmonella Typhimurium |
| Q24684056 | RNase E-dependent processing stabilizes MicX, a Vibrio cholerae sRNA |
| Q34538123 | RNase III participates in GadY-dependent cleavage of the gadX-gadW mRNA. |
| Q24641843 | RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria |
| Q35019396 | RNomics: identification and function of small, non-messenger RNAs |
| Q24648763 | RSEARCH: finding homologs of single structured RNA sequences |
| Q28658954 | RalR (a DNase) and RalA (a small RNA) form a type I toxin-antitoxin system in Escherichia coli |
| Q37111565 | RaoN, a small RNA encoded within Salmonella pathogenicity island-11, confers resistance to macrophage-induced stress |
| Q46900805 | RbrA, a cyanobacterial rubrerythrin, functions as a FNR-dependent peroxidase in heterocysts in protection of nitrogenase from damage by hydrogen peroxide in Anabaena sp. PCC 7120. |
| Q24603059 | Recognition and discrimination of target mRNAs by Sib RNAs, a cis-encoded sRNA family |
| Q26776000 | Regulated Control of the Assembly and Diversity of LPS by Noncoding sRNAs |
| Q37906535 | Regulating iron storage and metabolism with RNA: an overview of posttranscriptional controls of intracellular iron homeostasis |
| Q35624262 | Regulation by RNA. |
| Q40605925 | Regulation of 6S RNA biogenesis by switching utilization of both sigma factors and endoribonucleases |
| Q40047509 | Regulation of Neisseria meningitidis cytochrome bc1 components by NrrF, a Fur-controlled small noncoding RNA. |
| Q38374770 | Regulation of gene expression: cryptic β-glucoside (bgl) operon of Escherichia coli as a paradigm |
| Q40544974 | Regulation of the chitin degradation and utilization system by the ChiX small RNA in Serratia marcescens 2170. |
| Q24538798 | Regulatory RNA as mediator in GacA/RsmA-dependent global control of exoproduct formation in Pseudomonas fluorescens CHA0 |
| Q34194972 | Regulatory roles for small RNAs in bacteria |
| Q40175884 | Regulatory small RNAs: the key to coordinating global regulatory circuits |
| Q35849677 | RelA protein stimulates the activity of RyhB small RNA by acting on RNA-binding protein Hfq. |
| Q28287313 | Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs |
| Q24648490 | Repression of small toxic protein synthesis by the Sib and OhsC small RNAs |
| Q24606364 | Reprogramming of anaerobic metabolism by the FnrS small RNA |
| Q36903028 | Rho GTPase-activating bacterial toxins: from bacterial virulence regulation to eukaryotic cell biology |
| Q34452446 | Rho-dependent termination of ssrS (6S RNA) transcription in Escherichia coli: implication for 3' processing of 6S RNA and expression of downstream ygfA (putative 5-formyl-tetrahydrofolate cyclo-ligase). |
| Q26769016 | Riboregulation of bacterial and archaeal transposition |
| Q34985832 | Role of polynucleotide phosphorylase in sRNA function in Escherichia coli |
| Q41432718 | Role of the terminator hairpin in the biogenesis of functional Hfq-binding sRNAs |
| Q37608634 | Roles of rpoS-activating small RNAs in pathways leading to acid resistance of Escherichia coli. |
| Q24653055 | S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum |
| Q54347047 | Search for poly(A) polymerase targets in E. coli reveals its implication in surveillance of Glu tRNA processing and degradation of stable RNAs. |
| Q39600661 | Searching for RNA genes using base-composition statistics |
| Q21131292 | Sibling rivalry: related bacterial small RNAs and their redundant and non-redundant roles |
| Q24684061 | Sigma E controls biogenesis of the antisense RNA MicA |
| Q33281445 | SigmaE regulates and is regulated by a small RNA in Escherichia coli |
| Q24669800 | SigmaE-dependent small RNAs of Salmonella respond to membrane stress by accelerating global omp mRNA decay |
| Q28220384 | Signal transduction and regulatory mechanisms involved in control of the sigma(S) (RpoS) subunit of RNA polymerase |
| Q37639617 | Small Antisense RNA RblR Positively Regulates RuBisCo in Synechocystis sp. PCC 6803 |
| Q35696021 | Small RNA Transcriptome of the Oral Microbiome during Periodontitis Progression |
| Q28727846 | Small RNA binding to the lateral surface of Hfq hexamers and structural rearrangements upon mRNA target recognition |
| Q34332016 | Small RNA expression profiling by high-throughput sequencing: implications of enzymatic manipulation |
| Q28284168 | Small RNA modules confer different stabilities and interact differently with multiple targets |
| Q36668567 | Small RNA regulators and the bacterial response to stress |
| Q35133724 | Small RNA regulators of translation: mechanisms of action and approaches for identifying new small RNAs. |
| Q36008348 | Small RNA-based feedforward loop with AND-gate logic regulates extrachromosomal DNA transfer in Salmonella |
