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From 'differential expression'to 'differential networking'–identification of dysfunctional regulatory networks in diseases
A de la Fuente - Trends in genetics, 2010 - cell.com
Understanding diseases requires identifying the differences between healthy and affected
tissues. Gene expression data have revolutionized the study of diseases by making it …
tissues. Gene expression data have revolutionized the study of diseases by making it …
[HTML][HTML] Big data: historic advances and emerging trends in biomedical research
Big data is transforming biomedical research by integrating massive amounts of data from
laboratory experiments, clinical investigations, healthcare records, and the internet of things …
laboratory experiments, clinical investigations, healthcare records, and the internet of things …
Gene co-expression analysis for functional classification and gene–disease predictions
Gene co-expression networks can be used to associate genes of unknown function with
biological processes, to prioritize candidate disease genes or to discern transcriptional …
biological processes, to prioritize candidate disease genes or to discern transcriptional …
Two-sample covariance matrix testing and support recovery in high-dimensional and sparse settings
In the high-dimensional setting, this article considers three interrelated problems:(a) testing
the equality of two covariance matrices and;(b) recovering the support of; and (c) testing the …
the equality of two covariance matrices and;(b) recovering the support of; and (c) testing the …
Circulating brain-derived neurotrophic factor and indices of metabolic and cardiovascular health: data from the Baltimore Longitudinal Study of Aging
Background Besides its well-established role in nerve cell survival and adaptive plasticity,
brain-derived neurotrophic factor (BDNF) is also involved in energy homeostasis and …
brain-derived neurotrophic factor (BDNF) is also involved in energy homeostasis and …
A differential wiring analysis of expression data correctly identifies the gene containing the causal mutation
Transcription factor (TF) regulation is often post-translational. TF modifications such as
reversible phosphorylation and missense mutations, which can act independent of TF …
reversible phosphorylation and missense mutations, which can act independent of TF …
[BOG][B] Batch effects and noise in microarray experiments: sources and solutions
A Scherer - 2009 - Wiley Online Library
High-content, high-density long or short oligonucleotide microarrays for simultaneous
measurement of redundancy of RNA species are nowadays widely used for hypothesis …
measurement of redundancy of RNA species are nowadays widely used for hypothesis …
Integrating gene expression and protein-protein interaction network to prioritize cancer-associated genes
Background To understand the roles they play in complex diseases, genes need to be
investigated in the networks they are involved in. Integration of gene expression and …
investigated in the networks they are involved in. Integration of gene expression and …
Differential co-expression-based detection of conditional relationships in transcriptional data: comparative analysis and application to breast cancer
Background Elucidation of regulatory networks, including identification of regulatory
mechanisms specific to a given biological context, is a key aim in systems biology. This has …
mechanisms specific to a given biological context, is a key aim in systems biology. This has …
VI-VS: calibrated identification of feature dependencies in single-cell multiomics
Unveiling functional relationships between various molecular cell phenotypes from data
using machine learning models is a key promise of multiomics. Existing methods either use …
using machine learning models is a key promise of multiomics. Existing methods either use …