Results 61 to 70 of about 536,139 (245)

RNA‐Seq for Bacterial Gene Expression [PDF]

open access: yesCurrent 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

Near-optimal RNA-Seq quantification [PDF]

open access: yes, 2015
We present a novel approach to RNA-Seq quantification that is near optimal in speed and accuracy. Software implementing the approach, called kallisto, can be used to analyze 30 million unaligned paired-end RNA-Seq reads in less than 5 minutes on a ...
Bray, Nicolas   +3 more
core   +1 more source

Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications [PDF]

open access: yes, 2018
Dropout events in single-cell RNA sequencing (scRNA-seq) cause many transcripts to go undetected and induce an excess of zero read counts, leading to power issues in differential expression (DE) analysis.
Clement, Lieven   +8 more
core   +7 more sources

COEX-Seq: Convert a Variety of Measurements of Gene Expression in RNA-Seq [PDF]

open access: yesGenomics & Informatics, 2018
Next generation sequencing (NGS), a high-throughput DNA sequencing technology, is widely used for molecular biological studies. In NGS, RNA-sequencing (RNA-Seq), which is a short-read massively parallel sequencing, is a major quantitative transcriptome ...
Sang Cheol Kim   +2 more
doaj   +1 more source

Comparison of reproducibility, accuracy, sensitivity, and specificity of miRNA quantification platforms [PDF]

open access: yes, 2019
Given the increasing interest in their use as disease biomarkers, the establishment of reproducible, accurate, sensitive, and specific platforms for microRNA (miRNA) quantification in biofluids is of high priority.
Barczak, Andrea J   +8 more
core   +1 more source

Comparison of RNA-Seq and Microarray Gene Expression Platforms for the Toxicogenomic Evaluation of Liver From Short-Term Rat Toxicity Studies

open access: yesFrontiers in Genetics, 2019
Gene expression profiling is a useful tool to predict and interrogate mechanisms of toxicity. RNA-Seq technology has emerged as an attractive alternative to traditional microarray platforms for conducting transcriptional profiling.
Mohan S. Rao   +6 more
doaj   +1 more source

DeLTa-Seq: direct-lysate targeted RNA-Seq from crude tissue lysate

open access: yesPlant Methods, 2022
Background Quantification of gene expression such as RNA-Seq is a popular approach to study various biological phenomena. Despite the development of RNA-Seq library preparation methods and sequencing platforms in the last decade, RNA extraction remains ...
Makoto Kashima   +6 more
doaj   +1 more source

VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis [PDF]

open access: yesBMC Bioinformatics, 2018
RNA sequencing has become a ubiquitous technology used throughout life sciences as an effective method of measuring RNA abundance quantitatively in tissues and cells. The increase in use of RNA-seq technology has led to the continuous development of new tools for every step of analysis from alignment to downstream pathway analysis. However, effectively
Henry W. Long   +15 more
openaire   +5 more sources

Polyribosomal RNA-Seq reveals the decreased complexity and diversity of the Arabidopsis translatome.

open access: yesPLoS ONE, 2015
Recent RNA-seq studies reveal that the transcriptomes in animals and plants are more complex than previously thought, leading to the inclusion of many more splice isoforms in annotated genomes. However, it is possible that a significant proportion of the
Xingtan Zhang   +4 more
doaj   +1 more source

Systematic evaluation of spliced alignment programs for RNA-seq data [PDF]

open access: yes, 2018
High-throughput RNA sequencing is an increasingly accessible method for studying gene structure and activity on a genome-wide scale. A critical step in RNA-seq data analysis is the alignment of partial transcript reads to a reference genome sequence.
Bertone, P   +10 more
core   +1 more source

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