Research Topics
Genomes and Genes | Paulo P AmaralSummaryAffiliation: University of Queensland Country: Australia Publications
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Publications
Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiationMarcel E Dinger
ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, St Lucia QLD 4072, Australia
Genome Res 18:1433-45. 2008..Taken together, our data indicate that long ncRNAs are likely to be important in processes directing pluripotency and alternative differentiation programs, in some cases through engagement of the epigenetic machinery...
Noncoding RNA in developmentPaulo P Amaral
Australian Research Council Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, St Lucia, QLD 4072, Australia
Mamm Genome 19:454-92. 2008....- RNA regulation of epigenetic processesJohn S Mattick
Australian Research Council Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, The University of Queensland, St Lucia, Australia
Bioessays 31:51-9. 2009..Moreover, RNA-directed regulatory processes may also transfer epigenetic information not only within cells but also between cells and organ systems, as well as across generations... - Pervasive transcription of the eukaryotic genome: functional indices and conceptual implicationsMarcel E Dinger
Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072, Australia
Brief Funct Genomic Proteomic 8:407-23. 2009.... - Pinstripe: a suite of programs for integrating transcriptomic and proteomic datasets identifies novel proteins and improves differentiation of protein-coding and non-coding genesDennis K Gascoigne
Institute for Molecular Bioscience, The University of Queensland, St Lucia, Brisbane, Queensland 4072, Australia
Bioinformatics 28:3042-50. 2012..We demonstrate its application, utility and discovery power using transcriptomic and proteomic data from publicly available datasets... - Complex architecture and regulated expression of the Sox2ot locus during vertebrate developmentPaulo P Amaral
ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, The University of Queensland, St Lucia, QLD 4072, Australia
RNA 15:2013-27. 2009..These observations provide insight into the structure and regulation of the Sox2ot gene, and suggest conserved roles for Sox2ot orthologs during vertebrate development... - The eukaryotic genome as an RNA machinePaulo P Amaral
Institute for Molecular Bioscience, University of Queensland, St Lucia QLD 4072, Australia
Science 319:1787-9. 2008..In parallel, it is increasingly evident that many of these RNAs have regulatory functions. Here, we highlight recent advances that illustrate the diversity of ncRNA control of genome dynamics, cell biology, and developmental programming... - lncRNAdb: a reference database for long noncoding RNAsPaulo P Amaral
Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072, Australia
Nucleic Acids Res 39:D146-51. 2011..lncRNAdb provides a platform for the ongoing collation of the literature pertaining to lncRNAs and their association with other genomic elements. lncRNAdb can be accessed at: http://www.lncrnadb.org/... - The reality of pervasive transcriptionMichael B Clark
Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia
PLoS Biol 9:e1000625. 2011..Despite recent controversies, the evidence that the majority of the human genome is transcribed into RNA remains strong...