2024 Plantphonedb github

Plantphonedb github

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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... 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.

PlantPhoneDB: A manually curated pan-plant database of ligand …

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 … WebClone via HTTPS Clone with Git or checkout with SVN using the repository’s web address. nestle nutrition online

GitHub - Jasonxu0109/PlantPhoneDB: A manually curated …

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 ... 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 ... WebJan 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. it\u0027s a wonderful life book author

PlantPhoneDB: A manually curated pan-plant database of ligand …

Plantphonedb github

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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 … WebIn conclusion, PlantPhoneDB provided researchers with an integrated resources to infer cell-cell communication from scRNA-seq datasets. COLLEGE OF THE ENVIRONMENT & ECOLOGY, XIAMEN UNIVERSITY...

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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 …

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. 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。

WebPlantPhoneDB Documentation!¶ Welcome! This is the documentation for PlantPhoneDB, a manually curated pan-plant database of ligand-receptor pairs infers cell-cell … WebPlantPhoneDB: A manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. ( Plant Biotechnology Journal ; Impact Factor 13.263 ; accepted ) …

WebAbout — PlantPhoneDB-Tutorial v1.0.0 documentation PlantPhoneDB-Tutorial latest Overview Home Search Explorer Download References Document About Case Studies …

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, … nestle nutrition healthcare professionalWebJan 2, 2024 · Functional category enrichment analysis Description. Functional category enrichment analysis Usage LRTargetFisher(Targets, GeneSets, TotalGene) Arguments nestle nutty buddy ice cream coneWebOct 31, 2024 · PlantPhoneDB: a manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. Getting started README.md Browse package … it\u0027s a wonderful life building and loanWebCCI_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 … it\u0027s a wonderful life broadcast scheduleWebAs a result, the PlantPhoneDB predicted the actively communicating AT1G28290‐AT2G14890 ligand‐receptor pair in Atrichoblast‐Cortex cell pair in Arabidopsis thaliana. Importantly, the ... nestle one powerhouse addressWebJul 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. it\u0027s a wonderful life budgetWebOct 31, 2024 · PlantPhoneDB: A manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. ( Plant Biotechnology Journal ; Impact Factor 13.263 … it\u0027s a wonderful life buffalo gals