System and method for identification of MicroRNA precursor sequences and corresponding mature MicroRNA sequences from genomic sequences

Inactive Publication Date: 2006-11-23
GLOBALFOUNDRIES US INC
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  • Abstract
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  • Claims
  • Application Information

AI Technical Summary

Benefits of technology

[0013] A method for identifying microRNA precursor sequences and corresponding mature microRNA sequences from genomic sequences is provided. For example, in one aspect of the invention, a method for determining whether a nucleotide sequence contains a microRNA precursor comprises the following steps. One or more patterns are generated

Problems solved by technology

A breakdown in this homeostasis leads to disease states, such as cancer, where a cell multiplies uncontrollably, to the detriment of the organism.
To date, there have been relatively few attempts to devise new methods for finding novel microRNA precursors and their associated mature microRNAs.

Method used

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  • System and method for identification of MicroRNA precursor sequences and corresponding mature MicroRNA sequences from genomic sequences
  • System and method for identification of MicroRNA precursor sequences and corresponding mature MicroRNA sequences from genomic sequences
  • System and method for identification of MicroRNA precursor sequences and corresponding mature MicroRNA sequences from genomic sequences

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Embodiment Construction

[0027] The teachings of the present invention relate to ribonucleic acid (RNA) molecules and their role in gene expression regulation. As mentioned above, a novel and robust pattern-based approach for the discovery of microRNA precursors and their corresponding mature microRNAs from genomic sequence is provided. Advantageously, the inventive approach obviates the need of cross-species sequence conservation, and is thus readily applicable to any genomic sequence independent of whether it has orthologues in other species. The capabilities of the inventive approach are demonstrated herein by first showing that the inventive approach correctly identifies many of the currently known microRNA precursors and mature microRNAs. We describe an implemented prototype system and use the system to analyze computationally the C. elegans, D. melanogaster, M. musculus and H. sapiens genomes. By way of example, such sequences are described in detail in Application No. 60 / 652,499, the disclosure of wh...

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Abstract

A method for determining microRNA precursors and their corresponding mature microRNAs from genomic sequences is provided. For example, in one aspect of the invention, a method for determining whether a nucleotide sequence contains a microRNA precursor comprises the following steps. Patterns are generated by processing a collection of already known microRNA precursor sequences. One or more attributes are assigned to the generated patterns. Only the patterns whose attributes satisfy certain criteria are subselected, and then the subselected patterns are used to analyze the nucleotide sequence. In another aspect of the invention, a method for identifying a mature microRNA sequence in a microRNA precursor sequence comprises the following steps. One or more patterns are generated by processing a collection of known mature microRNA sequences. The one or more patterns are filtered, and then used to locate instances of the one or more filtered patterns in one or more candidate precursor sequences.

Description

CROSS REFERENCE TO RELATED APPLICATIONS [0001] This application claims the benefit of U.S. Provisional Application No. 60 / 652,499, filed Feb. 11, 2005, the disclosure of which is incorporated by reference herein. [0002] This application is related to U.S. patent application entitled “System and Method for Identification of MicroRNA Target Sites and Corresponding Targeting MicroRNA Sequences,” Attorney Docket Number YOR920060077US1, filed concurrently herewith, the disclosure of which is incorporated by reference herein. Also, this application is related to U.S. patent application entitled “Ribonucleic Acid Interference Molecules,” Attorney Docket Number YOR920040675US2, filed concurrently herewith, the disclosure of which is incorporated by reference herein.FIELD OF THE INVENTION [0003] The present invention relates to genes and, more particularly, to ribonucleic acid interference molecules and their role in gene expression. BACKGROUND OF THE INVENTION [0004] The ability of an organ...

Claims

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Application Information

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IPC IPC(8): C12Q1/68G06F19/00G16B20/20G16B40/00
CPCC12N15/111C12N2310/14C12N2320/11G06F19/22G06F19/16G06F19/18G06F19/24C12N2330/10G16B15/00G16B20/00G16B40/00G16B30/00G16B20/20
InventorHUYNH, TIENMIRANDA, KEVIN CHARLESRIGOUTSOS, ISIDORE
OwnerGLOBALFOUNDRIES US INC