lncEvo: automated identification and conservation study of long noncoding RNAs

[1] Johnsson P(2014)Evolutionary conservation of long non-coding RNAs; sequence, structure, function Biochim Biophys Acta 1840 1063-1071

[2] Lipovich L(2015)Principles of long noncoding RNA evolution derived from direct comparison of transcriptomes in 17 species Cell Rep 11 1110-1122

[3] Grandér D(2016)The functions of long noncoding RNAs in development and stem cells Development 143 3882-3894

[4] Morris KV(2020)SyntDB: defining orthologues of human long noncoding RNAs across primates Nucleic Acids Res 48 D238-D245

[5] Hezroni H(2016)Local regulation of gene expression by lncRNA promoters, transcription and splicing Nature 539 452-455

[6] Koppstein D(2019)Conserved regions in long non-coding RNAs contain abundant translation and protein–RNA interaction signatures NAR Genomics Bioinform 1 e2-614

[7] Schwartz MG(2016)Evolution to the rescue: using comparative genomics to understand long non-coding RNAs Nat Rev Genet 17 601-332

[8] Avrutin A(2014)Purifying selection on splice-related motifs, not expression level nor RNA folding, explains nearly all constraint on human lincRNAs Mol Biol Evol 31 3164-295

[9] Bartel DP(2015)Unexpected selection to retain high GC content and splicing enhancers within exons of multiexonic lncRNA loci RNA 21 320-578

[10] Ulitsky I(2015)StringTie enables improved reconstruction of a transcriptome from RNA-seq reads Nat Biotechnol. 33 290-3677

[1] Johnsson P(2014)Evolutionary conservation of long non-coding RNAs; sequence, structure, function Biochim Biophys Acta 1840 1063-1071

[2] Lipovich L(2015)Principles of long noncoding RNA evolution derived from direct comparison of transcriptomes in 17 species Cell Rep 11 1110-1122

[3] Grandér D(2016)The functions of long noncoding RNAs in development and stem cells Development 143 3882-3894

[4] Morris KV(2020)SyntDB: defining orthologues of human long noncoding RNAs across primates Nucleic Acids Res 48 D238-D245

[5] Hezroni H(2016)Local regulation of gene expression by lncRNA promoters, transcription and splicing Nature 539 452-455

[6] Koppstein D(2019)Conserved regions in long non-coding RNAs contain abundant translation and protein–RNA interaction signatures NAR Genomics Bioinform 1 e2-614

[7] Schwartz MG(2016)Evolution to the rescue: using comparative genomics to understand long non-coding RNAs Nat Rev Genet 17 601-332

[8] Avrutin A(2014)Purifying selection on splice-related motifs, not expression level nor RNA folding, explains nearly all constraint on human lincRNAs Mol Biol Evol 31 3164-295

[9] Bartel DP(2015)Unexpected selection to retain high GC content and splicing enhancers within exons of multiexonic lncRNA loci RNA 21 320-578

[10] Ulitsky I(2015)StringTie enables improved reconstruction of a transcriptome from RNA-seq reads Nat Biotechnol. 33 290-3677