Cargando…

Evaluation of gene expression data generated from expired Affymetrix GeneChip(®) microarrays using MAQC reference RNA samples

BACKGROUND: The Affymetrix GeneChip(®) system is a commonly used platform for microarray analysis but the technology is inherently expensive. Unfortunately, changes in experimental planning and execution, such as the unavailability of previously anticipated samples or a shift in research focus, may...

Descripción completa

Detalles Bibliográficos
Autores principales:	Wen, Zhining, Wang, Charles, Shi, Quan, Huang, Ying, Su, Zhenqiang, Hong, Huixiao, Tong, Weida, Shi, Leming
Formato:	Texto
Lenguaje:	English
Publicado:	BioMed Central 2010
Materias:	Proceedings
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3026357/ https://www.ncbi.nlm.nih.gov/pubmed/20946593 http://dx.doi.org/10.1186/1471-2105-11-S6-S10

Ejemplares similares

Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples
por: Hong, Huixiao, et al.
Publicado: (2008)

Assessing affymetrix GeneChip microarray quality
por: McCall, Matthew N, et al.
Publicado: (2011)

Very Important Pool (VIP) genes – an application for microarray-based molecular signatures
por: Su, Zhenqiang, et al.
Publicado: (2008)

Microarray labeling extension values: laboratory signatures for Affymetrix GeneChips
por: Lee, Yun-Shien, et al.
Publicado: (2009)

Selecting a single model or combining multiple models for microarray-based classifier development? – A comparative analysis based on large and diverse datasets generated from the MAQC-II project
por: Chen, Minjun, et al.
Publicado: (2011)

Microarray platform consistency is revealed by biologically functional analysis of gene expression profiles
por: Li, Zhiguang, et al.
Publicado: (2009)

Comparison of target labeling methods for use with Affymetrix GeneChips
por: Lonergan, William, et al.
Publicado: (2007)

Explaining differences in saturation levels for Affymetrix GeneChip® arrays
por: Skvortsov, Dmitriy, et al.
Publicado: (2007)

SNiPer: Improved SNP genotype calling for Affymetrix 10K GeneChip microarray data
por: Huentelman, Matthew J, et al.
Publicado: (2005)

Establishing a major cause of discrepancy in the calibration of Affymetrix GeneChips
por: Harrison, Andrew P, et al.
Publicado: (2007)

A reanalysis of a published Affymetrix GeneChip control dataset
por: Dabney, Alan R, et al.
Publicado: (2006)

Motif effects in Affymetrix GeneChips seriously affect probe intensities
por: Upton, Graham J. G., et al.
Publicado: (2012)

Interpretation of multiple probe sets mapping to the same gene in Affymetrix GeneChips
por: Stalteri, Maria A, et al.
Publicado: (2007)

Evaluation of the similarity of gene expression data estimated with SAGE and Affymetrix GeneChips
por: van Ruissen, Fred, et al.
Publicado: (2005)

Feature-level exploration of a published Affymetrix GeneChip control dataset
por: Irizarry, Rafael A, et al.
Publicado: (2006)

BGX: a Bioconductor package for the Bayesian integrated analysis of Affymetrix GeneChips
por: Turro, Ernest, et al.
Publicado: (2007)

SNEP: Simultaneous detection of nucleotide and expression polymorphisms using Affymetrix GeneChip
por: Fujisawa, Hironori, et al.
Publicado: (2009)

Comparing Imputation Procedures for Affymetrix Gene Expression Datasets Using MAQC Datasets
por: Rao, Sreevidya Sadananda Sadasiva, et al.
Publicado: (2013)

Investigation of reproducibility of differentially expressed genes in DNA microarrays through statistical simulation
por: Fan, Xiaohui, et al.
Publicado: (2009)

Washing scaling of GeneChip microarray expression
por: Binder, Hans, et al.
Publicado: (2010)

A statistical framework for consolidating "sibling" probe sets for Affymetrix GeneChip data
por: Li, Hua, et al.
Publicado: (2008)

Coverage and Characteristics of the Affymetrix GeneChip Human Mapping 100K SNP Set
por: Nicolae, Dan L, et al.
Publicado: (2006)

Assessment of the relationship between signal intensities and transcript concentration for Affymetrix GeneChip(®) arrays
por: Chudin, Eugene, et al.
Publicado: (2002)

Assessment of the relationship between pre-chip and post-chip quality measures for Affymetrix GeneChip expression data
por: Jones, Lesley, et al.
Publicado: (2006)

Comparing gene discovery from Affymetrix GeneChip microarrays and Clontech PCR-select cDNA subtraction: a case study
por: Cao, Wuxiong, et al.
Publicado: (2004)

Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset
por: Choe, Sung E, et al.
Publicado: (2005)

Experimental Comparison and Evaluation of the Affymetrix Exon and U133Plus2 GeneChip Arrays
por: Abdueva, Diana, et al.
Publicado: (2007)

A Comparative Study of the Impact of G-Stack Probes on Various Affymetrix GeneChips of Mammalia
por: Memon, Farhat Naureen, et al.
Publicado: (2010)

"Hook"-calibration of GeneChip-microarrays: Theory and algorithm
por: Binder, Hans, et al.
Publicado: (2008)

Estimating RNA-quality using GeneChip microarrays
por: Fasold, Mario, et al.
Publicado: (2012)

"Hook"-calibration of GeneChip-microarrays: Chip characteristics and expression measures
por: Binder, Hans, et al.
Publicado: (2008)

On the necessity of different statistical treatment for Illumina BeadChip and Affymetrix GeneChip data and its significance for biological interpretation
por: Wong, Wing-Cheong, et al.
Publicado: (2008)

Dissecting an alternative splicing analysis workflow for GeneChip(® )Exon 1.0 ST Affymetrix arrays
por: Della Beffa, Cristina, et al.
Publicado: (2008)

AffyMAPSDetector: a software tool to characterize Affymetrix GeneChip™ expression arrays with respect to SNPs
por: Kumari, Sunita, et al.
Publicado: (2007)

Quality assessment of buccal versus blood genomic DNA using the Affymetrix 500 K GeneChip
por: Woo, Jessica G, et al.
Publicado: (2007)

Large-scale analysis of antisense transcription in wheat using the Affymetrix GeneChip Wheat Genome Array
por: Coram, Tristan E, et al.
Publicado: (2009)

Preferred analysis methods for Affymetrix GeneChips. II. An expanded, balanced, wholly-defined spike-in dataset
por: Zhu, Qianqian, et al.
Publicado: (2010)

Framework for reanalysis of publicly available Affymetrix® GeneChip® data sets based on functional regions of interest
por: Saka, Ernur, et al.
Publicado: (2017)

Microarray scanner calibration curves: characteristics and implications
por: Shi, Leming, et al.
Publicado: (2005)

Genome-Wide Analysis of Intergenic Regions of Mycobacterium tuberculosis H37Rv Using Affymetrix GeneChips
por: Fu, Li M, et al.
Publicado: (2007)

Cannot write session to /tmp/vufind_sessions/sess_oo32j18mil3heal561qp404140