Next-generation RNA sequencing (RNA-seq) maps and analyzes transcriptomes and generates data on sequence variation in expressed genes. There are few reported studies on analysis strategies to maximize the yield of quality RNA-seq SNP data. We evaluated the performance of different SNP-calling methods following alignment to both genome and transcriptome by applying them to RNA-seq data from a HapMap lymphoblastoid cell line sample and comparing results with sequence variation data from 1000 Genomes. We determined that the best method to achieve high specificity and sensitivity, and greatest number of SNP calls, is to remove duplicate sequence reads after alignment to the genome and to call SNPs using SAMtools. The accuracy of SNP calls is de...
In recent years, the introduction of massively parallel sequencing platforms for Next Generation Seq...
This book evaluates and comprehensively summarizes the scientific findings that have been achieved t...
Next-generation sequencing (NGS) technologies are now well established and have become a routine ana...
<div><p>Next-generation RNA sequencing (RNA-seq) maps and analyzes transcriptomes and generates data...
<p>This figure outlines the analysis strategies and methods used to identify the best performing met...
RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be ...
SNP detection by RNA-seq L. Xumerle 1 , I. Iacobucci 2 , V. Mijatovic 1 , A. Mori 1 , G. Martinelli ...
Sequencing the human genome empowers translational medicine, facilitating transcriptome-wide molecul...
The primary function for RNA sequencing (RNA-seq) is to investigate the transcriptome through differ...
Next-generation sequencing (NGS) technologies-based transcriptomic profiling method often called RNA...
peer reviewedNext-generation sequencing (NGS) technologiesbased transcriptomic profiling method ofte...
To detect functional somatic mutations in tumor samples, whole-exome sequencing (WES) is often used ...
This article is part of the supplement: Beyond the Genome: The true gene count, human evolution and ...
RNA-Seq has become the most recently and widely accepted method to evaluate gene expression. Though ...
RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be ...
In recent years, the introduction of massively parallel sequencing platforms for Next Generation Seq...
This book evaluates and comprehensively summarizes the scientific findings that have been achieved t...
Next-generation sequencing (NGS) technologies are now well established and have become a routine ana...
<div><p>Next-generation RNA sequencing (RNA-seq) maps and analyzes transcriptomes and generates data...
<p>This figure outlines the analysis strategies and methods used to identify the best performing met...
RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be ...
SNP detection by RNA-seq L. Xumerle 1 , I. Iacobucci 2 , V. Mijatovic 1 , A. Mori 1 , G. Martinelli ...
Sequencing the human genome empowers translational medicine, facilitating transcriptome-wide molecul...
The primary function for RNA sequencing (RNA-seq) is to investigate the transcriptome through differ...
Next-generation sequencing (NGS) technologies-based transcriptomic profiling method often called RNA...
peer reviewedNext-generation sequencing (NGS) technologiesbased transcriptomic profiling method ofte...
To detect functional somatic mutations in tumor samples, whole-exome sequencing (WES) is often used ...
This article is part of the supplement: Beyond the Genome: The true gene count, human evolution and ...
RNA-Seq has become the most recently and widely accepted method to evaluate gene expression. Though ...
RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pipeline can be ...
In recent years, the introduction of massively parallel sequencing platforms for Next Generation Seq...
This book evaluates and comprehensively summarizes the scientific findings that have been achieved t...
Next-generation sequencing (NGS) technologies are now well established and have become a routine ana...