Abstract: A computer implemented method for evaluating if a mRNA nucleotide sequence can form a triBridge complex. The miRNA-mRNA triBridge complex is a complex formed from the mRNA nucleotide sequence and the miRNA nucleotide sequence that includes the UTR-UTR zipper and a miRNA bridge. A biological sample can be obtained from a subject to determine the presence of single nucleotide polymorphisms in the mRNA nucleotide sequence that forms UTR-UTR zipper and a miRNA bridge.

Abstract: The present invention relates to generation (e.g., synthesis) of proteins. In particular, the present invention provides methods to predict miRNA targets using sequence similarity and thermodynamic stability of miRNA-bridges across both 3? and 5? UTR. Such methods find use in research, diagnostic and therapeutic settings (e.g., to discover targets, drugs, diagnostic products, etc.).

Abstract: A method includes a step of identifying candidate miRNA-mRNA complexes where an mRNA sequence from a set of mRNA sequences stably hybridizes to a miRNA from a set of miRNA sequences. The candidate miRNA-mRNA complexes have stably hybridizing sub-regions of a downstream region to portions of a 5? miRNA section and stably hybridizing sub-regions of an upstream region to portions of a 3? miRNA section. Candidate mRNA and/or miRNA sequences are identified as sequences that form candidate microRNA-mRNA complexes. Differences between expression levels between candidate mRNA and/or miRNA sequences in subjects having a disease and subjects not having the disease are determined for each candidate mRNA and/or miRNA sequence to identify candidate mRNA sequences and/or miRNA sequences. The expression levels of each candidate RNA disease markers are compared to controls such that deviation of expression levels of the candidate RNA disease markers from the controls indicates presence of the disease.

Abstract: A computer implemented method of identifying potential micoRNA targets and biomarkers comprises receiving data identifying a first set of mRNA sequences into computer accessible memory. Each mRNA sequence in the first set has a region that is upstream of a translation start site, a region that is downstream of a translation stop site, and an open reading frame. The method further comprises receiving data identifying a second set of microRNA (miRNA) sequences into the computer accessible memory. Each microRNA sequence has a 5? miRNA section and a 3? miRNA section. Each mRNA sequence is characterized by an expression pattern in the first set as being up-regulated, down-regulated, or uncharged as compared to a control sample and each miRNA sequence in the second set as being up-regulated, down-regulated, or uncharged as compared to the control sample. It is then determined which mRNA sequences from the first set are susceptible to being regulated by microRNA from the second set.

Abstract: An online Internet-based method for funding scientific research comprises presenting a plurality of candidate research projects to potential or executing donors for the donors' review. The potential or executing donors view the candidate research projects on a computer system using a web browser. Donations are received from executing donors. Selections are received from the executing donors regarding research projects to be funded. Finally, funding is provided to a research project. A system that implements the method is also provided.

Abstract: The present invention relates to generation (e.g., synthesis) of proteins. In particular, the present invention provides methods to predict miRNA targets using sequence similarity and thermodynamic stability of miRNA-bridges across both 3? and 5? UTR. Such methods find use in research, diagnostic and therapeutic settings (e.g., to discover targets, drugs, diagnostic products, etc.).

Abstract: The present invention provides a method of designing target-specific hybridization sequences which include one or more mutations. The method of the invention comprises selecting a candidate target nucleotide sequence in a subject nucleotide sequence. A first complementary nucleotide sequence to the target nucleotide sequence is identified by applying the known bonding relationships of the nucleotides. Next, a second complementary nucleotide sequence having one or more mutations is constructed. The amount of the “target-second complementary nucleotide sequence” hybrid formed when the candidate target nucleotide sequence and second complementary nucleotide sequences are combined in the presence of interfering sequences is characterized and used to assess utility of the second complementary nucleotide sequence. The present invention also provides the target-specific hybridization sequences designed by the methods of the invention.

Abstract: The present invention provides a method of designing target-specific hybridization sequences which include one or more mutations. The method of the invention comprises selecting a candidate target nucleotide sequence in a subject nucleotide sequence. A first complementary nucleotide sequence to the target nucleotide sequence is identified by applying the known bonding relationships of the nucleotides. Next, a second complementary nucleotide sequence having one or more mutations is constructed. The amount of the “target-second complementary nucleotide sequence” hybrid formed when the candidate target nucleotide sequence and second complementary nucleotide sequences are combined in the presence of interfering sequences is characterized and used to assess utility of the second complementary nucleotide sequence. The present invention also provides the target-specific hybridization sequences designed by the methods of the invention.