Results 91 to 100 of about 81,661 (282)

A flexible network-based imputing-and-fusing approach towards the identification of cell types from single-cell RNA-seq data

BMC Bioinformatics, 2020
Background Single-cell RNA sequencing (scRNA-seq) provides an effective tool to investigate the transcriptomic characteristics at the single-cell resolution.
Yang Qi, Yang Guo, Huixin Jiao, Xuequn Shang   +3 more
doaj   +1 more source

Mapping the Cerebral Organoid Landscape: A Systematic Review of Preclinical 3D Models in Neuroscience

Advanced Healthcare Materials, EarlyView.
Cerebral organoids are transforming brain research, yet the field remains fragmented. This comprehensive systematic review maps 738 studies published between 2014 and 2024 to uncover trends, gaps, and opportunities across neuroscience. Introducing OrganoidMap—an interactive, open‐access platform to explore and compare models—this work enables ...
Anna Wolfram, Vanessa Arnold, Maik Wolfram‐Schauerte, Anastassiya Moskalchuk, Caroline Trust, Marie Vontz, Mona Scheurenbrand, Vijayasarathy Sampath‐Kumar, Sogand Ahari, Carlos Romero‐Nieto, Lisa Sevenich   +10 more
wiley   +1 more source

Engineered ETS1‐Nanoconjugate Restores Immune Homeostasis through Dual Immune‐Vascular Modulation in Relapsing and Progressive Multiple Sclerosis

Advanced Healthcare Materials, EarlyView.
The biomimetic nanoplatform IMNP (ETS1 pDNA/PBAE@ITP‐MM) undergoes targeted disassembly at inflammatory vascular sites to release the ETS1 plasmid (pETS1). This release initiates a cascade of effects that inhibit pathogenic pathways and support immune homeostasis. (Abbreviations: EndMT, endothelial‐to‐mesenchymal transition; EC, endothelial cell; TC, T
Feng Zhang, Si‐Bo Yang, Yan Luo, Xiao‐Di Sun, Bo‐Hao Chang, Da‐Qiang Zhou, Jun‐Jie Jiang, Ya‐Nan Li, Jie‐Hong Wu, Hui‐Juan Jin, Hang Yang, Hang Hu, Yi‐Fan Zhou, Bo Hu   +13 more
wiley   +1 more source

GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization

, 2018
Bioinformatics tools have been developed to interpret gene expression data at the gene set level, and these gene set based analyses improve the biologists' capability to discover functional relevance of their experiment design. While elucidating gene set
Chen, Hung-I Harry, Chen, Yidong, Chiu, Yu-Chiao, Huang, Yufei, Zhang, Songyao, Zhang, Tinghe   +5 more
core   +3 more sources

Single-cell epigenomic variability reveals functional cancer heterogeneity. [PDF]

, 2017
BackgroundCell-to-cell heterogeneity is a major driver of cancer evolution, progression, and emergence of drug resistance. Epigenomic variation at the single-cell level can rapidly create cancer heterogeneity but is difficult to detect and assess ...
Buenrostro, Jason D, Chang, Howard Y, Greenleaf, William J, Kathiria, Arwa, Litzenburger, Ulrike M, Sheffield, Nathan C, Shen, Ying, Wu, Beijing   +7 more
core   +2 more sources

High‐Throughput 3D Matrigel‐based Droplet Microfluidics for Single‐Cell Function‐to‐Omics Analysis of Cytotoxic Immune Cells in Solid Tumor Interactions

Advanced Materials Technologies, EarlyView.
A 3D Matrigel‐based droplet microfluidics platform that allows physiologically relevant analysis of single immune‐tumor interactions in solid tumors. By integrating real‐time functional imaging with fluorescence‐activated droplet sorting and RNA sequencing, the system links immune cytotoxic behavior to transcriptomic profiles, providing a scalable ...
Christina Sharkey, Harry Akligoh, Michael Finocchiaro, Abhishek Srihari Rampelli, Zongwei Wang, Aria F. Olumi, Tania Konry   +6 more
wiley   +1 more source

Single-cell transcriptomes reveal cell-type-specific and sample-specific gene function in human cancer

Heliyon
Accurate annotation of gene function in individual samples and even in each cell type is essential for understanding the pathogenesis of cancers. Single-cell RNA-sequencing (scRNA-seq) provides unprecedented resolution to decipher gene function. In order
Huating Yuan, Xin Liang, Xinxin Zhang, Yu Cao   +3 more
doaj   +1 more source

ELLIPSIS: robust quantification of splicing in scRNA-seq

Bioinformatics
Abstract Motivation Alternative splicing is a tightly regulated biological process, that due to its cell type specific behavior, calls for analysis at the single cell level. However, quantifying differential splicing in scRNA-seq is challenging due to low and uneven coverage.
Marie Van Hecke, Niko Beerenwinkel, Thibault Lootens, Jan Fostier, Robrecht Raedt, Kathleen Marchal   +5 more
openaire   +4 more sources

Tissue signals imprint ILC2 identity with anticipatory function. [PDF]

, 2018
Group 2 innate lymphoid cells (ILC2s) are distributed systemically and produce type 2 cytokines in response to a variety of stimuli, including the epithelial cytokines interleukin (IL)-25, IL-33, and thymic stromal lymphopoietin (TSLP).
Eckalbar, Walter L, Erle, David J, Lee, Jinwoo, Liang, Hong-Erh, Locksley, Richard M, Molofsky, Ari B, Nussbaum, Jesse C, Ricardo-Gonzalez, Roberto R, Schneider, Christoph, Vaka, Dedeepya, Van Dyken, Steven J   +10 more
core  

Normalizing single-cell RNA sequencing data: challenges and opportunities [PDF]

, 2017
Single-cell transcriptomics is becoming an important component of the molecular biologist's toolkit. A critical step when analyzing data generated using this technology is normalization.
A Mortazavi, A Scialdone, A Zeisel, A-E Saliba, AA Kolodziejczyk, AA Kolodziejczyk, AA Pollen, AM Klein, Antonio Scialdone, AT Lun, B Ding, B Li, C Gawad, C Trapnell, CA Vallejos, CA Vallejos, Catalina A Vallejos, D Grün, D Risso, Davide Risso, E Pierson, E Shapiro, EZ Macosko, F Buettner, F Tang, G Finak, GK Smyth, J Lovén, JH Bullard, John C Marioni, JT Leek, L Haghverdi, L Jiang, M Goolam, M-A Dillies, MD Robinson, O Stegle, P Brennecke, PV Kharchenko, R Bacher, S Anders, S Islam, S Islam, S Katayama, SA Hardwick, SA Munro, Sandrine Dudoit, X Qiu   +47 more
core   +2 more sources