Search
Search Results
-
Gene trajectory inference for single-cell data by optimal transport metrics
Single-cell RNA sequencing has been widely used to investigate cell state transitions and gene dynamics of biological processes. Current strategies...
-
A robust and accurate single-cell data trajectory inference method using ensemble pseudotime
BackgroundThe advance in single-cell RNA sequencing technology has enhanced the analysis of cell development by profiling heterogeneous cells in...
-
Enhancing Single-Cell Trajectory Inference and Microbial Data Intelligence
The utilization of single-cell trajectory inference methods to deduce cell differentiation trajectories from single-cell transcriptomic or proteomic...
-
A Guide to Trajectory Inference and RNA Velocity
Technological developments have led to an explosion of high-throughput single-cell data, which are revealing unprecedented perspectives on cell...
-
Integrating temporal single-cell gene expression modalities for trajectory inference and disease prediction
BackgroundCurrent methods for analyzing single-cell datasets have relied primarily on static gene expression measurements to characterize the...
-
PMF-GRN: a variational inference approach to single-cell gene regulatory network inference using probabilistic matrix factorization
Inferring gene regulatory networks (GRNs) from single-cell data is challenging due to heuristic limitations. Existing methods also lack estimates of...
-
Statistical evidence for the presence of trajectory in single-cell data
BackgroundCells progressing from an early state to a developed state give rise to lineages in cell differentiation. Knowledge of these lineages is...
-
TIPD: A Probability Distribution-Based Method for Trajectory Inference from Single-Cell RNA-Seq Data
Single-cell RNA-seq technology provides an unprecedented opportunity to allow researchers to study the biological heterogeneity during cell...
-
Flexible social inference facilitates targeted social learning when rewards are not observable
Groups coordinate more effectively when individuals are able to learn from others’ successes. But acquiring such knowledge is not always easy,...
-
scTour: a deep learning architecture for robust inference and accurate prediction of cellular dynamics
Despite the continued efforts, a batch-insensitive tool that can both infer and predict the developmental dynamics using single-cell genomics is...
-
Abnormal developmental trajectory and vulnerability to cardiac arrhythmias in tetralogy of Fallot with DiGeorge syndrome
Tetralogy of Fallot (TOF) is the most common cyanotic congenital heart disease. Ventricular dysfunction and cardiac arrhythmias are well-documented...
-
The covariance environment defines cellular niches for spatial inference
A key challenge of analyzing data from high-resolution spatial profiling technologies is to suitably represent the features of cellular neighborhoods...
-
SCENIC+: single-cell multiomic inference of enhancers and gene regulatory networks
Joint profiling of chromatin accessibility and gene expression in individual cells provides an opportunity to decipher enhancer-driven gene...
-
Canonical neural networks perform active inference
This work considers a class of canonical neural networks comprising rate coding models, wherein neural activity and plasticity minimise a common cost...
-
Inference about quantitative traits under selection: a Bayesian revisitation for the post-genomic era
BackgroundSelection schemes distort inference when estimating differences between treatments or genetic associations between traits, and may degrade...
-
A robust and transformation-free joint model with matching and regularization for metagenomic trajectory and disease onset
BackgroundTo identify operational taxonomy units (OTUs) signaling disease onset in an observational study, a powerful strategy was selecting...
-
Harissa: Stochastic Simulation and Inference of Gene Regulatory Networks Based on Transcriptional Bursting
Gene regulatory networks, as a powerful abstraction for describing complex biological interactions between genes through their expression products...
-
SimiC enables the inference of complex gene regulatory dynamics across cell phenotypes
Single-cell RNA-Sequencing has the potential to provide deep biological insights by revealing complex regulatory interactions across diverse cell...
-
Single-cell profiling reveals the trajectory of FOLR2-expressing tumor-associated macrophages to regulatory T cells in the progression of lung adenocarcinoma
An immunosuppressive microenvironment enriched with regulatory CD4 + T lymphocytes (Tregs) facilitates the progression of lung adenocarcinoma (LUAD)....
-
CMOT: Cross-Modality Optimal Transport for multimodal inference
Multimodal measurements of single-cell sequencing technologies facilitate a comprehensive understanding of specific cellular and molecular...
