Plantphonedb github

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August undefined, 2024

WebJan 7, 2024 · Here, we used single-cell RNA sequencing to investigate BS differentiation in C4maize (Zea mays L.) plants. Abaxial BS (abBS) cells of rank-2 intermediate veins specifically expressed three SWEET sucrose uniporters (SWEET13a, b, and c) and UmamiT amino acid efflux transporters. SWEET13a, b, cmRNAs were also detected in the phloem … WebRecent single-cell RNA-sequencing technologies have enabled the detection of CCIs and related ligand-receptor (L-R) gene expression simultaneously. However, previous data analysis methods have...

Overview of PlantGSAD functions. (A) Example of gene

WebEdit on GitHub. PlantPhoneDB is a ligand-receptor interactions database, which aims to infer cell-cell communications from scRNA-seq datasets in plant. We built the PlantPhoneDB … WebAug 12, 2024 · PlantPhoneDB v1.0.0 Pre-release. A manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. Assets 5. chef n farmers

LRscore: Score ligand-receptor interactions in Jasonxu0109/PlantPhoneDB …

Webthe PlantPhoneDB predicted the actively communicating AT2G14890 AT1G28290ligand-receptor - pair in Atrichoblast- Cortex cell pair in Arabidopsis thalianaImportantly, the downstream target . WebBackground: In plants, the plasma membrane is enclosed by the cell wall and anchors RLK and RLP proteins, which play a fundamental role in perception of developmental and environmental cues and are... WebDec 9, 2024 · CellPhoneDB is a publicly available repository of curated receptors, ligands and their interactions. Subunit architecture is included for both ligands and receptors, … chef n fire

PlantPhoneDB: A manually curated pan‐plant database of …

WebDocument — PlantPhoneDB-Tutorial v1.0.0 documentation Document Edit on GitHub Document We provide the R script needed to reproduce the processed scRNA-seq datasets results of PlantPhoneDB. Quick Installation First, install devtools (for installing GitHub packages) if it isn’t already installed: WebPlantPhoneDB: A manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. ( Plant Biotechnology Journal ; Impact Factor 13.263 ; accepted ) … chef n fire helensvaleWebIn conclusion, PlantPhoneDB provided researchers with an integrated resources to infer cell-cell communication from scRNA-seq datasets. COLLEGE OF THE ENVIRONMENT & ECOLOGY, XIAMEN UNIVERSITY... fleetwood mac 2018 remaster

"WebDownload scientific diagram Overview of PlantGSAD functions. (A) Example of gene search results in PlantGSAD. In the first column, the background color represents the gene set category. (B) Gene ... " - Plantphonedb github

Plantphonedb github

(PDF) PlantPhoneDB: A manually curated pan‐plant

WebWith a personal account on GitHub, you can import or create repositories, collaborate with others, and connect with the GitHub community. Getting started with GitHub Team With GitHub Team groups of people can collaborate across many projects at the same time in an organization account. WebCCI_circle: Network viewing of cell-cell communication CCI_network: Network viewing of cell-cell communication heatmap_count: The number of ligand-receptor interactions between pairwise... LR_pathway: Construction of intracellular signaling pathway LRscore: Score ligand-receptor interactions LRTargetFisher: Functional category enrichment …

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WebAug 7, 2024 · 从结果可以看出，PlantPhoneDB可以预测出有显著通讯活性的AT1G28290-AT2G14890配体-受体互作对，该配体-受体互作对所调控的靶基因富集到核糖体通路。热胁迫可能会引起核糖体暂停现象，这种热触发的 mRNA 降解似乎是植物在慢性热胁迫下适应和生存所必需的。 WebJul 16, 2024 · At the PlantPhoneDB web interface, the processed datasets and results can be searched, browsed, and downloaded. To uncover novel cell–cell communication events in plants, we applied the PlantPhoneDB R package on GSE121619 dataset to infer significant cell–cell interactions of heat-shocked root cells in Arabidopsis thaliana.

WebDownload scientific diagram Correspondence table containing the available L-R gene information for each organism For each detected CaH, gene annotation, enrichment analysis, tissue-or cell-type ... WebClone via HTTPS Clone with Git or checkout with SVN using the repository’s web address.

WebJan 2, 2024 · lr: A data frame of the ligand-receptor interactions. objs: object Seurat object. CellA: Ligands cell. CellB: Receptors cell. neighbor: Represents the second-order neighbors of ligand-receptor pair in the signaling network.Default is 2. WebJul 16, 2024 · PlantPhoneDB: A manually curated pan-plant database of ligand-receptor pairs infers cell–cell communication. Chaoqun Xu, Chaoqun Xu. Key Laboratory of the …

WebOct 31, 2024 · PlantPhoneDB: A manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. ( Plant Biotechnology Journal ; Impact Factor 13.263 …

WebJan 2, 2024 · GitHub / Jasonxu0109/PlantPhoneDB / CCI_circle: Network viewing of cell-cell communication CCI_circle: Network viewing of cell-cell communication In Jasonxu0109/PlantPhoneDB: PlantPhoneDB in R View source: R/CCI_circle.r CCI_circle R Documentation Network viewing of cell-cell communication Description Network viewing … fleetwood mac 2017 remasterWebJan 2, 2024 · expr: A data frame or matrix of n rows (genes) and m columns (cells) normalized by SCTransform(). LRdb: A dataset with ligand-receptor pairs, such as LR_pair_ath.RDa. chef n fridge forkWebAs a result, the PlantPhoneDB predicted the actively communicating AT1G28290‐AT2G14890 ligand‐receptor pair in Atrichoblast‐Cortex cell pair in Arabidopsis thaliana. Importantly, the ... fleetwood mac 2017 tour dates chef n freshforce citrus juicer amazonWebJul 16, 2024 · The current PlantPhoneDB website contains 3514 unique ligand-receptor pairs for Arabidopsis thaliana, which are curated from seven resources, including plant.MAP, … chefn freshforce popout vegetable peelerWebCase Studies — PlantPhoneDB-Tutorial v1.0.0 documentation Case Studies Edit on GitHub Case Studies Case1.ipynb was used to infer cell-cell communications from scRNA-seq datasets processed by using_example.ipynb. Case 1. Significant cell-cell interactions of Heat-Shocked Root Cells in Arabidopsis thaliana Case 2. fleetwood mac 2019 tourWebOct 31, 2024 · PlantPhoneDB: a manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. Getting started README.md Browse package … fleetwood mac 2019