An assessment of bacterial small RNA target prediction programs

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An assessment of bacterial small RNA target prediction programs is …
instance of (P31):
scholarly articleQ13442814
review articleQ7318358

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P356DOI10.1080/15476286.2015.1020269
P8608Fatcat IDrelease_kf2zki3qzrcyvn4znolxzzvf34
P932PMC publication ID4615726
P698PubMed publication ID25760244
P5875ResearchGate publication ID273469053

P50authorHamza AmineQ55030428
Philippe BoulocQ40532512
Tatiana RochatQ41904248
Daniel GautheretQ47141458
P2093author name stringAdrien Pain
Alban Ott
P2860cites workDeep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, HfqQ21145046
Fast and effective prediction of microRNA/target duplexesQ24537313
Secondary structure prediction of interacting RNA molecules.Q51980593
Fast folding and comparison of RNA secondary structuresQ56272105
fhlA repression by OxyS RNA: kissing complex formation at two sites results in a stable antisense-target RNA complexQ74027600
Partition function and base pairing probabilities of RNA heterodimersQ24547239
RNApredator: fast accessibility-based prediction of sRNA targetsQ24603023
Comparative genomics boosts target prediction for bacterial small RNAsQ24621557
The base-pairing RNA spot 42 participates in a multioutput feedforward loop to help enact catabolite repression in Escherichia coliQ24622607
Experimental discovery of small RNAs in Staphylococcus aureus reveals a riboregulator of central metabolismQ24622806
RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteriaQ24641843
A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structuresQ24652762
IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regionsQ24655171
RNAhybrid: microRNA target prediction easy, fast and flexibleQ24680189
Thermodynamically based DNA strand design.Q24811207
Regulation by small RNAs in bacteria: expanding frontiersQ27009044
Bacterial small RNA regulators: versatile roles and rapidly evolving variationsQ27692531
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structureQ27860806
A microRNA in a multiple-turnover RNAi enzyme complexQ28131835
CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domainsQ28240309
Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiationQ28252581
Control of Fur synthesis by the non-coding RNA RyhB and iron-responsive decodingQ28286135
Directional RNA-seq reveals highly complex condition-dependent transcriptomes in E. coli K12 through accurate full-length transcripts assemblingQ31125424
TargetRNA2: identifying targets of small regulatory RNAs in bacteriaQ33860759
Target repression induced by endogenous microRNAs: large differences, small effectsQ34070282
GUUGle: a utility for fast exact matching under RNA complementary rules including G-U base pairingQ34483094
Thermodynamics of RNA-RNA bindingQ34489593
Assessing computational tools for the discovery of small RNA genes in bacteriaQ35182654
Small RNA binding-site multiplicity involved in translational regulation of a polycistronic mRNA.Q36342728
TargetRNA: a tool for predicting targets of small RNA action in bacteriaQ36749437
Computational prediction of sRNAs and their targets in bacteria.Q37671500
Accessibility and conservation: general features of bacterial small RNA-mRNA interactions?Q41229189
RIsearch: fast RNA-RNA interaction search using a simplified nearest-neighbor energy modelQ42413406
Small regulatory RNAs control the multi-cellular adhesive lifestyle of Escherichia coli.Q42500644
Accessibility and evolutionary conservation mark bacterial small-rna target-binding regionsQ42706878
LocARNA-P: accurate boundary prediction and improved detection of structural RNAsQ43149709
RNAplex: a fast tool for RNA-RNA interaction searchQ43409460
P275copyright licenseCreative Commons Attribution-NonCommercial 3.0 UnportedQ18810331
P433issue5
P921main subjectcomputational biologyQ177005
bacteriaQ10876
P304page(s)509-513
P577publication date2015-01-01
P1433published inRNA BiologyQ7277167
P1476titleAn assessment of bacterial small RNA target prediction programs
P478volume12

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