| Q24649054 | Small RNA-induced differential degradation of the polycistronic mRNA iscRSUA |
| Q24641915 | Small RNAs encoded within genetic islands of Salmonella typhimurium show host-induced expression and role in virulence |
| Q26998827 | Small RNAs for defence and regulation in archaea |
| Q97518411 | Small RNAs in Outer Membrane Vesicles and Their Function in Host-Microbe Interactions |
| Q33944543 | Small RNAs in mycobacteria: an unfolding story |
| Q38230079 | Small RNAs in the control of RpoS, CsgD, and biofilm architecture of Escherichia coli |
| Q34514381 | Small RNAs in the genus Clostridium |
| Q41295271 | Small RNAs regulating biofilm formation and outer membrane homeostasis |
| Q34765262 | Small non-coding RNAs in Caulobacter crescentus |
| Q42500644 | Small regulatory RNAs control the multi-cellular adhesive lifestyle of Escherichia coli. |
| Q39241496 | Small regulatory bacterial RNAs regulating the envelope stress response |
| Q24650967 | Small toxic proteins and the antisense RNAs that repress them |
| Q39579428 | Small transcriptome analysis indicates that the enzyme RppH influences both the quality and quantity of sRNAs in Neisseria gonorrhoeae |
| Q24534047 | Small untranslated RNA antitoxin in Bacillus subtilis |
| Q24674172 | Spot 42 RNA mediates discoordinate expression of the E. coli galactose operon |
| Q50958888 | Stress-responsively modulated ymdAB-clsC operon plays a role in biofilm formation and apramycin susceptibility in Escherichia coli. |
| Q24672793 | Structural analysis of aligned RNAs |
| Q35553899 | Structure and functional properties of prokaryotic small noncoding RNAs |
| Q41007693 | Studying RNA Homology and Conservation with Infernal: From Single Sequences to RNA Families |
| Q40028342 | Superfolder GFP reporters validate diverse new mRNA targets of the classic porin regulator, MicF RNA. |
| Q90470293 | Switching fatty acid metabolism by an RNA-controlled feed forward loop |
| Q34483390 | Synergies between RNA degradation and trans-translation in Streptococcus pneumoniae: cross regulation and co-transcription of RNase R and SmpB. |
| Q28286931 | Targeted decay of a regulatory small RNA by an adaptor protein for RNase E and counteraction by an anti-adaptor RNA |
| Q28260482 | Targeting of csgD by the small regulatory RNA RprA links stationary phase, biofilm formation and cell envelope stress in Escherichia coli |
| Q31145113 | The Clostridium small RNome that responds to stress: the paradigm and importance of toxic metabolite stress in C. acetobutylicum |
| Q37051352 | The Crp-activated small noncoding regulatory RNA CyaR (RyeE) links nutritional status to group behavior |
| Q34428089 | The Listeria Small RNA Rli27 Regulates a Cell Wall Protein inside Eukaryotic Cells by Targeting a Long 5'-UTR Variant |
| Q60922200 | The Major RNA-Binding Protein ProQ Impacts Virulence Gene Expression in Salmonella enterica Serovar Typhimurium |
| Q39326888 | The Small RNA GcvB Promotes Mutagenic Break Repair by Opposing the Membrane Stress Response |
| Q35833760 | The Staphylococcus aureus protein-coding gene gdpS modulates sarS expression via mRNA-mRNA interaction |
| Q30276541 | The Type Three Secretion System 2-Encoded Regulator EtrB Modulates Enterohemorrhagic Escherichia coli Virulence Gene Expression |
| Q92575973 | The Vc2 Cyclic di-GMP-Dependent Riboswitch of Vibrio cholerae Regulates Expression of an Upstream Putative Small RNA by Controlling RNA Stability |
| Q41844706 | The antisense RNA As1_flv4 in the Cyanobacterium Synechocystis sp. PCC 6803 prevents premature expression of the flv4-2 operon upon shift in inorganic carbon supply |
| Q21145045 | The challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus |
| Q54340513 | The csgD mRNA as a hub for signal integration via multiple small RNAs. |
| Q26852007 | The interplay of Hfq, poly(A) polymerase I and exoribonucleases at the 3' ends of RNAs resulting from Rho-independent termination: A tentative model |
| Q24672515 | The microRNAs of Caenorhabditis elegans |
| Q34497080 | The novel cis-encoded antisense RNA AsrC positively regulates the expression of rpoE-rseABC operon and thus enhances the motility of Salmonella enterica serovar typhi |
| Q34156086 | The phage lambda CII transcriptional activator carries a C-terminal domain signaling for rapid proteolysis |
| Q33910818 | The rocks and shallows of deep RNA sequencing: Examples in the Vibrio cholerae RNome |
| Q42428502 | The seed region of a small RNA drives the controlled destruction of the target mRNA by the endoribonuclease RNase E. |
| Q24655343 | The small RNA GcvB regulates sstT mRNA expression in Escherichia coli |
