AIMC Topic: Signal Transduction

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Bow-tie signaling in c-di-GMP: Machine learning in a simple biochemical network.

PLoS computational biology
Bacteria of many species rely on a simple molecule, the intracellular secondary messenger c-di-GMP (Bis-(3'-5')-cyclic dimeric guanosine monophosphate), to make a vital choice: whether to stay in one place and form a biofilm, or to leave it in search...

Mapping quorum sensing onto neural networks to understand collective decision making in heterogeneous microbial communities.

Physical biology
Microbial communities frequently communicate via quorum sensing (QS), where cells produce, secrete, and respond to a threshold level of an autoinducer (AI) molecule, thereby modulating gene expression. However, the biology of QS remains incompletely ...

A knowledge-based T2-statistic to perform pathway analysis for quantitative proteomic data.

PLoS computational biology
Approaches to identify significant pathways from high-throughput quantitative data have been developed in recent years. Still, the analysis of proteomic data stays difficult because of limited sample size. This limitation also leads to the practice o...

Data mining and pathway analysis of glucose-6-phosphate dehydrogenase with natural language processing.

Molecular medicine reports
Human glucose-6-phosphate dehydrogenase (G6PD) is a crucial enzyme in the pentose phosphate pathway, and serves an important role in biosynthesis and the redox balance. G6PD deficiency is a major cause of neonatal jaundice and acute hemolyticanemia, ...

Anti-inflammatory effect of cinnamaldehyde and linalool from the leaf essential oil of Cinnamomum osmophloeum Kanehira in endotoxin-induced mice.

Journal of food and drug analysis
Cinnamomum osmophloeum Kanehira is a Taiwan native plant that belongs to genus Cinnamomum and is also known as pseudocinnamomum or indigenous cinnamon. Its leaf is traditionally used by local people in cooking and as folk therapy. We previously demon...

Sensitive detection of rare disease-associated cell subsets via representation learning.

Nature communications
Rare cell populations play a pivotal role in the initiation and progression of diseases such as cancer. However, the identification of such subpopulations remains a difficult task. This work describes CellCnn, a representation learning approach to de...

Identification of transcription factors that may reprogram lung adenocarcinoma.

Artificial intelligence in medicine
BACKGROUND: Lung adenocarcinoma is one of most threatening disease to human health. Although many efforts have been devoted to its genetic study, few researches have been focused on the transcription factors which regulate tumor initiation and progre...

Analysis of cancer-related lncRNAs using gene ontology and KEGG pathways.

Artificial intelligence in medicine
BACKGROUND: Cancer is a disease that involves abnormal cell growth and can invade or metastasize to other tissues. It is known that several factors are related to its initiation, proliferation, and invasiveness. Recently, it has been reported that lo...