(Q34360830)

1 August 2017

title

Batch effect removal methods for microarray gene expression data integration: a survey (English)

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1 August 2017

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1 reference

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A22851511

8 January 2025

transcriptome

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A22851511

8 January 2025

10

Ann Nowé

1 reference

1 August 2017

Cosmin Lazar

1

1 reference

1 August 2017

Stijn Meganck

2

1 reference

1 August 2017

Jonatan Taminau

3

1 reference

1 August 2017

David Steenhoff

4

1 reference

1 August 2017

Alain Coletta

5

1 reference

1 August 2017

Colin Molter

6

1 reference

1 August 2017

Robin Duque

8

1 reference

1 August 2017

Hugues Bersini

9

1 reference

1 August 2017

David Y. Weiss-Solís

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A22851511

8 January 2025

publication date

31 July 2012

1 reference

1 August 2017

language of work or name

English

1 reference

National Center for Biotechnology Information

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=22851511

Briefings in Bioinformatics

8 January 2025

number of pages

22

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based on heuristic

inferred from page(s)

published in

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1 August 2017

volume

14

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1 August 2017

issue

4

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1 August 2017

page(s)

469-490

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Integrative analysis of the cancer transcriptome

1 August 2017

cites work

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

ArrayExpress update--an archive of microarray and high-throughput sequencing-based functional genomics experiments

21 January 2018

1 reference

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Thousands of samples are needed to generate a robust gene list for predicting outcome in cancer

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Merging two gene-expression studies via cross-platform normalization

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Adjustment of systematic microarray data biases

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Tackling the widespread and critical impact of batch effects in high-throughput data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

The removal of multiplicative, systematic bias allows integration of breast cancer gene expression datasets - improving meta-analysis and prediction of prognosis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Adjusting batch effects in microarray expression data using empirical Bayes methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

How to Deal with Batch Effect in Sequential Microarray Experiments?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Removing batch effects in analysis of expression microarray data: an evaluation of six batch adjustment methods

21 January 2018

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https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

A global map of human gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Cross-site comparison of gene expression data reveals high similarity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Sources of variation in Affymetrix microarray experiments.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Reproducibility, sources of variability, pooling, and sample size: important considerations for the design of high-density oligonucleotide array experiments

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Sources of variability and effect of experimental approach on expression profiling data interpretation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

A comparison of batch effect removal methods for enhancement of prediction performance using MAQC-II microarray gene expression data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Empirical comparison of cross-platform normalization methods for gene expression data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Harshlight: a "corrective make-up" program for microarray chips

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Robust estimators for expression analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Exploration, normalization, and summaries of high density oligonucleotide array probe level data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Frozen robust multiarray analysis (fRMA).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

lumi: a pipeline for processing Illumina microarray

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Batch effect correction for genome-wide methylation data with Illumina Infinium platform

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Universal Reference RNA as a standard for microarray experiments

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

An attempt for combining microarray data sets by adjusting gene expressions

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Singular value decomposition for genome-wide expression data processing and modeling

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Capturing heterogeneity in gene expression studies by surrogate variable analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Thawing Frozen Robust Multi-array Analysis (fRMA)

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Cross-platform analysis of cancer microarray data improves gene expression based classification of phenotypes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

A summarization approach for Affymetrix GeneChip data using a reference training set from a large, biologically diverse database

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

A gene expression bar code for microarray data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes

21 January 2018

1 reference

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A comparison of normalization methods for high density oligonucleotide array data based on variance and bias

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

DSGeo: software tools for cross-platform analysis of gene expression data in GEO.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

WebArrayDB: cross-platform microarray data analysis and public data repository

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Joint analysis of two microarray gene-expression data sets to select lung adenocarcinoma marker genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

On Estimation of a Probability Density Function and Mode

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Novel and simple transformation algorithm for combining microarray data sets.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Orthogonal projections to latent structures as a strategy for microarray data normalization

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

Empirical Bayes accomodation of batch-effects in microarray data using identical replicate reference samples: application to RNA expression profiling of blood from Duchenne muscular dystrophy patients

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIB%2FBBS037

inSilicoDb: an R/Bioconductor package for accessing human Affymetrix expert-curated datasets from GEO

21 January 2018

4

1 reference

Prediction of cancer outcome with microarrays: a multiple random validation strategy

8 January 2025

6

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Impact of pre-analytical handling on bone marrow mRNA gene expression

8 January 2025

21

1 reference

Quantification of sources of variation and accuracy of sequence discrimination in a replicated microarray experiment

8 January 2025

23

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Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection

8 January 2025

32

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8 January 2025

Nucleic Acids Research

52

35

91

2007

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8 January 2025

Identifiers

DOI

10.1093/BIB/BBS037

1 reference

journals/bib/LazarMTSCMSDBN13

1 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference