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Journal ArticleDOI

Non-coding RNA genes and the modern RNA world.

Sean R. Eddy
- 01 Dec 2001 - 
- Vol. 2, Iss: 12, pp 919-929
TLDR
Non-coding RNAs seem to be particularly abundant in roles that require highly specific nucleic acid recognition without complex catalysis, such as in directing post-transcriptional regulation of gene expression or in guiding RNA modifications.
Abstract
Non-coding RNA (ncRNA) genes produce functional RNA molecules rather than encoding proteins. However, almost all means of gene identification assume that genes encode proteins, so even in the era of complete genome sequences, ncRNA genes have been effectively invisible. Recently, several different systematic screens have identified a surprisingly large number of new ncRNA genes. Non-coding RNAs seem to be particularly abundant in roles that require highly specific nucleic acid recognition without complex catalysis, such as in directing post-transcriptional regulation of gene expression or in guiding RNA modifications.

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Citations
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Journal ArticleDOI

Virus and noncoding RNAs: Stars in the host-virus interaction game

TL;DR: In the past few years, noncoding RNAs have emerged as key modulators of the transcriptional and post-transcriptional control of a variety of cellular processes such as development, signaling, homeostasis and oncogenesis.
Journal ArticleDOI

RScan: fast searching structural similarities for structured RNAs in large databases

TL;DR: RScan is a preferable choice for real-life application of searching structural similarities for structured RNAs in large databases and can handle large database queries, taking less than 4 minutes for searching similar structures for a microRNA precursor in human chromosome 21.
Journal ArticleDOI

Predicting RNA secondary structure using profile stochastic context-free grammars and phylogenic analysis

TL;DR: A new SCFG-based method by integrating phylogenic analysis with the newly defined profile SCFG, M, to devise a combined model for prediction of RNA secondary structure that is more accurate than those of the predictions by Pfold.
Book ChapterDOI

Bioinformatics: A Challenge to Constraint Programming

TL;DR: The paper briefly presents the selected problems together with the solutions found so far, that illustrate the versatility of CP techniques that have been used in this area and the need to integrate them with other complementary techniques to handle realistic applications.
Book ChapterDOI

Comparative analysis of RNA genes: the caRNAc software.

TL;DR: The caRNAc software is presented, which enables the analysis of families of homologous sequences without prior alignment and relies both on comparative analysis and thermodynamic information.
References
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Journal ArticleDOI

Initial sequencing and analysis of the human genome.

Eric S. Lander, +248 more
- 15 Feb 2001 - 
TL;DR: The results of an international collaboration to produce and make freely available a draft sequence of the human genome are reported and an initial analysis is presented, describing some of the insights that can be gleaned from the sequence.
Journal ArticleDOI

The sequence of the human genome.

J. Craig Venter, +272 more
- 16 Feb 2001 - 
TL;DR: Comparative genomic analysis indicates vertebrate expansions of genes associated with neuronal function, with tissue-specific developmental regulation, and with the hemostasis and immune systems are indicated.
Journal ArticleDOI

The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14

TL;DR: Two small lin-4 transcripts of approximately 22 and 61 nt were identified in C. elegans and found to contain sequences complementary to a repeated sequence element in the 3' untranslated region (UTR) of lin-14 mRNA, suggesting that lin- 4 regulates lin- 14 translation via an antisense RNA-RNA interaction.
Journal ArticleDOI

The Complete Genome Sequence of Escherichia coli K-12

TL;DR: The 4,639,221-base pair sequence of Escherichia coli K-12 is presented and reveals ubiquitous as well as narrowly distributed gene families; many families of similar genes within E. coli are also evident.
Journal ArticleDOI

Genetic regulatory mechanisms in the synthesis of proteins.

TL;DR: The synthesis of enzymes in bacteria follows a double genetic control, which appears to operate directly at the level of the synthesis by the gene of a shortlived intermediate, or messenger, which becomes associated with the ribosomes where protein synthesis takes place.
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Initial sequencing and analysis of the human genome.

Eric S. Lander, +248 more
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