Benchmark and integration of resources for the estimation of human transcription factor activities
The prediction of transcription factor (TF) activities from the gene expression of their targets
(ie, TF regulon) is becoming a widely used approach to characterize the functional status of …
(ie, TF regulon) is becoming a widely used approach to characterize the functional status of …
Connecting omics signatures and revealing biological mechanisms with iLINCS
There are only a few platforms that integrate multiple omics data types, bioinformatics tools,
and interfaces for integrative analyses and visualization that do not require programming …
and interfaces for integrative analyses and visualization that do not require programming …
Single-cell-resolved differentiation of human induced pluripotent stem cells into pancreatic duct-like organoids on a microwell chip
Creating in vitro models of diseases of the pancreatic ductal compartment requires a
comprehensive understanding of the developmental trajectories of pancreas-specific cell …
comprehensive understanding of the developmental trajectories of pancreas-specific cell …
KEA3: improved kinase enrichment analysis via data integration
Phosphoproteomics and proteomics experiments capture a global snapshot of the cellular
signaling network, but these methods do not directly measure kinase state. Kinase …
signaling network, but these methods do not directly measure kinase state. Kinase …
Oncogenic circRNA C190 promotes non–small cell lung cancer via modulation of the EGFR/ERK pathway
Lung cancers are the leading cause of cancer-related mortality worldwide, and the majority
of lung cancers are non–small cell lung carcinoma (NSCLC). Overexpressed or activated …
of lung cancers are non–small cell lung carcinoma (NSCLC). Overexpressed or activated …
Inferring protein expression changes from mRNA in Alzheimer's dementia using deep neural networks
Identifying the molecular systems and proteins that modify the progression of Alzheimer's
disease and related dementias (ADRD) is central to drug target selection. However …
disease and related dementias (ADRD) is central to drug target selection. However …
Integrated multi-omics analysis of Alzheimer's disease shows molecular signatures associated with disease progression and potential therapeutic targets
Alzheimer's disease (AD) is a progressive neurodegenerative disease characterized by the
formation of amyloid plaques implicated in neuronal death. Genetics, age, and sex are the …
formation of amyloid plaques implicated in neuronal death. Genetics, age, and sex are the …
Computational analysis of phosphoproteomics data in multi‐omics cancer studies
Multiple types of molecular data for the same set of clinical samples are increasingly
available and may be analyzed jointly in an integrative analysis to maximize comprehensive …
available and may be analyzed jointly in an integrative analysis to maximize comprehensive …
LYN kinase programs stromal fibroblasts to facilitate leukemic survival via regulation of c-JUN and THBS1
Microenvironmental bystander cells are essential for the progression of chronic lymphocytic
leukemia (CLL). We have discovered previously that LYN kinase promotes the formation of a …
leukemia (CLL). We have discovered previously that LYN kinase promotes the formation of a …
[HTML][HTML] New insights into extracellular and intracellular redox status in COVID-19 patients
Background The imbalance of redox homeostasis induces hyper-inflammation in viral
infections. In this study, we explored the redox system signature in response to SARS-COV …
infections. In this study, we explored the redox system signature in response to SARS-COV …