CellMarker 2.0: an updated database of manually curated cell markers in human/mouse and web tools based on scRNA-seq data

C Hu, T Li, Y Xu, X Zhang, F Li, J Bai… - Nucleic acids …, 2023 - academic.oup.com
Abstract CellMarker 2.0 (http://bio-bigdata. hrbmu. edu. cn/CellMarker or http://117.50.
127.228/CellMarker/) is an updated database that provides a manually curated collection of …

Resolving plant development in space and time with single-cell genomics

TM Nolan, R Shahan - Current opinion in plant biology, 2023 - Elsevier
Single-cell genomics technologies are ushering in a new research era. In this review, we
summarize the benefits and current challenges of using these technologies to probe the …

Integrating omics databases for enhanced crop breeding

H Chao, S Zhang, Y Hu, Q Ni, S Xin, L Zhao… - Journal of Integrative …, 2024 - degruyter.com
Crop plant breeding involves selecting and developing new plant varieties with desirable
traits such as increased yield, improved disease resistance, and enhanced nutritional value …

Single‐cell transcriptome atlas reveals developmental trajectories and a novel metabolic pathway of catechin esters in tea leaves

Q Wang, Y Wu, A Peng, J Cui, M Zhao… - Plant Biotechnology …, 2022 - Wiley Online Library
The tea plant is an economically important woody beverage crop. The unique taste of tea is
evoked by certain metabolites, especially catechin esters, whereas their precise formation …

<? sty\usepackage {wasysym}?> scPlantDB: a comprehensive database for exploring cell types and markers of plant cell atlases

Z He, Y Luo, X Zhou, T Zhu, Y Lan… - Nucleic Acids …, 2024 - academic.oup.com
Recent advancements in single-cell RNA sequencing (scRNA-seq) technology have
enabled the comprehensive profiling of gene expression patterns at the single-cell level …

Single-cell RNA sequencing facilitates the elucidation of the complete biosynthesis of the antidepressant hyperforin in St. John's wort

S Wu, ALM Morotti, J Yang, E Wang, EC Tatsis - Molecular Plant, 2024 - cell.com
Hyperforin is the compound responsible for the effectiveness of St. John's wort (Hypericum
perforatum) as an antidepressant, but its complete biosynthetic pathway remains unknown …

Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics

C Grones, T Eekhout, D Shi, M Neumann… - The Plant …, 2024 - academic.oup.com
Single-cell and single-nucleus RNA-sequencing technologies capture the expression of
plant genes at an unprecedented resolution. Therefore, these technologies are gaining …

Single-nucleus RNA and ATAC sequencing analyses provide molecular insights into early pod development of peanut fruit

Y Cui, Y Su, J Bian, X Han, H Guo, Z Yang, Y Chen… - Plant …, 2024 - cell.com
Peanut (Arachis hypogaea L.) is an important leguminous oil and economic crop that
produces flowers aboveground and fruits belowground. Subterranean fruit-pod …

Integrated mass spectrometry imaging and single‐cell transcriptome atlas strategies provide novel insights into taxoid biosynthesis and transport in Taxus mairei …

C Yu, K Hou, H Zhang, X Liang, C Chen… - The Plant …, 2023 - Wiley Online Library
Taxol, which is a widely used important chemotherapeutic agent, was originally isolated
from Taxus stem barks. However, little is known about the precise distribution of taxoids and …

Mass spectrometry imaging and single-cell transcriptional profiling reveal the tissue-specific regulation of bioactive ingredient biosynthesis in Taxus leaves

X Zhan, T Qiu, H Zhang, K Hou, X Liang, C Chen… - Plant …, 2023 - cell.com
Taxus leaves provide the raw industrial materials for taxol, a natural antineoplastic drug
widely used in the treatment of various cancers. However, the precise distribution …