Quantitative transcriptome analysis using RNA-seq
C Külahoglu, A Bräutigam - Plant Circadian Networks: Methods and …, 2014 - Springer
RNA-seq has emerged as the technology of choice to quantify gene expression. This
technology is a convenient accurate tool to quantify diurnal changes in gene expression …
technology is a convenient accurate tool to quantify diurnal changes in gene expression …
A high-throughput 3′-Tag RNA sequencing for large-scale time-series transcriptome studies
X Weng, TE Juenger - Plant Circadian Networks: Methods and Protocols, 2022 - Springer
RNA sequencing (RNA-seq) has proven invaluable for exploring gene expression variation
under complex environmental cues. However, the cost of standard RNA-seq (eg, Illumina …
under complex environmental cues. However, the cost of standard RNA-seq (eg, Illumina …
Global profiling of the circadian transcriptome using microarrays
Circadian rhythms are biological cycles with a period length of approximately 24 h that are
generated by endogenous clocks. The application of microarrays for high-throughput …
generated by endogenous clocks. The application of microarrays for high-throughput …
A normalization method that controls for total RNA abundance affects the identification of differentially expressed genes, revealing bias toward morning‐expressed …
K Laosuntisuk, A Vennapusa, IM Somayanda… - The Plant …, 2024 - Wiley Online Library
SUMMARY RNA‐Sequencing is widely used to investigate changes in gene expression at
the transcription level in plants. Most plant RNA‐Seq analysis pipelines base the …
the transcription level in plants. Most plant RNA‐Seq analysis pipelines base the …
Circadian phase has profound effects on differential expression analysis
Circadian rhythms are physiological and behavioral cycles with a period of approximately 24
hours that are generated by an endogenous clock, or oscillator. Found in diverse organisms …
hours that are generated by an endogenous clock, or oscillator. Found in diverse organisms …
Analysis of RNA-Seq data using TopHat and Cufflinks
S Ghosh, CKK Chan - Plant Bioinformatics: Methods and Protocols, 2016 - Springer
The recent advances in high throughput RNA sequencing (RNA-Seq) have generated huge
amounts of data in a very short span of time for a single sample. These data have required …
amounts of data in a very short span of time for a single sample. These data have required …
Lasy-Seq: a high-throughput library preparation method for RNA-Seq and its application in the analysis of plant responses to fluctuating temperatures
RNA-Seq is a whole-transcriptome analysis method used to research biological
mechanisms and functions but its use in large-scale experiments is limited by its high cost …
mechanisms and functions but its use in large-scale experiments is limited by its high cost …
RNA-Seq: revelation of the messengers
Next-generation RNA-sequencing (RNA-Seq) is rapidly outcompeting microarrays as the
technology of choice for whole-transcriptome studies. However, the bioinformatics skills …
technology of choice for whole-transcriptome studies. However, the bioinformatics skills …
Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays
Background Organisms are able to anticipate changes in the daily environment with an
internal oscillator know as the circadian clock. Transcription is an important mechanism in …
internal oscillator know as the circadian clock. Transcription is an important mechanism in …
Discovering new biology through sequencing of RNA
APM Weber - Plant physiology, 2015 - academic.oup.com
Abstract Sequencing of RNA (RNA-Seq) was invented approximately 1 decade ago and has
since revolutionized biological research. This update provides a brief historic perspective on …
since revolutionized biological research. This update provides a brief historic perspective on …