Results 21 to 30 of about 436,281 (168)

RNA-Seq: revelation of the messengers [PDF]

Trends in Plant Science, 2013
Next-generation RNA-sequencing (RNA-Seq) is rapidly outcompeting microarrays as the technology of choice for whole-transcriptome studies. However, the bioinformatics skills required for RNA-Seq data analysis often pose a significant hurdle for many biologists.
Van Verk, M.C., Hickman, R., Pieterse, C.M.J. and Van Wees, S.C.M.   +6 more
openaire   +4 more sources

An RNA-seq primer for pulmonologists [PDF]

European Respiratory Journal, 2019
With the evolution of high throughput sequencing technologies, the past decade has seen an exponential rise in the use of RNA sequencing (RNA-seq). RNA-seq has deepened our understanding of biological systems to unprecedented levels of resolution, identifying not only gene expression signatures but also regulatory RNA molecules that may play critical ...
Sarah G. Chu, Sergio Poli De Frias, Benjamin A. Raby, Ivan O. Rosas   +3 more
openaire   +2 more sources

RNA-Seq analysis in MeV [PDF]

Bioinformatics, 2011
Abstract Summary: RNA-Seq is an exciting methodology that leverages the power of high-throughput sequencing to measure RNA transcript counts at an unprecedented accuracy. However, the data generated from this process are extremely large and biologist-friendly tools with which to analyze it are sorely lacking. MultiExperiment Viewer (MeV)
Eleanor Howe, Raktim Sinha, Daniel Schlauch, John Quackenbush   +3 more
openaire   +3 more sources

Uncovering the Complexity of Transcriptomes with RNA-Seq [PDF]

Journal of Biomedicine and Biotechnology, 2010
In recent years, the introduction of massively parallel sequencing platforms for Next Generation Sequencing (NGS) protocols, able to simultaneously sequence hundred thousand DNA fragments, dramatically changed the landscape of the genetics studies.
Costa V, Angelini C, De Feis I, Ciccodicola A   +3 more
openaire   +4 more sources

RNA-Seq Assembly – Are We There Yet? [PDF]

Frontiers in Plant Science, 2012
Transcriptomic sequence resources represent invaluable assets for research, in particular for non-model species without a sequenced genome. To date, the Next Generation Sequencing technologies 454/Roche and Illumina have been used to generate transcriptome sequence databases by mRNA-Seq for more than fifty different plant species.
Schliesky, Simon, Gowik, Udo, Weber, Andreas P. M., Bräutigam, Andrea   +3 more
openaire   +4 more sources

Supersplat—spliced RNA-seq alignment [PDF]

Bioinformatics, 2010
Abstract Motivation: High-throughput sequencing technologies have recently made deep interrogation of expressed transcript sequences practical, both economically and temporally. Identification of intron/exon boundaries is an essential part of genome annotation, yet remains a challenge.
Douglas W. Bryant Jr., Rongkun Shen, Henry D. Priest, Weng-Keen Wong, Todd C. Mockler   +4 more
openaire   +3 more sources

Improving RNA-Seq Precision with MapAl [PDF]

Frontiers in Genetics, 2012
With currently available RNA-Seq pipelines, expression estimates for most genes are very noisy. We here introduce MapAl, a tool for RNA-Seq expression profiling that builds on the established programs Bowtie and Cufflinks. In the post-processing of RNA-Seq reads, it incorporates gene models already at the stage of read alignment, increasing the number ...
Paweł P Łabaj, Bryan E Linggi, H Steven eWiley, David P Kreil, David P Kreil   +4 more
openaire   +3 more sources

RNA‐Seq for Bacterial Gene Expression [PDF]

Current Protocols in Nucleic Acid Chemistry, 2018
AbstractRNA sequencing (RNA‐seq) has become the preferred method for global quantification of bacterial gene expression. With the continued improvements in sequencing technology and data analysis tools, the most labor‐intensive and expensive part of an RNA‐seq experiment is the preparation of sequencing libraries, which is also essential for the ...
Poulsen, Line Dahl, Vinther, Jeppe
openaire   +3 more sources

Prime-seq, efficient and powerful bulk RNA sequencing

Genome Biology, 2022
Cost-efficient library generation by early barcoding has been central in propelling single-cell RNA sequencing. Here, we optimize and validate prime-seq, an early barcoding bulk RNA-seq method.
Aleksandar Janjic, Lucas E. Wange, Johannes W. Bagnoli, Johanna Geuder, Phong Nguyen, Daniel Richter, Beate Vieth, Binje Vick, Irmela Jeremias, Christoph Ziegenhain, Ines Hellmann, Wolfgang Enard   +11 more
doaj   +1 more source

Traditional versus 3′ RNA-seq in a non-model species

Genomics Data, 2017
One limitation of the widely used RNA-seq method is that long transcripts are represented by more reads than shorter transcripts, resulting in a biased estimation of expression levels. The 3′ RNA-seq method, which yields only one sequence per transcript,
Sophie Tandonnet, Tatiana Teixeira Torres   +1 more
doaj   +1 more source