A test metric for assessing single-cell RNA-seq batch correction (Q59682287)

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15 April 2020

title

A test metric for assessing single-cell RNA-seq batch correction (English)

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15 April 2020

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15 April 2020

Zhichao Miao

2

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15 April 2020

F. Alexander Wolf

3

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15 April 2020

Sarah Teichmann

4

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15 April 2020

Fabian J. Theis

5

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15 April 2020

publication date

20 December 2018

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15 April 2020

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15 April 2020

volume

16

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15 April 2020

issue

1

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15 April 2020

page(s)

43-49

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Batch effects and the effective design of single-cell gene expression studies

15 April 2020

cites work

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Low Dimensionality in Gene Expression Data Enables the Accurate Extraction of Transcriptional Programs from Shallow Sequencing

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Missing data and technical variability in single-cell RNA-sequencing experiments

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Adjusting batch effects in microarray expression data using empirical Bayes methods

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Integrating single-cell transcriptomic data across different conditions, technologies, and species

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

limma powers differential expression analyses for RNA-sequencing and microarray studies

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Accounting for technical noise in single-cell RNA-seq experiments.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Single Cell RNA-Sequencing of Pluripotent States Unlocks Modular Transcriptional Variation

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Cell fate inclination within 2-cell and 4-cell mouse embryos revealed by single-cell RNA sequencing

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Identification of key factors conquering developmental arrest of somatic cell cloned embryos by combining embryo biopsy and single-cell sequencing

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Heterogeneity in Oct4 and Sox2 Targets Biases Cell Fate in 4-Cell Mouse Embryos.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Lineage-Specific Profiling Delineates the Emergence and Progression of Naive Pluripotency in Mammalian Embryogenesis

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

The landscape of accessible chromatin in mammalian preimplantation embryos

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Salmon provides fast and bias-aware quantification of transcript expression

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

A benchmark for RNA-seq quantification pipelines

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Multiplexed droplet single-cell RNA-sequencing using natural genetic variation

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Normalization of RNA-seq data using factor analysis of control genes or samples

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

SCnorm: robust normalization of single-cell RNA-seq data

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

A general and flexible method for signal extraction from single-cell RNA-seq data.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

f-scLVM: scalable and versatile factor analysis for single-cell RNA-seq.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

An accurate and robust imputation method scImpute for single-cell RNA-seq data.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

SAVER: gene expression recovery for single-cell RNA sequencing.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Recovering Gene Interactions from Single-Cell Data Using Data Diffusion

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

SCANPY: large-scale single-cell gene expression data analysis.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

A comparison of single-cell trajectory inference methods: towards more accurate and robust tools

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

1 reference

7 January 2021

Silhouettes: A graphical aid to the interpretation and validation of cluster analysis

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Normalizing single-cell RNA sequencing data: challenges and opportunities

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Pooling across cells to normalize single-cell RNA sequencing data with many zero counts.

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

Splatter: simulation of single-cell RNA sequencing data

1 reference

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

7 January 2021

https://api.crossref.org/works/10.1038%2FS41592-018-0254-1

1 reference

7 January 2021

Erratum to: A benchmark for RNA-seq quantification pipelines.

1 reference

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