Gene Regulatory Networks from Single Cell Data for Exploring Cell Fate Decisions.
Sign Up to like & getrecommendations! Published in 2019 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-9224-9_10
Abstract: Single cell experimental techniques now allow us to quantify gene expression in up to thousands of individual cells. These data reveal the changes in transcriptional state that occur as cells progress through development and adopt… read more here.
Keywords: single cell; gene regulatory; cell data; regulatory networks ... See more keywords
Cell type prioritization in single-cell data
Sign Up to like & getrecommendations! Published in 2020 at "Nature biotechnology"
DOI: 10.1038/s41587-020-0605-1
Abstract: We present Augur, a method to prioritize the cell types most responsive to biological perturbations in single-cell data. Augur employs a machine-learning framework to quantify the separability of perturbed and unperturbed cells within a high-dimensional… read more here.
Keywords: single cell; prioritization single; type prioritization; cell data ... See more keywords
Identification of gene regulation models from single-cell data.
Sign Up to like & getrecommendations! Published in 2018 at "Physical biology"
DOI: 10.1088/1478-3975/aabc31
Abstract: In quantitative analyses of biological processes, one may use many different scales of models (e.g. spatial or non-spatial, deterministic or stochastic, time-varying or at steady-state) or many different approaches to match models to experimental data… read more here.
Keywords: gene regulation; single cell; cell data; model ... See more keywords
A review and performance evaluation of clustering frameworks for single-cell Hi-C data
Sign Up to like & getrecommendations! Published in 2022 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbac385
Abstract: The three-dimensional genome structure plays a key role in cellular function and gene regulation. Single-cell Hi-C (high-resolution chromosome conformation capture) technology can capture genome structure information at the cell level, which provides the opportunity to… read more here.
Keywords: cell; evaluation; clustering frameworks; cell data ... See more keywords
Reconstructing physical cell interaction networks from single-cell data using Neighbor-seq
Sign Up to like & getrecommendations! Published in 2022 at "Nucleic Acids Research"
DOI: 10.1093/nar/gkac333
Abstract: Cell-cell interactions are the fundamental building blocks of tissue organization and multicellular life. We developed Neighbor-seq, a method to identify and annotate the architecture of direct cell-cell interactions and relevant ligand-receptor signaling from the undissociated… read more here.
Keywords: cell; cell data; single cell; neighbor seq ... See more keywords
Integrated analysis of multimodal single-cell data with structural similarity
Sign Up to like & getrecommendations! Published in 2022 at "Nucleic Acids Research"
DOI: 10.1093/nar/gkac781
Abstract: Abstract Multimodal single-cell sequencing technologies provide unprecedented information on cellular heterogeneity from multiple layers of genomic readouts. However, joint analysis of two modalities without properly handling the noise often leads to overfitting of one modality… read more here.
Keywords: cell; cell data; multimodal single; analysis ... See more keywords
scFates: a scalable python package for advanced pseudotime and bifurcation analysis from single-cell data
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1101/2022.07.09.498657
Abstract: scFates provides an extensive toolset for analysis of dynamic trajectories comprising tree learning, feature association testing, branch differential expression and with a focus on cell biasing and fate splits at the level of bifurcations. It… read more here.
Keywords: cell; python package; cell data; analysis ... See more keywords
Scalable Visualization for High-dimensional Single-cell Data
Sign Up to like & getrecommendations! Published in 2017 at "Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing"
DOI: 10.1142/9789813207813_0057
Abstract: Single-cell analysis can uncover the mysteries in the state of individual cells and enable us to construct new models about the analysis of heterogeneous tissues. State-of-the-art technologies for single-cell analysis have been developed to measure… read more here.
Keywords: single cell; high dimensional; visualization high; cell data ... See more keywords
ProgClust: A progressive clustering method to identify cell populations
Sign Up to like & getrecommendations! Published in 2023 at "Frontiers in Genetics"
DOI: 10.3389/fgene.2023.1183099
Abstract: Identifying different types of cells in scRNA-seq data is a critical task in single-cell data analysis. In this paper, we propose a method called ProgClust for the decomposition of cell populations and detection of rare… read more here.
Keywords: cell; progclust progressive; cell data; cell populations ... See more keywords
Meeting the Challenges of High-Dimensional Single-Cell Data Analysis in Immunology
Sign Up to like & getrecommendations! Published in 2019 at "Frontiers in Immunology"
DOI: 10.3389/fimmu.2019.01515
Abstract: Recent advances in cytometry have radically altered the fate of single-cell proteomics by allowing a more accurate understanding of complex biological systems. Mass cytometry (CyTOF) provides simultaneous single-cell measurements that are crucial to understand cellular… read more here.
Keywords: single cell; high dimensional; analysis; cell data ... See more keywords
Test cell data-based predictive modelling to determine HVAC energy consumption for three façade solutions in Madrid
Sign Up to like & getrecommendations! Published in 2018 at "Informes De La Construccion"
DOI: 10.3989/id.54794
Abstract: This study aims to narrow the gap between predicted and actual energy performance in buildings. Predictive models were established that relate the electric consumption by HVAC systems to maintain certain indoor environmental conditions in variable… read more here.
Keywords: hvac; energy; cell data; test cell ... See more keywords