Overexpression of human epidermal growth factor receptor 2 (HER2) occurs in a large percentage of breast cancers. Monoclonal antibodies targeting HER2 are vastly used for both diagnostic and therapeutic aims. However, identifying a new molecular probe against HER2 with improved diagnostic and therapeutic features is of great importance. In this report, we have applied the cell systematic evolut...

SELEX, the process of selecting aptamers, is often hampered by the difficulty of preparing target molecules in their native forms and by a lack of a simple yet quantitative assay for monitoring enrichment and affinity of reactive aptamers. In this study, we sought to discover DNA aptamers against human serum markers for potential therapeutic and diagnostic applications. To circumvent soluble ex...

Blood glycated hemoglobin (HbA1c) levels reflecting average glucose concentrations over the past three months are fundamental for the diagnosis, monitoring, and risk assessment of diabetes. It has been hypothesized that aptamers, which are single-stranded DNAs or RNAs that demonstrate high affinity to a large variety of molecules ranging from small drugs, metabolites, or proteins, could be used...

BACKGROUND Characterizing transcription factor binding motifs is a common bioinformatics task. For transcription factors with variable binding sites, we need to get many suboptimal binding sites in our training dataset to get accurate estimates of free energy penalties for deviating from the consensus DNA sequence. One procedure to do that involves a modified SELEX (Systematic Evolution of Liga...

Title of Document: CHARACTERIZATION OF NOVEL NUCLEIC ACID INHIBITORS (APTAMERS) OF HUMAN IMMUNODEFICIENCY VIRUS REVERSE TRANSCRIPTASE SELECTED USING A PRIMER-FREE SELEX APPROACH Yi-Tak Lai, Doctor of Philosophy, 2011 Directed By: Dr. Jeffrey J. DeStefano, Professor Department of Cell Biology and Molecular Genetics Aptamers are synthetic, single stranded nucleic acids that bind specifically to t...

objective(s): development of molecules that specifically recognize cancer cells is one of the major areas in cancer research. human epidermal growth factor receptor 2 (her2) is specifically expressed on the surface of breast cancer cells. her2 is associated with an aggressive phenotype and poor prognosis. in this study we aimed to isolate rna aptamers that specifically bind to her2 overexpressi...

Cell-SELEX is performed to select for cell binding aptamers. We employed an additional selection pressure by using RNAse to remove surface-binding aptamers and select for cell-internalizing aptamers. A common RNA sequence was identified from independent cell-SELEX procedures against two different pancreatic cancer cell lines, indicating a strong selection pressure towards this sequence from the...

In this study, we developed a systematic evolution of ligands by exponential enrichment (SELEX) method using a combination of magnetic beads immobilization and flow cytometric measurement. As an example, the selection of streptavidin-specific aptamers was performed. In this protocol, the conventional SELEX procedure was optimized, first using magnetic beads for target immobilization to facilita...

The functionalisation of microbeads with oligonucleotides has become an indispensable technique for high-throughput aptamer selection in SELEX protocols. In addition to simplifying the separation of binding and non-binding aptamer candidates, microbeads have facilitated the integration of other technologies such as emulsion PCR (ePCR) and Fluorescence Activated Cell Sorting (FACS) to high-throu...