(Q39535895)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

title

BeadArray expression analysis using bioconductor (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

Mark J. Dunning

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

Andy G. Lynch

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

Mike L Smith

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

author name string

Wei Shi

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

publication date

1 December 2011

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

PLOS Computational Biology

17 January 2020

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

volume

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

issue

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

page(s)

e1002276

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

17 January 2020

copyright license

start time

1 December 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

limma

object named as

limma

2 references

22 June 2022

https://europepmc.org/article/PMC/3228778

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

GEOquery

object named as

GEOquery

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

Preprocessing of gene expression data by optimally robust estimators

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

BeadDataPackR: A Tool to Facilitate the Sharing of Raw Data from Illumina BeadArray Studies

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

ROAST: rotation gene set tests for complex microarray experiments

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Comparison of normalization methods for Illumina BeadChip HumanHT-12 v3.

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Making informed choices about microarray data analysis

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Model-Based Background Correction (MBCB): R Methods and GUI for Illumina Bead-array Data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Transcriptome analyses of mouse and human mammary cell subpopulations reveal multiple conserved genes and pathways

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Correcting for intra-experiment variation in Illumina BeadChip data is necessary to generate robust gene-expression profiles

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Estimating the proportion of microarray probes expressed in an RNA sample

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Illumina WG-6 BeadChip strips should be normalized separately

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Importance of randomization in microarray experimental designs with Illumina platforms

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Importing ArrayExpress datasets into R/Bioconductor

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Statistical methods of background correction for Illumina BeadArray data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

arrayQualityMetrics--a bioconductor package for quality assessment of microarray data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Spike-in validation of an Illumina-specific variance-stabilizing transformation

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Consolidated strategy for the analysis of microarray spike-in data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

lumi: a pipeline for processing Illumina microarray

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Enhanced identification and biological validation of differential gene expression via Illumina whole-genome expression arrays through the use of the model-based background correction methodology

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Statistical issues in the analysis of Illumina data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Model-based variance-stabilizing transformation for Illumina microarray data.

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

beadarray: R classes and methods for Illumina bead-based data.

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

nuID: a universal naming scheme of oligonucleotides for illumina, affymetrix, and other microarrays

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Empirical array quality weights in the analysis of microarray data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Linear models and empirical bayes methods for assessing differential expression in microarray experiments

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Adjusting batch effects in microarray expression data using empirical Bayes methods

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Microarray data analysis: from disarray to consolidation and consensus

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

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

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression analysis platforms

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Bioconductor: open software development for computational biology and bioinformatics

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Statistical Issues in cDNA Microarray Data Analysis

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

BASH: a tool for managing BeadArray spatial artefacts

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

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

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

Sequence overlap between autosomal and sex-linked probes on the Illumina HumanMethylation27 microarray.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3228778

The importance of platform annotation in interpreting microarray data

21 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22144879

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PCBI.1002276

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

journals/ploscb/RitchieDSSL11

17 January 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22144879%20AND%20SRC:MED&resulttype=core&format=json

17 January 2020

PubMed publication ID

22144879

1 reference