Results 11 to 20 of about 1,674,122 (352)

Development of strategies for SNP detection in RNA-seq data: application to lymphoblastoid cell lines and evaluation using 1000 Genomes data. [PDF]

PLoS ONE, 2013
Next-generation RNA sequencing (RNA-seq) maps and analyzes transcriptomes and generates data on sequence variation in expressed genes. There are few reported studies on analysis strategies to maximize the yield of quality RNA-seq SNP data.
Emma M Quinn, Paul Cormican, Elaine M Kenny, Matthew Hill, Richard Anney, Michael Gill, Aiden P Corvin, Derek W Morris   +7 more
doaj   +1 more source

iPseU-TWSVM: Identification of RNA pseudouridine sites based on TWSVM

Mathematical Biosciences and Engineering, 2022
Biological sequence analysis is an important basic research work in the field of bioinformatics. With the explosive growth of data, machine learning methods play an increasingly important role in biological sequence analysis. By constructing a classifier
Mingshuai Chen, Xin Zhang , Ying Ju, Qing Liu, Yijie Ding   +4 more
doaj   +1 more source

Structural Alignment and Covariation Analysis of RNA Sequences [PDF]

BIO-PROTOCOL, 2020
RNA molecules adopt defined structural conformations that are essential to exert their function. During the course of evolution, the structure of a given RNA can be maintained via compensatory base-pair changes that occur among covarying nucleotides in paired regions.
Nicolas J. Tourasse, Fabien Darfeuille
openaire   +4 more sources

Deciphering the RRM-RNA recognition code: A computational analysis.

PLoS Computational Biology, 2023
RNA recognition motifs (RRM) are the most prevalent class of RNA binding domains in eucaryotes. Their RNA binding preferences have been investigated for almost two decades, and even though some RRM domains are now very well described, their RNA ...
Joel Roca-Martínez, Hrishikesh Dhondge, Michael Sattler, Wim F Vranken   +3 more
doaj   +1 more source

RNA Sequencing Analysis of Salivary Extracellular RNA [PDF]

, 2016
Salivary biomarkers for disease detection, diagnostic and prognostic assessments have become increasingly well established in recent years. In this chapter we explain the current leading technology that has been used to characterize salivary non-coding RNAs (ncRNAs) from the extracellular RNA (exRNA) fraction: HiSeq from Illumina® platform for RNA ...
Majem, Blanca, Li, Feng, Sun, Jie, Wong, David TW   +3 more
openaire   +6 more sources

SePIA: RNA and small RNA sequence processing, integration, and analysis [PDF]

BioData Mining, 2016
Large-scale sequencing experiments are complex and require a wide spectrum of computational tools to extract and interpret relevant biological information. This is especially true in projects where individual processing and integrated analysis of both small RNA and complementary RNA data is needed.
Icay, Katherine, Chen, Ping, Cervera Taboada, Alejandra, Rantanen, Ville, Lehtonen, Rainer, Hautaniemi, Sampsa   +5 more
openaire   +4 more sources

Big Data Analytics in RNA-sequencing

Korean Journal of Clinical Laboratory Science, 2023
As next-generation sequencing has been developed and used widely, RNA-sequencing (RNA-seq) has rapidly emerged as the first choice of tools to validate global transcriptome profiling.
Sung-Hun WOO, Byung Chul JUNG
doaj   +1 more source

Circular RNA Expression Profiles in Nasopharyngeal Carcinoma by Sequence Analysis

Frontiers in Oncology, 2020
Circular RNAs (circRNAs), as a burgeoning sort of non-coding RNAs (ncRNAs), can regulate the expression of parental genes as miRNA sponges. This study was designed to explore the circRNA expression profile of nasopharyngeal carcinoma (NPC).
Jing Yang, Yongqian Gong, Qingshan Jiang, Lijun Liu, Shuyan Li, Quanjun Zhou, Fang Huang, Zhifeng Liu   +7 more
doaj   +1 more source

Power Analysis of Single Cell RNA-Sequencing Experiments [PDF]

Nature Methods, 2016
AbstractHigh-throughput single cell RNA sequencing (scRNA-seq) has become an established and powerful method to investigate transcriptomic cell-to-cell variation, and has revealed new cell types, and new insights into developmental process and stochasticity in gene expression.
Kedar Nath Natarajan, Kedar Nath Natarajan, Sarah A. Teichmann, Sarah A. Teichmann, Lam-Ha Ly, Iain C. Macaulay, Ricardo J. Miragaia, Ricardo J. Miragaia, Valentine Svensson, Valentine Svensson, Ana Cvejic, Ana Cvejic, Ana Cvejic, Charlotte Labalette, Charlotte Labalette, Charlotte Labalette   +15 more
openaire   +7 more sources

Identification and sequence determination of a novel double-stranded RNA mycovirus from the entopathogenic fungus Beauveria bassina [PDF]

, 2015
The final publication is available at Springer via https://doi.org/10.1007/s00705-014-2332-8.An isolate of the entomopathogenic fungus Beauveria bassiana was found to contain five double-stranded (ds) RNA elements ranging from 1.5 to more than 3 kbp. The
Coutts, Robert H.A., Kotta-Loizou, I., Sipkova, J.   +2 more
core   +1 more source