Results 1 to 10 of about 64,372 (164)

scBoolSeq: Linking scRNA-seq statistics and Boolean dynamics.

PLoS Computational Biology, 2023
Boolean networks are largely employed to model the qualitative dynamics of cell fate processes by describing the change of binary activation states of genes and transcription factors with time.
Gustavo Magaña-López, Laurence Calzone, Andrei Zinovyev, Loïc Paulevé   +3 more
doaj   +5 more sources

Partial domain adaptation enables cross domain cell type annotation between scRNA-seq and snRNA-seq. [PDF]

PLoS Computational Biology
Accurate cell type annotation across datasets is a key challenge in single-cell analysis. snRNA-seq enables profiling of frozen or difficult-to-dissociate tissues, complementing scRNA-seq by capturing fragile or rare cell types. However, cross-annotation
Xiran Chen, Quan Zou, Qinyu Cai, Xiaofeng Chen, Weikai Li, Yansu Wang   +5 more
doaj   +2 more sources

Robust subspace structure discovery for cell type identification in scRNA-seq data [PDF]

BMC Bioinformatics
Single-cell RNA sequencing (scRNA-seq) technology has transformed gene expression studies by enabling analysis at the individual cell level, offering unprecedented insights into cellular heterogeneity.
Xianyong Zhou, Xindian Wei, Cheng Liu, Wenjun Shen, Ping Xuan, Si Wu, Hau-San Wong   +6 more
doaj   +2 more sources

Benchmarking scRNA-seq copy number variation callers. [PDF]

Nat Commun
Abstract Copy number variations (CNVs), the gain or loss of genomic regions, are associated with disease, especially cancer. Single cell technologies offer new possibilities to capture within-sample heterogeneity of CNVs and identify subclones relevant for tumor progression and treatment outcome.
Schmid KT, Symeonidi A, Hlushchenko D, Richter ML, Tijhuis AE, Foijer F, Colomé-Tatché M.   +6 more
europepmc   +4 more sources

deMULTIplex2: robust sample demultiplexing for scRNA-seq [PDF]

Genome Biology, 2023
Abstract Single-cell sample multiplexing technologies function by associating sample-specific barcode tags with cell-specific barcode tags, thereby increasing sample throughput, reducing batch effects, and decreasing reagent costs. Computational methods must then correctly associate cell-tags with sample-tags, but their performance ...
Qin Zhu, Daniel N. Conrad, Zev J. Gartner   +2 more
openaire   +5 more sources

scDrug: From single-cell RNA-seq to drug response prediction

Computational and Structural Biotechnology Journal, 2023
Single-cell RNA sequencing (scRNA-seq) technology allows massively parallel characterization of thousands of cells at the transcriptome level. scRNA-seq is emerging as an important tool to investigate the cellular components and their interactions in the
Chiao-Yu Hsieh, Jian-Hung Wen, Shih-Ming Lin, Tzu-Yang Tseng, Jia-Hsin Huang, Hsuan-Cheng Huang, Hsueh-Fen Juan   +6 more
doaj   +1 more source

Microfluidics Facilitates the Development of Single-Cell RNA Sequencing

Biosensors, 2022
Single-cell RNA sequencing (scRNA-seq) technology provides a powerful tool for understanding complex biosystems at the single-cell and single-molecule level.
Yating Pan, Wenjian Cao, Ying Mu, Qiangyuan Zhu   +3 more
doaj   +1 more source

RFCell: A Gene Selection Approach for scRNA-seq Clustering Based on Permutation and Random Forest

Frontiers in Genetics, 2021
In recent years, the application of single cell RNA-seq (scRNA-seq) has become more and more popular in fields such as biology and medical research. Analyzing scRNA-seq data can discover complex cell populations and infer single-cell trajectories in cell
Yuan Zhao, Zhao-Yu Fang, Cui-Xiang Lin, Chao Deng, Yun-Pei Xu, Hong-Dong Li   +5 more
doaj   +1 more source

scRNA‐seq data analysis method to improve analysis performance

IET Nanobiotechnology, 2023
With the development of single‐cell RNA sequencing technology (scRNA‐seq), we have the ability to study biological questions at the level of the individual cell transcriptome.
Junru Lu, Yuqi Sheng, Weiheng Qian, Min Pan, Xiangwei Zhao, Qinyu Ge   +5 more
doaj   +1 more source

Revealing cell fate decisions during reprogramming by scRNA-seq [PDF]

E3S Web of Conferences, 2020
Single-cell RNA sequencing (scRNA-seq) technologies serve as powerful tools to dissect cellular heterogeneity comprehensively. With the rapid development of scRNA-seq, many previously unsolved questions were answered by using scRNA-seq.
Liang Yu
doaj   +1 more source