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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

TCR-MHC docking orientation: natural selection, or thymic selection?

TL;DR: Expectations that follow from the hypothesis that TCR and MHC evolved to interact are discussed in light of the data that both support and refute them.
Journal ArticleDOI

Microarray expression profile analysis of long non-coding RNAs in human gastric cardiac adenocarcinoma.

TL;DR: This study is the first to interrogate differentially expressed lncRNAs in human GCA tissues and indicates that lnc RNAs may be used as novel candidate biomarkers for the clinical diagnosis of GCA and potential targets for further therapy.
Journal ArticleDOI

Consensus folding of unaligned RNA sequences revisited.

TL;DR: This paper proposes a novel framework to predict the common secondary structure for unaligned RNA sequences that makes use of both primary sequence information and thermodynamic stability for prediction at the same time, and it outperforms current algorithms in sensitivity and accuracy.
Journal ArticleDOI

Circadian clocks and natural antisense RNA

TL;DR: This review concentrates on the few examples of antisense clock gene transcripts so far investigated and their effect on circadian timing, suggesting that mechanisms of gene regulation operating through antisense RNA may also be integral to the circadian clockwork.
Journal ArticleDOI

A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements

TL;DR: This work formalizes the concept of a filter and provides figures of merit that allow comparison between filters, and designs efficient sequence based filters that dominate the current state-of-the-art HMM filters that allow speeding up RNA alignment.
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
- 15 Feb 2001 -