Containers for computational reproducibility
The fast-paced development of computational tools has enabled tremendous scientific
progress in recent years. However, this rapid surge of technological capability also comes at …
progress in recent years. However, this rapid surge of technological capability also comes at …
Auto-aggressive CXCR6+ CD8 T cells cause liver immune pathology in NASH
M Dudek, D Pfister, S Donakonda, P Filpe, A Schneider… - Nature, 2021 - nature.com
Nonalcoholic steatohepatitis (NASH) is a manifestation of systemic metabolic disease
related to obesity, and causes liver disease and cancer,. The accumulation of metabolites …
related to obesity, and causes liver disease and cancer,. The accumulation of metabolites …
[HTML][HTML] Temporal progress of gene expression analysis with RNA-Seq data: A review on the relationship between computational methods
Abstract Analysis of differential gene expression from RNA-seq data has become a standard
for several research areas. The steps for the computational analysis include many data …
for several research areas. The steps for the computational analysis include many data …
Depleting myeloid-biased haematopoietic stem cells rejuvenates aged immunity
JB Ross, LM Myers, JJ Noh, MM Collins, AB Carmody… - Nature, 2024 - nature.com
Ageing of the immune system is characterized by decreased lymphopoiesis and adaptive
immunity, and increased inflammation and myeloid pathologies,. Age-related changes in …
immunity, and increased inflammation and myeloid pathologies,. Age-related changes in …
A liver immune rheostat regulates CD8 T cell immunity in chronic HBV infection
M Bosch, N Kallin, S Donakonda, JD Zhang… - Nature, 2024 - nature.com
Chronic hepatitis B virus (HBV) infection affects 300 million patients worldwide,, in whom
virus-specific CD8 T cells by still ill-defined mechanisms lose their function and cannot …
virus-specific CD8 T cells by still ill-defined mechanisms lose their function and cannot …
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 …
The niacin receptor HCAR2 modulates microglial response and limits disease progression in a mouse model of Alzheimer's disease
Increased dietary intake of niacin has been correlated with reduced risk of Alzheimer's
disease (AD). Niacin serves as a high-affinity ligand for the receptor HCAR2 (GPR109A). In …
disease (AD). Niacin serves as a high-affinity ligand for the receptor HCAR2 (GPR109A). In …
Inhibition of VEGF binding to neuropilin-2 enhances chemosensitivity and inhibits metastasis in triple-negative breast cancer
Although blocking the binding of vascular endothelial growth factor (VEGF) to neuropilin-2
(NRP2) on tumor cells is a potential strategy to treat aggressive carcinomas, a lack of …
(NRP2) on tumor cells is a potential strategy to treat aggressive carcinomas, a lack of …
SigCom LINCS: data and metadata search engine for a million gene expression signatures
Millions of transcriptome samples were generated by the Library of Integrated Network-
based Cellular Signatures (LINCS) program. When these data are processed into …
based Cellular Signatures (LINCS) program. When these data are processed into …
eVITTA: a web-based visualization and inference toolbox for transcriptome analysis
Transcriptome profiling is essential for gene regulation studies in development and disease.
Current web-based tools enable functional characterization of transcriptome data, but most …
Current web-based tools enable functional characterization of transcriptome data, but most …