Extensive up-regulation of gene expression in cancer: the normalised use of microarray data

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

Integrative analysis of gene expression and copy number alterations using canonical correlation analysis

(2010) Charlotte Soneson et al.   BMC BIOINFORMATICS

Multi-level reproducibility of signature hubs in human interactome for breast cancer metastasis

(2010) Chen Yao et al.   BMC Systems Biology

Preprocessing and downstream analysis of microarray DNA copy number profiles

(2010) M. A. van de Wiel et al.   BRIEFINGS IN BIOINFORMATICS

Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer

(2010) A. E. Teschendorff et al.   GENOME RESEARCH

Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains

(2010) V. K. Rakyan et al.   GENOME RESEARCH

Subset Quantile Normalization Using Negative Control Features

(2010) Zhijin Wu et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

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

(2010) Jeffrey T. Leek et al.   NATURE REVIEWS GENETICS

Principles and challenges of genome-wide DNA methylation analysis

(2010) Peter W. Laird   NATURE REVIEWS GENETICS

Differential DNA Methylation Correlates with Differential Expression of Angiogenic Factors in Human Heart Failure

(2010) Mehregan Movassagh et al.   PLoS One

Evaluating reproducibility of differential expression discoveries in microarray studies by considering correlated molecular changes

(2009) Min Zhang et al.   BIOINFORMATICS

A new multitest correction (SGoF) that increases its statistical power when increasing the number of tests

(2009) Antonio Carvajal-Rodríguez et al.   BMC BIOINFORMATICS

Array-based DNA methylation profiling in follicular lymphoma

(2009) C O'Riain et al.   LEUKEMIA

Disease signatures are robust across tissues and experiments

(2009) Joel T Dudley et al.   Molecular Systems Biology

Impact of normalization on miRNA microarray expression profiling

(2009) S. Pradervand et al.   RNA

Aging and Environmental Exposures Alter Tissue-Specific DNA Methylation Dependent upon CpG Island Context

(2009) Brock C. Christensen et al.   PLoS Genetics

Apparently low reproducibility of true differential expression discoveries in microarray studies

(2008) Min Zhang et al.   BIOINFORMATICS

Use of normalization methods for analysis of microarrays containing a high degree of gene effects

(2008) Terri T Ni et al.   BMC BIOINFORMATICS

Global Rank-invariant Set Normalization (GRSN) to reduce systematic distortions in microarray data

(2008) Carl R Pelz et al.   BMC BIOINFORMATICS

Normalization of oligonucleotide arrays based on the least-variant set of genes

(2008) Stefano Calza et al.   BMC BIOINFORMATICS

Quality Assessment and Data Analysis for microRNA Expression Arrays

(2008) D. Sarkar et al.   NUCLEIC ACIDS RESEARCH

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH