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Items: 1 to 20 of 163

1.

Mining mammalian transcript data for functional long non-coding RNAs.

Khachane AN, Harrison PM.

PLoS One. 2010 Apr 23;5(4):e10316. doi: 10.1371/journal.pone.0010316.

2.

A Support Vector Machine based method to distinguish long non-coding RNAs from protein coding transcripts.

Schneider HW, Raiol T, Brigido MM, Walter MEMT, Stadler PF.

BMC Genomics. 2017 Oct 18;18(1):804. doi: 10.1186/s12864-017-4178-4.

3.

Computational discovery of human coding and non-coding transcripts with conserved splice sites.

Rose D, Hiller M, Schutt K, Hackermüller J, Backofen R, Stadler PF.

Bioinformatics. 2011 Jul 15;27(14):1894-900. doi: 10.1093/bioinformatics/btr314. Epub 2011 May 26.

PMID:
21622663
4.

Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer.

Tahira AC, Kubrusly MS, Faria MF, Dazzani B, Fonseca RS, Maracaja-Coutinho V, Verjovski-Almeida S, Machado MC, Reis EM.

Mol Cancer. 2011 Nov 13;10:141. doi: 10.1186/1476-4598-10-141.

5.

Examples of sequence conservation analyses capture a subset of mouse long non-coding RNAs sharing homology with fish conserved genomic elements.

Basu S, Müller F, Sanges R.

BMC Bioinformatics. 2013;14 Suppl 7:S14. doi: 10.1186/1471-2105-14-S7-S14. Epub 2013 Apr 22.

6.

The sequence, structure and evolutionary features of HOTAIR in mammals.

He S, Liu S, Zhu H.

BMC Evol Biol. 2011 Apr 16;11:102. doi: 10.1186/1471-2148-11-102.

7.

Evolutionary conservation of long non-coding RNAs; sequence, structure, function.

Johnsson P, Lipovich L, Grandér D, Morris KV.

Biochim Biophys Acta. 2014 Mar;1840(3):1063-71. doi: 10.1016/j.bbagen.2013.10.035. Epub 2013 Oct 27. Review.

8.

Computational analysis of functional long noncoding RNAs reveals lack of peptide-coding capacity and parallels with 3' UTRs.

Niazi F, Valadkhan S.

RNA. 2012 Apr;18(4):825-43. doi: 10.1261/rna.029520.111. Epub 2012 Feb 23.

9.

Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes.

Chodroff RA, Goodstadt L, Sirey TM, Oliver PL, Davies KE, Green ED, Molnár Z, Ponting CP.

Genome Biol. 2010;11(7):R72. doi: 10.1186/gb-2010-11-7-r72. Epub 2010 Jul 12.

10.

Evolutionary annotation of conserved long non-coding RNAs in major mammalian species.

Bu D, Luo H, Jiao F, Fang S, Tan C, Liu Z, Zhao Y.

Sci China Life Sci. 2015 Aug;58(8):787-98. doi: 10.1007/s11427-015-4881-9. Epub 2015 Jun 27.

PMID:
26117828
11.

Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis.

Pauli A, Valen E, Lin MF, Garber M, Vastenhouw NL, Levin JZ, Fan L, Sandelin A, Rinn JL, Regev A, Schier AF.

Genome Res. 2012 Mar;22(3):577-91. doi: 10.1101/gr.133009.111. Epub 2011 Nov 22.

12.

Identification of long non-protein coding RNAs in chicken skeletal muscle using next generation sequencing.

Li T, Wang S, Wu R, Zhou X, Zhu D, Zhang Y.

Genomics. 2012 May;99(5):292-8. doi: 10.1016/j.ygeno.2012.02.003. Epub 2012 Feb 20.

13.

Identification and evolutionary analysis of long non-coding RNAs in zebra finch.

Chen CK, Yu CP, Li SC, Wu SM, Lu MJ, Chen YH, Chen DR, Ng CS, Ting CT, Li WH.

BMC Genomics. 2017 Jan 31;18(1):117. doi: 10.1186/s12864-017-3506-z.

14.

Long non-coding RNAs: Guardians of development.

van Leeuwen S, Mikkers H.

Differentiation. 2010 Nov-Dec;80(4-5):175-83. doi: 10.1016/j.diff.2010.07.003. Epub 2010 Aug 11. Review.

PMID:
20705382
15.

Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs.

Chen J, Shishkin AA, Zhu X, Kadri S, Maza I, Guttman M, Hanna JH, Regev A, Garber M.

Genome Biol. 2016 Feb 2;17:19. doi: 10.1186/s13059-016-0880-9.

16.

Assessing the genomic evidence for conserved transcribed pseudogenes under selection.

Khachane AN, Harrison PM.

BMC Genomics. 2009 Sep 15;10:435. doi: 10.1186/1471-2164-10-435.

17.

Rapid turnover of long noncoding RNAs and the evolution of gene expression.

Kutter C, Watt S, Stefflova K, Wilson MD, Goncalves A, Ponting CP, Odom DT, Marques AC.

PLoS Genet. 2012;8(7):e1002841. doi: 10.1371/journal.pgen.1002841. Epub 2012 Jul 26.

18.

A subset of conserved mammalian long non-coding RNAs are fossils of ancestral protein-coding genes.

Hezroni H, Ben-Tov Perry R, Meir Z, Housman G, Lubelsky Y, Ulitsky I.

Genome Biol. 2017 Aug 30;18(1):162. doi: 10.1186/s13059-017-1293-0.

19.

Conserved expression of transposon-derived non-coding transcripts in primate stem cells.

Ramsay L, Marchetto MC, Caron M, Chen SH, Busche S, Kwan T, Pastinen T, Gage FH, Bourque G.

BMC Genomics. 2017 Feb 28;18(1):214. doi: 10.1186/s12864-017-3568-y.

20.

Conserved introns reveal novel transcripts in Drosophila melanogaster.

Hiller M, Findeiss S, Lein S, Marz M, Nickel C, Rose D, Schulz C, Backofen R, Prohaska SJ, Reuter G, Stadler PF.

Genome Res. 2009 Jul;19(7):1289-300. doi: 10.1101/gr.090050.108. Epub 2009 May 20.

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