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Genome-wide profiling of the C. elegans dsRNAome

Genome-wide profiling of the C. elegans dsRNAome

Recent studies hint that endogenous dsRNA plays an unexpected role in cellular signaling. However, a complete understanding of endogenous dsRNA signaling is hindered by an incomplete annotation of dsRNA-producing genes. To identify dsRNAs expressed in Caenorhabditis elegans, researchers at the ...

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The impact of quality filter for RNA-Seq

The impact of quality filter for RNA-Seq

With the emergence of large-scale sequencing platforms since 2005, there has been a great revolution regarding methods for decoding DNA sequences, which have also affected quantitative and qualitative gene expression analyses through the RNA-Sequencing technique. However, issues related to the ...

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A comparative study of RNA-seq analysis strategies

A comparative study of RNA-seq analysis strategies

Three principal approaches have been proposed for inferring the set of transcripts expressed in RNA samples using RNA-seq. The simplest approach uses curated annotations, which assumes the transcripts in a sample are a subset of the transcripts listed in a ...

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Scrimer – designing primers from transcriptome data

Scrimer – designing primers from transcriptome data

With the rise of next-generation sequencing methods it has become increasingly possible to obtain genome-wide sequence data even for non-model species. Such data are often used for the development of single nucleotide polymorphism (SNP) markers, which can subsequently be screened ...

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RNA-Seq Analysis – Using Tophat & Cufflinks

RNA-Seq Analysis – Using Tophat & Cufflinks

Yan Kou – Ma’ayan Lab – Icahn School of Medicine – Introduction to Big Data analysis in systems biology including statistical methods used to identify differentially expressed genes, performing various types of enrichment analyses, and applying clustering algorithms.

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