Ambion, Inc.

Asuragen, Inc.

Bioo Scientific Corporation

Marianna M Goldrick

Matthew M Winkler

David Allen Brown

Eric Devroe

Jeffrey Shelton

Emmanuel Labourier

Kerri Keiger

Jaclyn Shingara

Masoud Toloue

Rick Conrad

Patricia Powers

Susan C Milburn

Ivonne Moon

Lance Lepovitz

Eric S Lader

Juanita C Gonzales

The invention generally relates to compositions for maximizing capture of affinity-labeled molecules on solid supports. The disclosed methods and compositions were developed to maximize depletion of ribosomal RNA from total RNA samples, which is useful to improve the quality of RNA preparations used for applications such as massively parallel sequencing. The RNA depletion method is based on using long affinity-labeled RNA molecules that are complementary to all or part of the target ribosomal RNAs, as subtractive hybridization probes.

Methods and compositions for improving removal of ribosomal RNA from biological samples

The present invention concerns methods and compositions for isolating, enriching, and/or labeling miRNA molecules and for preparing and using arrays or other detection techniques for miRNA analysis. Moreover, the present invention concerns methods and compositions for generating miRNA profiles and employing such profiles for therapeutic, diagnostic, and prognostic applications.

Methods and compositions involving MicroRNA

Described herein is a buffer concentration for highly efficient ligation of two oligonucleotides. The embodiments herein have led to the development of an optimized ligation step used in the sample preparation for sequencing reactions. Further, embodiments herein describe a high-throughput method for sequencing using barcodes or the purpose of multiplexing several samples simultaneously and novel methods for making targeted DNA libraries for re-sequencing on massively parallel next-generation sequencing platforms and for alternatives to gel-purification for recovering the desired templates from small RNA libraries for next generation sequencing.

Oligonucleotide ligation methods for improving data quality and throughput using massively parallel sequencing

Methods and compositions involving microRNA

Method and compositions involving microRNA

The present invention concerns the methods and compositions for preparing a tissue section or biological sample, particularly to preserve RNA in the section or sample, by not exposing or contacting the sample or section to a solution that is composed of mostly water. Tissue sections can be fixed, stained, and dehydrated for subsequent manipulation, including laser capture microdissection (LCM) for further analysis using methods and/or compositions of the invention.

Methods and compositions for preparing tissue samples for RNA extraction

The present invention relates to compositions and methods for increasing the yields of polynucleotide synthetic reactions. In particular, it relates to an improved reaction mixture for use in in vitro RNA trancription and in various other enzymatic reactions in which a polynucleotide is synthesised. The reaction mixture uses high concentrations of total nucleotides, in the order of 12 mM to 40 mM, i.e. levels that were previously thought to be inhibitory. Other useful modifications are also disclosed.

Compositions and methods for increasing the yields of in vitro RNA transcription and other polynucleotide synthetic reactions

The present invention relates to compositions and methods for increasing the yields of polynucleotide synthetic reactions. In particular, it relates to an improved reaction mixture for use in in vitro RNA trancription and in various other enzymatic reactions in which a polynucleotide is synthesized. The reaction mixture uses high concentrations of total nucleotides, in the order of 12 mM to 40 mM, i.e. levels that were previously thought to be inhibitory. Other useful modifications are also disclosed.

Compositions and methods for increasing the yields of the in vitro RNA transcription and other polynucleotide synthetic reactions

The invention relates to modified oligonucleotide primers used to adjust the amplification efficiency of an abundant target without affecting the amplification of other targets in a DNA synthesis reaction. The invention may be used in PCR.TM. or any other primer dependent DNA transcription technology.

Modulating the efficiency of nucleic acid amplification reactions with 3'

The present invention addresses compositions and methods for cleaving nucleic acids. The invention allows one to reliably detecting point mutations in long and short target regions of nucleic acids in a safe, non-labor intensive, and cost effective manner. The methods and compositions of the present invention allow for the use of various RNases, such as RNase A, RNase I and RNase T2, in the detection of mutations. The present invention also identifies reaction conditions that result in significant improvement in specific mismatch cleavage in the NIRCA.TM. assay.

Compositions for improving RNase cleavage of base pair mismatches in

The present invention discloses improved compositions and methods for detecting mutations, including single base changes, in nucleic acid sequences using RNase protection assays. The improvements include concomitant, dramatic reductions in the salt and RNase enzyme concentrations in the RNase digestion reaction mixture which result in greater sensitivity in detecting genetic mutations. Another embodiment of the present invention is kits to be used for the detection of single base mismatches in nucleic acid samples.

Methods and compositions for detecting base pair mismatches

A method for the recovery of nucleic acids from a reaction mixture, such as nuclease protection assays, comprising the use of one reagent containing a) nuclease for digesting single-stranded RNA and b) a nucleic acid precipitating carrier agent, (sheared DNA or linear acrylamide). A second reagent contains a chaotropic agent (a guanidinium salt) for inactivating said nucleases and an alcohol (ethanol or isopropanol) for the simultaneous inactivation of the nucleases and the precipitation of the nucleic acids without the need for protease digestion or organic extraction.

Methods for the recovery of nucleic acids from reaction mixtures

The present invention relates to compositions and methods for increasing the yields of polynucleotide synthetic reactions. In particular, it relates to an improved reaction mixture for use in in vitro RNA transcription and in various other enzymatic reactions in which a polynucleotide is synthesized. The reaction mixture uses high concentrations of total nucleotides, in the order of 12 mM to 40 mM, i.e. levels that were previously thought to be inhibitory. Other useful modifications are also disclosed.

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Pflugerville, TX, United States of America

Marianna M Goldrick