The diversification of methods for studying cell–cell interactions and communication
No cell lives in a vacuum, and the molecular interactions between cells define most
phenotypes. Transcriptomics provides rich information to infer cell–cell interactions and …
phenotypes. Transcriptomics provides rich information to infer cell–cell interactions and …
Data analysis guidelines for single-cell RNA-seq in biomedical studies and clinical applications
M Su, T Pan, QZ Chen, WW Zhou, Y Gong, G Xu… - Military Medical …, 2022 - Springer
The application of single-cell RNA sequencing (scRNA-seq) in biomedical research has
advanced our understanding of the pathogenesis of disease and provided valuable insights …
advanced our understanding of the pathogenesis of disease and provided valuable insights …
Investigating cardiotoxicity related with hERG channel blockers using molecular fingerprints and graph attention mechanism
T Wang, J Sun, Q Zhao - Computers in biology and medicine, 2023 - Elsevier
Human ether-a-go-go-related gene (hERG) channel blockade by small molecules is a big
concern during drug development in the pharmaceutical industry. Failure or inhibition of …
concern during drug development in the pharmaceutical industry. Failure or inhibition of …
Modeling and analyzing single-cell multimodal data with deep parametric inference
The proliferation of single-cell multimodal sequencing technologies has enabled us to
understand cellular heterogeneity with multiple views, providing novel and actionable …
understand cellular heterogeneity with multiple views, providing novel and actionable …
A cross-cohort computational framework to trace tumor tissue-of-origin based on RNA sequencing
B He, H Sun, M Bao, H Li, J He, G Tian, B Wang - Scientific reports, 2023 - nature.com
Carcinoma of unknown primary (CUP) is a type of metastatic cancer with tissue-of-origin
(TOO) unidentifiable by traditional methods. CUP patients typically have poor prognosis but …
(TOO) unidentifiable by traditional methods. CUP patients typically have poor prognosis but …
Stgnnks: identifying cell types in spatial transcriptomics data based on graph neural network, denoising auto-encoder, and k-sums clustering
Background: Spatial transcriptomics technologies fully utilize spatial location information,
tissue morphological features, and transcriptional profiles. Integrating these data can greatly …
tissue morphological features, and transcriptional profiles. Integrating these data can greatly …
Predicting potential interactions between lncRNAs and proteins via combined graph auto-encoder methods
J Zhao, J Sun, SC Shuai, Q Zhao… - Briefings in …, 2023 - academic.oup.com
Long noncoding RNA (lncRNA) is a kind of noncoding RNA with a length of more than 200
nucleotide units. Numerous research studies have proven that although lncRNAs cannot be …
nucleotide units. Numerous research studies have proven that although lncRNAs cannot be …
Deciphering ligand–receptor-mediated intercellular communication based on ensemble deep learning and the joint scoring strategy from single-cell transcriptomic …
Background: Cell–cell communication in a tumor microenvironment is vital to tumorigenesis,
tumor progression and therapy. Intercellular communication inference helps understand …
tumor progression and therapy. Intercellular communication inference helps understand …
CellDialog: A Computational Framework for Ligand-receptor-mediated Cell-cell Communication Analysis III
L Peng, W **ong, C Han, Z Li… - IEEE Journal of …, 2023 - ieeexplore.ieee.org
Intercellularcommunication significantly influences tumor progression, metastasis, and
therapy resistance. An intercellular communication inference method includes two main …
therapy resistance. An intercellular communication inference method includes two main …
A review of single-cell RNA-Seq annotation, integration, and cell–cell communication
Single-cell RNA sequencing (scRNA-seq) has emerged as a powerful tool for investigating
cellular biology at an unprecedented resolution, enabling the characterization of cellular …
cellular biology at an unprecedented resolution, enabling the characterization of cellular …