Microarrays, deep sequencing and the true measure of the transcriptome

JH Malone, B Oliver - BMC biology, 2011‏ - Springer
Microarrays first made the analysis of the transcriptome possible, and have produced much
important information. Today, however, researchers are increasingly turning to direct high …

[HTML][HTML] The challenge of the application of'omics technologies in chemicals risk assessment: Background and outlook

UG Sauer, L Deferme, L Gribaldo… - Regulatory Toxicology …, 2017‏ - Elsevier
This survey by the European Centre for Ecotoxicology and Toxicology of Chemicals
(ECETOC) highlights that 'omics technologies are generally not yet applied to meet standard …

The Trifecta study: comparing plasma levels of donor-derived cell-free DNA with the molecular phenotype of kidney transplant biopsies

PF Halloran, J Reeve, KS Madill-Thomsen… - Journal of the …, 2022‏ - journals.lww.com
Background The relationship between the donor-derived cell-free DNA fraction (dd-cfDNA
[%]) in plasma in kidney transplant recipients at time of indication biopsy and gene …

[كتاب][B] Singular spectrum analysis of biomedical signals

S Sanei, H Hassani - 2015‏ - books.google.com
This book presents newly applied concepts for biomedical applications of singular spectrum
analysis (SSA) and introduces a new mathematical and signal processing technique for the …

RNA-seq and microarray complement each other in transcriptome profiling

S Kogenaru, Q Yan, Y Guo, N Wang - BMC genomics, 2012‏ - Springer
Background RNA-seq and microarray are the two popular methods employed for genome-
wide transcriptome profiling. Current comparison studies have shown that transcriptome …

The molecular microscope diagnostic system: assessment of rejection and injury in heart transplant biopsies

PF Halloran, KS Madill-Thomsen - Transplantation, 2023‏ - journals.lww.com
This review describes the development of the Molecular Microscope Diagnostic System
(MMDx) for heart transplant endomyocardial biopsies (EMBs). MMDx-Heart uses …

[HTML][HTML] Skeletal muscle gene expression in response to resistance exercise: sex specific regulation

D Liu, MA Sartor, GA Nader, L Gutmann, MK Treutelaar… - BMC genomics, 2010‏ - Springer
The molecular mechanisms underlying the sex differences in human muscle morphology
and function remain to be elucidated. The sex differences in the skeletal muscle …

Identification of differentially expressed genes using an annealing control primer system in stage III serous ovarian carcinoma

YS Kim, J Hwan Do, S Bae, DH Bae, W Shick Ahn - BMC cancer, 2010‏ - Springer
Background Most patients with ovarian cancer are diagnosed with advanced stage disease
(ie., stage III-IV), which is associated with a poor prognosis. Differentially expressed genes …

Logistic regression with adaptive sparse group lasso penalty and its application in acute leukemia diagnosis

J Li, K Liang, X Song - Computers in Biology and Medicine, 2022‏ - Elsevier
Cancer diagnosis based on gene expression profile data has attracted extensive attention in
computational biology and medicine. It suffers from three challenges in practical …

Apparently low reproducibility of true differential expression discoveries in microarray studies

M Zhang, C Yao, Z Guo, J Zou, L Zhang, H **ao… - …, 2008‏ - academic.oup.com
Motivation: Differentially expressed gene (DEG) lists detected from different microarray
studies for a same disease are often highly inconsistent. Even in technical replicate tests …