Detecting copy-number alterations from single-cell chromatin sequencing data by AtaCNA.

Single-cell assay of transposase-accessible chromatin sequencing (scATAC-seq) unbiasedly profiles genome-wide chromatin accessibility in single cells. In single-cell tumor studies, identification of normal cells or tumor clonal structures often relies on copy-number alterations (CNAs). However, CNA detection from scATAC-seq is difficult due to the high noise, sparsity, and confounding factors.

Quercetin Alleviates All--Retinal-Induced Photoreceptor Apoptosis and Retinal Degeneration by Inhibiting the ER Stress-Related PERK Signaling.

All--retinal (atRAL)-induced photoreceptor atrophy and retinal degeneration are hallmark features of dry age-related macular degeneration (AMD) and Stargardt disease type 1 (STGD1). The toxicity of atRAL is closely related to the generation of reactive oxygen species (ROS). Quercetin, a natural product, is known for its potent antioxidant properties; however, its effects in mitigating atRAL-mediated retinal damage remains unclear.

Protocol for directly selecting cell type marker genes for single-cell clustering analyses by Festem.

Feature selection by expectation maximization test (Festem) enables the direct selection of cell type marker genes, facilitating downstream clustering of single-cell RNA sequencing (scRNA-seq) data. Here, we present a protocol for using Festem to identify marker genes in scRNA-seq data and perform subsequent analyses. We describe comprehensive steps for setting up the environment, marker gene selection, clustering, and marker gene assignment.

Nitrogen monitoring and inversion algorithms of fruit trees based on spectral remote sensing: a deep review.

Nitrogen, as one of the important elements affecting the growth and development of fruit trees, leads to slowed protein synthesis and reduced photosynthesis, resulting in yellowing of the leaves, poor tree growth, and decreased yield under nitrogen-deficient conditions. In order to minimize losses and maximize fruit yield, there is often an occurrence of excessive fertilization, soil structure degradation, and water pollution. Therefore, accurate and real-time monitoring of nitrogen content in fruit trees has become the fundamental prerequisite for precision management of orchards.