RNA-based high-throughput sequencing
The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy
... if RNA- based regulation is not taken into ...combine RNA-centric data and analysis tools with other types of experimental data such as RNA-seq or ...the RNA workbench, a comprehensive ...
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The RNA workbench: Best practices for RNA and high-throughput sequencing bioinformatics in Galaxy
... if RNA- based regulation is not taken into ...combine RNA-centric data and analysis tools with other types of experimental data such as RNA-seq or ...the RNA workbench, a comprehensive ...
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Characterizing alternative splicing and long non-coding RNA with high-throughput sequencing technology
... paths based on mathematical assumptions, which may not be real in ...the RNA-seq data may not reveal the real composition of the ...read RNA-seq and the best solution would be shifting to a long read ...
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Genome-wide identification of RNA editing in seven porcine tissues by matched DNA and RNA high-throughput sequencing
... the RNA editome in pigs based on strand-specific RNA sequencing data and whole-genome sequencing data of the brain, fat, heart, liver, lung, muscle and ovary from three 180-day-old ...
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Standards for Sequencing Viral Genomes in the Era of High Throughput Sequencing
... Countermeasure development. Advancements in our capa- bilities to sequence viral genomes are changing the way we coun- teract global pandemics and acts of bioterrorism. There are two important aspects of countermeasure ...
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High throughput RNA interference screening using pooled shRNA libraries and next generation sequencing
... since sequencing cannot be easily saturated in the same way that hybridization can, thus enabling a greater separation of true effects from background ...Thirdly, sequencing of tags is both scalable and ...
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High-Throughput Sequencing of RNA Silencing-Associated Small RNAs in Olive (Olea europaea L.)
... Gene targets were computationally predicted for both conserved and candidate novel miRNAs, although only target genes for a few conserved miRNAs proved to be real targets. Validate targets had major cleavage sites that ...
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Genome-wide transcriptome analysis in murine neural retina using high-throughput RNA sequencing
... . Based on transcripts discovered in both replicates the mean and median expression levels were ...with high- est expression in both replicates were three retinal disease genes: rho- dopsin (Rho) ...
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High Throughput Next Generation Sequencing of Polioviruses
... Sanger-based sequencing of the viral protein 1 (VP1) capsid region is currently the standard method for PV ...whole-genome sequencing protocols for poliovirus isolates and FTA cards using ...
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Functional Interpretation of High-Throughput Sequencing Data.
... sample RNA) can be PCR amplified to determine levels of expression based on the fluorescent ...for high- throughput data already existed for microarrays when next-generation sequencing ...
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Gene expression and splicing alterations analyzed by high throughput RNA sequencing of chronic lymphocytic leukemia specimens.
... 40–50 % of the DEG genes demonstrate loss of expres- sion in CLL specimens as compared to B cells. FOS and JUN down regulation in CLL specimens has been re- ported but in this study, the expression was not signifi- ...
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Quantitative high-throughput genomics in RNA viruses
... and high-throughput sequencing to measure the replication capacity of single nucleotide mutations across the entire PB1 ...viral RNA dependent RNA polymerase (vRdRp), we performed ...
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High-Throughput RNA Sequencing-Based Virome Analysis of 50 Lymphoma Cell Lines from the Cancer Cell Line Encyclopedia Project
... Using high-throughput RNA sequencing data from 50 common lymphoma cell culture models from the Cancer Cell Line Ency- clopedia project, we performed an unbiased global interrogation for the ...
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Ultra-high throughput sequencing-based small RNA discovery and discrete statistical biomarker analysis in a collection of cervical tumours and matched controls
... Small RNA profiling by deep sequencing has been applied in an increasing variety of biological situations (for example, ...profiling, sequencing-based profiling methods also raise new ...
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Analysis of Paramyxovirus Transcription and Replication by High-Throughput Sequencing
... total RNA was isolated at various times ...mitochondrial RNA, the samples were subjected to library preparation, sequencing, and directional analysis, followed by bioinformatical removal of residual ...
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Analysis of paramyxovirus transcription and replication by high throughput sequencing
... total RNA was isolated at various times ...mitochondrial RNA, the samples were subjected to library preparation, sequencing, and directional analysis, followed by bioinformatical removal of residual ...
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Read Annotation Pipeline for High-Throughput Sequencing Data
... filter based on choosing among otherwise equal mappings the single mapping that has the most surrounding mappings supporting ...different High-Throughput Sequencing (HTS) ...on RNA-seq ...
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Mapping human pluripotent stem cell differentiation pathways using high throughput single cell RNA sequencing
... use high throughput single-cell RNA-sequencing (scRNA-seq), based on optimized microfluidic circuits, to profile early differentiation lineages in the human embryoid body ...
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Quartz Seq2: a high throughput single cell RNA sequencing method that effectively uses limited sequence reads
... Identification of differentially expressed genes for each cluster Marker genes for each cluster were identified based on a generalized linear model. The difference in de- viance between two models, in which the ...
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Analysis of the Aspergillus nidulans transcriptome using high-throughput RNA sequencing
... Compiling individual libraries into a single dataset shows a significant increase in the proportion of the genome being expressed, indicating variance in gene expression profiles between samples grown in different ...
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