Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data
Lu ZJ, Yip KY, Wang G, Shou C, Hillier LW, Khurana E, Agarwal A, Auerbach R, Rozowsky J, Cheng C, Kato M, Miller DM, Slack F, Snyder M, Waterston RH, Reinke V, Gerstein MB. Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data. Genome Research 2010, 21: 276-285. PMID: 21177971, PMCID: PMC3032931, DOI: 10.1101/gr.110189.110.Peer-Reviewed Original ResearchConceptsNovel ncRNA candidatesNcRNA candidatesC. elegansC. elegans genomeWhole-genome identificationSpecific transcription factorsHigh-throughput sequencingDistinct expression patternsSecondary structure stabilityEvolutionary conservationGenomic elementsModENCODE consortiumNucleic acid levelIntergenic regionTranscription factorsPotential ncRNAsExpression patternsExpression dataDevelopmental stagesSecondary structureElegansNcRNAsRNAsStructural familyArray data