Results 11 to 20 of about 387,626 (265)

PANDORA-Seq unveils the hidden small noncoding RNA landscape in atherosclerosis of LDL receptor-deficient mice

Journal of Lipid Research, 2023
Small noncoding RNAs (sncRNAs) play diverse roles in numerous biological processes. While the widely used RNA sequencing (RNA-Seq) method has advanced sncRNA discovery, RNA modifications can interfere with the complementary DNA library construction ...
Rebecca Hernandez, Junchao Shi, Jingwei Liu, Xiuchun Li, Jake Wu, Linlin Zhao, Tong Zhou, Qi Chen, Changcheng Zhou   +8 more
doaj   +1 more source

Unleashing the power within short-read RNA-seq for plant research: Beyond differential expression analysis and toward regulomics

Frontiers in Plant Science, 2022
RNA-seq has become a state-of-the-art technique for transcriptomic studies. Advances in both RNA-seq techniques and the corresponding analysis tools and pipelines have unprecedently shaped our understanding in almost every aspects of plant sciences ...
Min Tu, Jian Zeng, Juntao Zhang, Guozhi Fan, Guangsen Song   +4 more
doaj   +1 more source

RNA-SEQ: A GLANCE AT TECHNOLOGIES AND METHODOLOGIES

Acta Biológica Colombiana, 2015
RNA Sequencing (RNA-Seq) is a newly born tool that has revolutionized the post-genomic era. The data produced by RNA-Seq, sequencing technologies and use of bioinformatics are exploding rapidly.
Seyed Mehdi Jazayeri, Luz Marina Melgarejo-Muñoz, Hernán Mauricio Romero   +2 more
doaj   +1 more source

Long read isoform sequencing reveals hidden transcriptional complexity between cattle subspecies

BMC Genomics, 2023
The Iso-Seq method of full-length cDNA sequencing is suitable to quantify differentially expressed genes (DEGs), transcripts (DETs) and transcript usage (DTU).
Yan Ren, Elizabeth Tseng, Timothy P. L. Smith, Stefan Hiendleder, John L. Williams, Wai Yee Low   +5 more
doaj   +1 more source

Genetic circuit characterization and debugging using RNA‐seq

Molecular Systems Biology, 2017
Genetic circuits implement computational operations within a cell. Debugging them is difficult because their function is defined by multiple states (e.g., combinations of inputs) that vary in time.
Thomas E Gorochowski, Amin Espah Borujeni, Yongjin Park, Alec AK Nielsen, Jing Zhang, Bryan S Der, D Benjamin Gordon, Christopher A Voigt   +7 more
doaj   +1 more source

intePareto: an R package for integrative analyses of RNA-Seq and ChIP-Seq data

BMC Genomics, 2020
Background RNA-Seq, the high-throughput sequencing (HT-Seq) of mRNAs, has become an essential tool for characterizing gene expression differences between different cell types and conditions.
Yingying Cao, Simo Kitanovski, Daniel Hoffmann   +2 more
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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.
Bryant, Douglas W., Shen, Rongkun, Priest, Henry D., Wong, Weng-Keen, Mockler, Todd C.   +4 more
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Integrated Analysis of Single-Cell RNA-Seq and Bulk RNA-Seq Combined with Multiple Machine Learning Identified a Novel Immune Signature in Diabetic Nephropathy

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, Zhang Y, Pang L, Dong YF, Li MY, Liao H, Li RS   +6 more
doaj  

3′ RNA-seq is superior to standard RNA-seq in cases of sparse data but inferior at identifying toxicity pathways in a model organism

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, Yvonne Rericha, Katrina M. Waters, Katrina M. Waters, Robyn L. Tanguay   +4 more
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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