[HTML][HTML] Exploring RNA-Seq Data Analysis Through Visualization Techniques and Tools: A Systematic Review of Opportunities and Limitations for Clinical …

F Manzoor, CA Tsurgeon, V Gupta - Bioengineering, 2025 - pmc.ncbi.nlm.nih.gov
RNA sequencing (RNA-seq) has emerged as a prominent resource for transcriptomic
analysis due to its ability to measure gene expression in a highly sensitive and accurate …

Unraveling cell differentiation mechanisms through topological exploration of single-cell developmental trajectories

E Flores-Bautista, M Thomson - bioRxiv, 2023 - biorxiv.org
Understanding the circuits that control cell differentiation is a fundamental problem in
developmental biology. Single-cell RNA sequencing has emerged as a powerful tool for …

Automatically detecting anchor cells and clustering for scRNA-seq data using scTSNN

Q Liu, D Zhang, D Wang, G Wang… - IEEE Journal of …, 2024 - ieeexplore.ieee.org
Advancing in single-cell RNA sequencing techniques enhances the resolution of cell
heterogeneity study. Density-based unsupervised clustering has the potential to detect the …

Incorporating Prior Knowledge in Deep Learning Models via Pathway Activity Autoencoders

PHC Avelar, M Wu, S Tsoka - arXiv preprint arXiv:2306.05813, 2023 - arxiv.org
Motivation: Despite advances in the computational analysis of high-throughput molecular
profiling assays (eg transcriptomics), a dichotomy exists between methods that are simple …

An end-to-end Deep Hybrid Autoencoder based method for single-cell RNA-Seq data analysis

C Ji, N Yu, Y Wang, R Qi… - IEEE/ACM Transactions on …, 2023 - ieeexplore.ieee.org
Single-cell RNA sequencing technology provides powerful support for researchers to
understand the complex mechanisms of cells at the single-cell level. Due to the high …

NetDiff: Deep Graph Denoising Diffusion for Ad Hoc Network Topology Generation

F Marcoccia, C Adjih, P Mühlethaler - arXiv preprint arXiv:2410.08238, 2024 - arxiv.org
This work introduces NetDiff, an expressive graph denoising diffusion probabilistic
architecture that generates wireless ad hoc network link topologies. Such networks, with …