(Q30582713)

16 November 2017

Unlocking the potential of publicly available microarray data using inSilicoDb and inSilicoMerging R/Bioconductor packages (English)

1 reference

16 November 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A23259851

19 January 2025

11

Ann Nowé

1 reference

16 November 2017

Jonatan Taminau

1

1 reference

16 November 2017

Stijn Meganck

2

1 reference

16 November 2017

Cosmin Lazar

3

1 reference

16 November 2017

David Steenhoff

4

1 reference

16 November 2017

Alain Coletta

5

1 reference

16 November 2017

Colin Molter

6

1 reference

16 November 2017

Robin Duque

7

1 reference

16 November 2017

Virginie de Schaetzen

8

1 reference

16 November 2017

Hugues Bersini

10

1 reference

16 November 2017

David Y. Weiss Solís

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A23259851

19 January 2025

publication date

24 December 2012

1 reference

16 November 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=23259851

https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-335

19 January 2025

work available at URL

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A23259851

https://europepmc.org/articles/PMC3568420

19 January 2025

file format

HyperText Markup Language

online access status

open access

content deliverer

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A23259851

https://europepmc.org/articles/PMC3568420?pdf=render

19 January 2025

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A23259851

http://link.springer.com/content/pdf/10.1186/1471-2105-13-335.pdf

19 January 2025

1 reference

https://api.crossref.org/works/10.1186/1471-2105-13-335

http://link.springer.com/article/10.1186/1471-2105-13-335/fulltext.html

19 January 2025

file format

HyperText Markup Language

1 reference

DOI

https://api.crossref.org/works/10.1186/1471-2105-13-335

19 January 2025

1 reference

16 November 2017

13

1 reference

16 November 2017

335

1 reference

Creative Commons Attribution 2.0 Generic

16 November 2017

start time

1 December 2012

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

publication type of scholarly work

review article

1 reference

InSilico DB genomic datasets hub: an efficient starting point for analyzing genome-wide studies in GenePattern, Integrative Genomics Viewer, and R/Bioconductor

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

R/DWD: distance-weighted discrimination for classification, visualization and batch adjustment

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

NCBI GEO: archive for functional genomics data sets--10 years on

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Frozen robust multiarray analysis (fRMA).

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Adjusting batch effects in microarray expression data using empirical Bayes methods

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Sources of variation in Affymetrix microarray experiments.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Interlaboratory comparability study of cancer gene expression analysis using oligonucleotide microarrays.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Bioconductor: open software development for computational biology and bioinformatics

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Cross-site comparison of gene expression data reveals high similarity

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Adjustment of systematic microarray data biases

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

Lack of correct data format and comparability limits future integrative microarray research

20 June 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-335

Merging two gene-expression studies via cross-platform normalization

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-13-335

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://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3568420

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

26 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23259851

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

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

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23259851

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

On Estimation of a Probability Density Function and Mode

25

1 reference

DOI

https://api.crossref.org/works/10.1186/1471-2105-13-335

19 January 2025

Identifiers

DOI

1 reference

journals/bmcbi/TaminauMLSCMDSSBN12

16 November 2017

1 reference

DBLP Dataset 2021-01-02

Dimensions publication ID

28 January 2021

0 references

1 reference

16 November 2017

1 reference