Microarray data analysis: from disarray to consolidation and consensus
In just a few years, microarrays have gone from obscurity to being almost ubiquitous in
biological research. At the same time, the statistical methodology for microarray analysis has …
biological research. At the same time, the statistical methodology for microarray analysis has …
Statistical design of quantitative mass spectrometry-based proteomic experiments
AL Oberg, O Vitek - Journal of proteome research, 2009 - ACS Publications
We review the fundamental principles of statistical experimental design, and their
application to quantitative mass spectrometry-based proteomics. We focus on class …
application to quantitative mass spectrometry-based proteomics. We focus on class …
DNA methylation changes in plasticity genes accompany the formation and maintenance of memory
R Halder, M Hennion, RO Vidal, O Shomroni… - Nature …, 2016 - nature.com
The ability to form memories is a prerequisite for an organism's behavioral adaptation to
environmental changes. At the molecular level, the acquisition and maintenance of memory …
environmental changes. At the molecular level, the acquisition and maintenance of memory …
Optimal cut-point and its corresponding Youden Index to discriminate individuals using pooled blood samples
EF Schisterman, NJ Perkins, A Liu, H Bondell - Epidemiology, 2005 - journals.lww.com
Costs can hamper the evaluation of the effectiveness of new biomarkers. Analysis of smaller
numbers of pooled specimens has been shown to be a useful cost-cutting technique. The …
numbers of pooled specimens has been shown to be a useful cost-cutting technique. The …
[HTML][HTML] Experimental validation of methods for differential gene expression analysis and sample pooling in RNA-seq
Background Massively parallel cDNA sequencing (RNA-seq) experiments are gradually
superseding microarrays in quantitative gene expression profiling. However, many …
superseding microarrays in quantitative gene expression profiling. However, many …
On the utility of pooling biological samples in microarray experiments
C Kendziorski, RA Irizarry, KS Chen… - Proceedings of the …, 2005 - National Acad Sciences
Over 15% of the data sets catalogued in the Gene Expression Omnibus Database involve
RNA samples that have been pooled before hybridization. Pooling affects data quality and …
RNA samples that have been pooled before hybridization. Pooling affects data quality and …
Identification of the circadian transcriptome in adult mouse skeletal muscle
JJ McCarthy, JL Andrews… - Physiological …, 2007 - journals.physiology.org
Circadian rhythms are approximate 24-h behavioral and physiological cycles that function to
prepare an organism for daily environmental changes. The basic clock mechanism is a …
prepare an organism for daily environmental changes. The basic clock mechanism is a …
[HTML][HTML] The repertoire and features of human platelet microRNAs
H Plé, P Landry, A Benham, C Coarfa, PH Gunaratne… - PloS one, 2012 - journals.plos.org
Playing a central role in the maintenance of hemostasis as well as in thrombotic disorders,
platelets contain a relatively diverse messenger RNA (mRNA) transcriptome as well as …
platelets contain a relatively diverse messenger RNA (mRNA) transcriptome as well as …
Technical, experimental, and biological variations in isobaric tags for relative and absolute quantitation (iTRAQ)
CS Gan, PK Chong, TK Pham… - Journal of proteome …, 2007 - ACS Publications
We assess the reliability of isobaric-tags for relative and absolute quantitation (iTRAQ),
based on different types of replicate analyses taking into account technical, experimental …
based on different types of replicate analyses taking into account technical, experimental …
Variation within and among species in gene expression: raw material for evolution
A Whitehead, DL Crawford - Molecular ecology, 2006 - Wiley Online Library
Heritable variation in regulatory or coding regions is the raw material for evolutionary
processes. The advent of microarrays has recently promoted examination of the extent of …
processes. The advent of microarrays has recently promoted examination of the extent of …