Affymetrix, Inc.

The United States of America, As Represented by the Secretary, Department of Health and Human Services

Carsten Rosenow

Kevin L Gunderson

Thomas R Gingeras

Charles Garrett Miyada

Kai Wu

Qing Yang

Duc Do

Francis Repoila

Karen Wassarman

Rini Saxena

Fred C Christians

Susan Gottesman

Gisela Storz

The invention relates to new small RNAs and ORFs ofas mediators of cell and intercell regulation.

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Methods are provided for detecting the sense and antisense transcripts and for determining template strand of a genomic DNA. Exemplary methods include reverse transcribing transcripts without second strand synthesis. The resulting single stranded DNA is labeled and detected using nucleic acid probe arrays. In a particularly embodiment, actinomycin is used to inhibit the synthesis of second strand cDNA during reverse transcription.

Method for detecting transcription templates

The presently claimed invention provides methods, compositions, and apparatus for studying nucleic acids. Specifically, the present invention provides a novel enrichment and labeling strategy for ribonucleic acids. In one embodiment, the invention provides enriching for a population of interest in a complex population by diminishing the presence of a target sequence. In a further embodiment, the invention can be used to reproducibly label and detect extremely small amounts of nucleic acids.

Preparation of nucleic acid samples

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Redwood Shores, CA, United States of America

Carsten Rosenow