Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories (Q42774137)

7 November 2017

title

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

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7 November 2017

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Ann-Christine Syvänen

17

Ann-Christine Syvänen

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Michael Sammeth

Michael Sammeth

4

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Tuuli Lappalainen

Tuuli Lappalainen

Xavier Estivill i Pallejà

19

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Xavier Estivill

16

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Peter A.C. 't Hoen

1

Peter A C 't Hoen

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Marc R Friedländer

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Jeroen F J Laros

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Alvis Brazma

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Roderic Guigó i Serra

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Roderic Guigó

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Seyed Yahya Anvar

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7 November 2017

Jonas Almlöf

3

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Irina Pulyakhina

5

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Henk P J Buermans

8

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Olof Karlberg

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Mathias Brännvall

10

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GEUVADIS Consortium

11

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Johan T den Dunnen

12

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Gert-Jan B van Ommen

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Ivo G Gut

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Emmanouil T Dermitzakis

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publication date

15 September 2013

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7 November 2017

volume

31

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7 November 2017

issue

11

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7 November 2017

page(s)

1015-1022

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Mapping and quantifying mammalian transcriptomes by RNA-Seq

7 November 2017

cites work

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RNA sequencing: advances, challenges and opportunities

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RNA-Seq: a revolutionary tool for transcriptomics

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Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms

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Relative power and sample size analysis on gene expression profiling data.

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RNA-Seq vs dual- and single-channel microarray data: sensitivity analysis for differential expression and clustering

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A comparison of massively parallel nucleotide sequencing with oligonucleotide microarrays for global transcription profiling

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

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Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays

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Evaluating gene expression in C57BL/6J and DBA/2J mouse striatum using RNA-Seq and microarrays

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A systematic comparison and evaluation of high density exon arrays and RNA-seq technology used to unravel the peripheral blood transcriptome of sickle cell disease

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

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Biases in Illumina transcriptome sequencing caused by random hexamer priming

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Length bias correction for RNA-seq data in gene set analyses

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Transcript length bias in RNA-seq data confounds systems biology

21 January 2018

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Improving RNA-Seq expression estimates by correcting for fragment bias

21 January 2018

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GC-content normalization for RNA-Seq data

21 January 2018

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Understanding mechanisms underlying human gene expression variation with RNA sequencing

21 January 2018

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

21 January 2018

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Evaluation of DNA microarray results with quantitative gene expression platforms

21 January 2018

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The GEM mapper: fast, accurate and versatile alignment by filtration

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SeqBuster, a bioinformatic tool for the processing and analysis of small RNAs datasets, reveals ubiquitous miRNA modifications in human embryonic cells.

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Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries

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A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies

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Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses

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Extent, causes, and consequences of small RNA expression variation in human adipose tissue

21 January 2018

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Summarizing and correcting the GC content bias in high-throughput sequencing

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RSeQC: quality control of RNA-seq experiments

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A tool for RNA sequencing sample identity check

21 January 2018

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MixupMapper: correcting sample mix-ups in genome-wide datasets increases power to detect small genetic effects

21 January 2018

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Capturing heterogeneity in gene expression studies by surrogate variable analysis

21 January 2018

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Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA

21 January 2018

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Transcriptome genetics using second generation sequencing in a Caucasian population

21 January 2018

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Modelling and simulating generic RNA-Seq experiments with the flux simulator

21 January 2018

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Repbase Update, a database of eukaryotic repetitive elements

21 January 2018

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The UCSC Table Browser data retrieval tool

21 January 2018

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Computational analysis of small RNA cloning data

21 January 2018

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

21 January 2018

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Transcriptome and genome sequencing uncovers functional variation in humans

21 January 2018

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PubMed

https://pubmed.ncbi.nlm.nih.gov/24037425

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Performance comparison of one-color and two-color platforms within the MicroArray Quality Control (MAQC) project

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24037425

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NBT.2702

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7 November 2017

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