Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study. (Q34204436)

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13 March 2020

title

Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study (English)

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13 March 2020

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Sagar Chhangawala

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Christopher E Mason

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Natalia Garcia-Reyero

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Natàlia Garcia-Reyero

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13 March 2020

author name string

Sheng Li

1

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13 March 2020

Scott W Tighe

2

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13 March 2020

Charles M Nicolet

3

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13 March 2020

Deborah Grove

4

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William Farmerie

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Agnes Viale

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Chris Wright

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Peter A Schweitzer

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Yuan Gao

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Dewey Kim

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Joe Boland

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Belynda Hicks

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Ryan Kim

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Nadereh Jafari

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Nalini Raghavachari

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Jorge Gandara

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Cynthia Hendrickson

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David Roberson

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Jeffrey Rosenfeld

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Todd Smith

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Jason G Underwood

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May Wang

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Paul Zumbo

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Don A Baldwin

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George S Grills

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publication date

24 August 2014

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13 March 2020

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volume

32

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issue

9

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page(s)

915-925

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describes a project that uses

13 March 2020

1 reference

A single-molecule long-read survey of the human transcriptome

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Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories

5 July 2018

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The new sequencer on the block: comparison of Life Technology's Proton sequencer to an Illumina HiSeq for whole-exome sequencing

5 July 2018

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Comparative analysis of RNA sequencing methods for degraded or low-input samples

5 July 2018

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RNAseq versus genome-predicted transcriptomes: a large population of novel transcripts identified in an Illumina-454 Hydra transcriptome

5 July 2018

1 reference

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Comparison of sequencing platforms for single nucleotide variant calls in a human sample

5 July 2018

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The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics

5 July 2018

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An integrated map of genetic variation from 1,092 human genomes

5 July 2018

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STAR: ultrafast universal RNA-seq aligner

5 July 2018

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Selective depletion of rRNA enables whole transcriptome profiling of archival fixed tissue

5 July 2018

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Synthetic spike-in standards improve run-specific systematic error analysis for DNA and RNA sequencing

5 July 2018

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Comparison of next-generation sequencing systems

5 July 2018

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A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers

5 July 2018

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RSeQC: quality control of RNA-seq experiments

5 July 2018

1 reference

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Performance comparison of benchtop high-throughput sequencing platforms

5 July 2018

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Accurate RT-qPCR gene expression analysis on cell culture lysates

5 July 2018

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RNA-Seq Atlas--a reference database for gene expression profiling in normal tissue by next-generation sequencing.

5 July 2018

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The sva package for removing batch effects and other unwanted variation in high-throughput experiments

5 July 2018

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GC-content normalization for RNA-Seq data

5 July 2018

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An RNA-Seq strategy to detect the complete coding and non-coding transcriptome including full-length imprinted macro ncRNAs

5 July 2018

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Differential expression in RNA-seq: a matter of depth

5 July 2018

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Synthetic spike-in standards for RNA-seq experiments

5 July 2018

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Sequencing technologies and genome sequencing

5 July 2018

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Characterization and improvement of RNA-Seq precision in quantitative transcript expression profiling.

5 July 2018

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RNA-seq: technical variability and sampling.

5 July 2018

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Field guide to next-generation DNA sequencers

5 July 2018

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RNA-sequence analysis of human B-cells

5 July 2018

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Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries

5 July 2018

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Analysis and design of RNA sequencing experiments for identifying isoform regulation

5 July 2018

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A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species

5 July 2018

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Impact of RNA degradation on gene expression profiling.

5 July 2018

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The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models

5 July 2018

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The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

5 July 2018

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Biases in Illumina transcriptome sequencing caused by random hexamer priming

5 July 2018

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RNA-Seq: a method for comprehensive transcriptome analysis

5 July 2018

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edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

5 July 2018

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HTqPCR: high-throughput analysis and visualization of quantitative real-time PCR data in R.

5 July 2018

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The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments

5 July 2018

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RNA-Seq: a revolutionary tool for transcriptomics

5 July 2018

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Alternative isoform regulation in human tissue transcriptomes

5 July 2018

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RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays

5 July 2018

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Mapping and quantifying mammalian transcriptomes by RNA-Seq

5 July 2018

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Capturing heterogeneity in gene expression studies by surrogate variable analysis

5 July 2018

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Moderated statistical tests for assessing differences in tag abundance

5 July 2018

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Small-sample estimation of negative binomial dispersion, with applications to SAGE data

5 July 2018

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qBase relative quantification framework and software for management and automated analysis of real-time quantitative PCR data

5 July 2018

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The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements

5 July 2018

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Assessing the accuracy of prediction algorithms for classification: an overview

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Identification of novel transcripts in annotated genomes using RNA-Seq

5 July 2018

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A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing

21 January 2018

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Evaluation of DNA microarray results with quantitative gene expression platforms

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Advancing RNA-Seq analysis

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PubMed

https://pubmed.ncbi.nlm.nih.gov/25150835

12 December 2020

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Formaldehyde substitute fixatives: effects on nucleic acid preservation

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Identifiers

DOI

10.1038/NBT.2972

1 reference

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13 March 2020

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13 March 2020

PubMed publication ID

25150835

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