Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors (Q57235290)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

title

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

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

nearest neighbour algorithm

22 March 2020

main subject

1 reference

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

Aaron Lun

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

Michael D Morgan

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

John Marioni

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

author name string

Laleh Haghverdi

1

0 references

Aaron T L Lun

2

0 references

language of work or name

English

0 references

publication date

2 April 2018

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

volume

36

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

issue

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

page(s)

421-427

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

22 March 2020

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/6152897

based on heuristic

inferred from PubMed Central ID database lookup

cites work

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Massively parallel digital transcriptional profiling of single cells

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Single-cell transcriptomes identify human islet cell signatures and reveal cell-type-specific expression changes in type 2 diabetes.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

A Single-Cell Transcriptome Atlas of the Human Pancreas

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Resolving early mesoderm diversification through single-cell expression profiling

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

De Novo Prediction of Stem Cell Identity using Single-Cell Transcriptome Data

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

destiny: diffusion maps for large-scale single-cell data in R.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

IMMUNOLOGY. An interactive reference framework for modeling a dynamic immune system

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Identification of cell types from single-cell transcriptomes using a novel clustering method.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

svaseq: removing batch effects and other unwanted noise from sequencing data

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Single-cell trajectory detection uncovers progression and regulatory coordination in human B cell development

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Smart-seq2 for sensitive full-length transcriptome profiling in single cells.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Quantifying disorder through conditional entropy: an application to fluid mixing

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

STAR: ultrafast universal RNA-seq aligner

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Adjusting batch effects in microarray expression data using empirical Bayes methods

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6152897

Assessment of batch-correction methods for scRNA-seq data with a new test metric

2 November 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNBT.4091

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/NBT.4091

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

22 March 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29608177%20AND%20SRC:MED&resulttype=core&format=json

22 March 2020

PubMed publication ID

29608177

1 reference