Results 31 to 40 of about 536,139 (245)
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 +4 more
openaire +4 more sources
PLIT: An alignment-free computational tool for identification of long non-coding RNAs in plant transcriptomic datasets [PDF]
, 2019 Long non-coding RNAs (lncRNAs) are a class of non-coding RNAs which play a significant role in several biological processes. RNA-seq based transcriptome sequencing has been extensively used for identification of lncRNAs.
Deshpande, Sumukh +4 more
core +4 more sources
Deep RNA-Seq profile reveals biodiversity, plant-microbe interactions and a large family of NBS-LRR resistance genes in walnut (Juglans regia) tissues. [PDF]
, 2016 Deep RNA-Seq profiling, a revolutionary method used for quantifying transcriptional levels, often includes non-specific transcripts from other co-existing organisms in spite of stringent protocols. Using the recently published walnut genome sequence as a
Britton, Monica +3 more
core +2 more sources
Diabetes, Metabolic Syndrome and Obesity, 2023 Yue-Ling Peng,1 Yan Zhang,1 Lin Pang,2 Ya-Fang Dong,3 Mu-Ye Li,4 Hui Liao,5 Rong-Shan Li1 1Department of Nephrology, Shanxi Provincial People’s Hospital (Fifth Hospital of Shanxi Medical University), Taiyuan, People’s Republic of China; 2Department of ...
Peng YL +6 more
doaj
RNA-Seq Transcriptomic Profiling
, 2022 This protocol describes the preparation of RNA samples from cell lines generated at CeMM for Illumina based high-throughput sequencing using polyA-enriched library preparation.
Viollet, Coralie +5 more
openaire +3 more sources
RNA-seq: from technology to biology [PDF]
Cellular and Molecular Life Sciences, 2009 Next-generation sequencing technologies are now being exploited not only to analyse static genomes, but also dynamic transcriptomes in an approach termed RNA-seq. Although these powerful and rapidly evolving technologies have only been available for a couple of years, they are already making substantial contributions to our understanding of genome ...
Marguerat, S, Bähler, J
openaire +4 more sources
Frontiers in Bioinformatics, 2023 Introduction: The application of RNA-sequencing has led to numerous breakthroughs related to investigating gene expression levels in complex biological systems.
Ryan S. McClure +4 more
doaj +1 more source
A benchmark for RNA-seq quantification pipelines [PDF]
Genome Biology, 2016 Obtaining RNA-seq measurements involves a complex data analytical process with a large number of competing algorithms as options. There is much debate about which of these methods provides the best approach. Unfortunately, it is currently difficult to evaluate their performance due in part to a lack of sensitive assessment metrics.
Michael I. Love +14 more
openaire +4 more sources
A comparison between whole transcript and 3' RNA sequencing methods using Kapa and Lexogen library preparation methods. [PDF]
, 2019 Background3' RNA sequencing provides an alternative to whole transcript analysis. However, we do not know a priori the relative advantage of each method.
Fuqua, Brie K +6 more
core +1 more source