| Q24656262 | The small RNA GlmY acts upstream of the sRNA GlmZ in the activation of glmS expression and is subject to regulation by polyadenylation in Escherichia coli |
| Q36276342 | The small RNA RteR inhibits transfer of the Bacteroides conjugative transposon CTnDOT. |
| Q24598644 | The small RNA SgrS controls sugar-phosphate accumulation by regulating multiple PTS genes |
| Q39519699 | The small RNA SraG participates in PNPase homeostasis |
| Q57183085 | The small RNA, SdsR, acts as a novel type of toxin in Escherichia coli |
| Q21263115 | The small regulatory RNA molecule MicA is involved in Salmonella enterica serovar Typhimurium biofilm formation |
| Q34571457 | The small untranslated RNA SR1 from the Bacillus subtilis genome is involved in the regulation of arginine catabolism. |
| Q28277062 | The target spectrum of SdsR small RNA in Salmonella |
| Q34307929 | The toxin-antitoxin system tisB-istR1: Expression, regulation, and biological role in persister phenotypes |
| Q33809409 | The transposon-like Correia elements encode numerous strong promoters and provide a potential new mechanism for phase variation in the meningococcus. |
| Q33719984 | The tricarboxylic acid cycle in Shewanella oneidensis is independent of Fur and RyhB control |
| Q34043524 | The ubiquitous yybP-ykoY riboswitch is a manganese-responsive regulatory element |
| Q36767589 | The unmasking of 'junk' RNA reveals novel sRNAs: from processed RNA fragments to marooned riboswitches |
| Q40345257 | The β-glucoside (bgl) operon of Escherichia coli is involved in the regulation of oppA, encoding an oligopeptide transporter |
| Q47292286 | Thinking beside the box: Should we care about the non-coding strand of the 16S rRNA gene? |
| Q28075865 | Tools for Sequence-Based miRNA Target Prediction: What to Choose? |
| Q90657919 | Trans-Acting Small RNAs and Their Effects on Gene Expression in Escherichia coli and Salmonella enterica |
| Q35096115 | Transcription antitermination by a phosphorylated response regulator and cobalamin-dependent termination at a B₁₂ riboswitch contribute to ethanolamine utilization in Enterococcus faecalis |
| Q34561876 | Transcription of a cis-acting, noncoding, small RNA is required for pilin antigenic variation in Neisseria gonorrhoeae |
| Q34595887 | Transcription of the Streptococcus pyogenes hyaluronic acid capsule biosynthesis operon is regulated by previously unknown upstream elements |
| Q35759763 | Transcription termination within the iron transport-biosynthesis operon of Vibrio anguillarum requires an antisense RNA |
| Q21091098 | Transcriptional and Post-Transcriptional Regulation of the Escherichia coli luxS mRNA; Involvement of the sRNA MicA |
| Q24537785 | Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays |
| Q24629334 | Transcriptome analysis of Pseudomonas syringae identifies new genes, noncoding RNAs, and antisense activity |
| Q28727915 | Transcriptome profile of a bovine respiratory disease pathogen: Mannheimia haemolytica PHL213 |
| Q42078848 | Transcriptomic analysis of Escherichia coli O157:H7 and K-12 cultures exposed to inorganic and organic acids in stationary phase reveals acidulant- and strain-specific acid tolerance responses |
| Q42140013 | Translational autocontrol of the Escherichia coli hfq RNA chaperone gene |
| Q24684847 | Translational control and target recognition by Escherichia coli small RNAs in vivo |
| Q35073334 | Transmission of an oxygen availability signal at the Salmonella enterica serovar Typhimurium fis promoter |
| Q92732858 | Trouble is coming: Signaling pathways that regulate general stress responses in bacteria |
| Q28290812 | Turn-over of the small non-coding RNA RprA in E. coli is influenced by osmolarity |
| Q24633959 | Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis |
| Q21145881 | Two seemingly homologous noncoding RNAs act hierarchically to activate glmS mRNA translation |
| Q26781380 | Yersinia pestis and Yersinia pseudotuberculosis infection: a regulatory RNA perspective |
| Q59793816 | miRTrace reveals the organismal origins of microRNA sequencing data |
| Q33554062 | pH regulates genes for flagellar motility, catabolism, and oxidative stress in Escherichia coli K-12. |
| Q38237093 | sRNA antitoxins: more than one way to repress a toxin |
| Q41207283 | sRNA-Mediated Control of Transcription Termination in E. coli |
| Q37202654 | sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes |
| Q24532860 | sRNAPredict: an integrative computational approach to identify sRNAs in bacterial genomes |
| Q24597091 | sRNAs and the virulence of Salmonella enterica serovar Typhimurium |
| Q33654291 | sRNAscanner: a computational tool for intergenic small RNA detection in bacterial genomes |
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