NanoStriDE: normalization and differential expression analysis of NanoString nCounter data
نویسندگان
چکیده
منابع مشابه
NanoStringDiff: a novel statistical method for differential expression analysis based on NanoString nCounter data
The advanced medium-throughput NanoString nCounter technology has been increasingly used for mRNA or miRNA differential expression (DE) studies due to its advantages including direct measurement of molecule expression levels without amplification, digital readout and superior applicability to formalin fixed paraffin embedded samples. However, the analysis of nCounter data is hampered because mo...
متن کاملIntroduction to analyzing NanoString nCounter data using the NanoStringNorm package
NanoStringNorm is a suite of tools used to pre-process, run diagnostics, and visualize NanoString nCounter expression data. nCounter data has some unique features as compared to traditional intensity based arrays. Specifically, it uses direct digital detection requiring minimal sample intervention. The 'direct' refers to the process of counting individual tagged nucleic acids without any need f...
متن کاملNormalization and Differential Gene Expression Analysis of Microarray Data
DNA microarray technologies have the capability of simultaneously measuring the abundance of thousands of mRNA-sequences. Analysis of microarray data involves many different steps such as image analysis, background correction, and normaliza-tion, but also more classical statistical analysis such as testing for significant differences between groups of arrays. The work presented in this thesis i...
متن کاملIdentification of deregulation of apoptosis and cell cycle in neuroendocrine tumors of the lung via NanoString nCounter expression analysis
BACKGROUND Neuroendocrine tumors of the lung comprise typical (TC) and atypical carcinoids (AC), large-cell neuroendocrine cancer (LCNEC) and small-cell lung cancer (SCLC). Cell cycle and apoptosis are key pathways of multicellular homeostasis and deregulation of these pathways is associated with cancerogenesis. MATERIALS AND METHODS Sixty representative FFPE-specimens (16 TC, 13 AC, 16 LCNEC...
متن کاملEvaluating Robustness and Sensitivity of the NanoString Technologies nCounter Platform to Enable Multiplexed Gene Expression Analysis of Clinical Samples.
Analysis of clinical trial specimens such as formalin-fixed paraffin-embedded (FFPE) tissue for molecular mechanisms of disease progression or drug response is often challenging and limited to a few markers at a time. This has led to the increasing importance of highly multiplexed assays that enable profiling of many biomarkers within a single assay. Methods for gene expression analysis have un...
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ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2011
ISSN: 1471-2105
DOI: 10.1186/1471-2105-12-479