Computational deconvolution of transcriptomics data from mixed cell populations
Gene expression analyses of bulk tissues often ignore cell type composition as an important
confounding factor, resulting in a loss of signal from lowly abundant cell types. In this review …
confounding factor, resulting in a loss of signal from lowly abundant cell types. In this review …
Independent component analysis for unraveling the complexity of cancer omics datasets
Independent component analysis (ICA) is a matrix factorization approach where the signals
captured by each individual matrix factors are optimized to become as mutually independent …
captured by each individual matrix factors are optimized to become as mutually independent …
Revisiting hematopoiesis: applications of the bulk and single-cell transcriptomics dissecting transcriptional heterogeneity in hematopoietic stem cells
Hematopoietic system (HS) is one of the most unique, adaptive and comprehensive
developmental systems on which various other body systems relies on. It consists of a …
developmental systems on which various other body systems relies on. It consists of a …
The transcriptional landscape of microglial genes in aging and neurodegenerative disease
LW Bonham, DW Sirkis, JS Yokoyama - Frontiers in immunology, 2019 - frontiersin.org
Microglia, the brain-resident myeloid cells, are strongly implicated in Alzheimer's disease
(AD) pathogenesis by human genetics. However, the mechanisms by which microglial gene …
(AD) pathogenesis by human genetics. However, the mechanisms by which microglial gene …
Conditional generative adversarial network for gene expression inference
Motivation The rapid progress of gene expression profiling has facilitated the prosperity of
recent biological studies in various fields, where gene expression data characterizes various …
recent biological studies in various fields, where gene expression data characterizes various …
Semi-supervised generative adversarial network for gene expression inference
Gene expression profiling provides comprehensive characterization of cellular states under
different experimental conditions, thus contributes to the prosperity of many fields of …
different experimental conditions, thus contributes to the prosperity of many fields of …
Robust and rigorous identification of tissue-specific genes by statistically extending tau score
Objectives In this study, we aimed to identify tissue-specific genes for various human
tissues/organs more robustly and rigorously by extending the tau score algorithm …
tissues/organs more robustly and rigorously by extending the tau score algorithm …
VFogSim: A data-driven platform for simulating vehicular fog computing environment
Edge/fog computing is a key enabling technology in 5G and beyond for fulfilling the tight
latency requirements of emerging vehicle applications, such as cooperative and …
latency requirements of emerging vehicle applications, such as cooperative and …
INAVA-ARNO complexes bridge mucosal barrier function with inflammatory signaling
Homeostasis at mucosal surfaces requires cross-talk between the environment and barrier
epithelial cells. Disruption of barrier function typifies mucosal disease. Here we elucidate a …
epithelial cells. Disruption of barrier function typifies mucosal disease. Here we elucidate a …
A deconvolution method and its application in analyzing the cellular fractions in acute myeloid leukemia samples
Background The identification of cell type-specific genes (markers) is an essential step for
the deconvolution of the cellular fractions, primarily, from the gene expression data of a bulk …
the deconvolution of the cellular fractions, primarily, from the gene expression data of a bulk …