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Biology subjects

Henrie, A.

Publications and source records attributed to Henrie, A..

2 recordsLinked to original sources

Neurons and astrocytes have distinct organelle signatures and responses to stress

Neurons and astrocytes play critical yet divergent roles in brain physiology and neurological conditions. Intracellular organelles are integral to cellular function. However, an in-depth characterization of organelles in live brain cells has not been performed. Here, we used multispectral imaging to simultaneously visualize six organelles - endoplasmic reticulum (ER), lysosomes, mitochondria, peroxisomes, Golgi, and lipid droplets - in live primary rodent neurons and astrocytes. We generated a dataset of 173 Z-stack and 99 time-lapse images accompanied by quantitative analysis of 1418 metrics (the "organelle signature"). Comparative analysis revealed clear cell-type specificity in organelle morphology and interactions. Neurons were characterized by prominent mitochondrial composition and interactions, while astrocytes contained more lysosomes and lipid droplet interactions. Additionally, neurons displayed a more robust organelle response than astrocytes to acute oxidative or ER stress. Our data provide a systems-level characterization of neuron and astrocyte organelles that can be a reference for understanding cell- type-specific physiology and disease.

cell biology↗

iSODA: A Comprehensive Tool for Integrative Omics Data Analysis in Single- and Multi-Omics Experiments

Omics technologies including genomics, proteomics, metabolomics, and lipidomics allow profound insights into health and disease. Thanks to plummeting costs of continuously evolving omics analytical platforms, research centers collect multi-omics data more routinely. They are, however, confronted with the lack of a versatile software solution to harmoniously analyze single-omics data and merge and interpret multi-omics data. We have developed iSODA, an interactive web-based application for the analysis of single-as well as multi-omics omics data. The software tool emphasizes intuitive, interactive visualizations designed for user-driven data exploration. Researchers can filter and normalize their datasets and access a variety of functions ranging from simple data visualization like volcano plots and PCA, to advanced functional analyses like enrichment analysis for proteomics and saturation analysis for lipidomics. For insights from integrated multi-omics, iSODA incorporates Multi-Omics Factor Analysis - MOFA, and Similarity Network Fusion - SNF. All results are presented in interactive plots with the possibility of downloading plots and associated data. The ability to adapt the imported data on-the-fly allows for tasks such as removal of outlier samples or failed features, various imputation strategies, or data normalization. The modular design allows for extensions with new analyses and plots. The software is accessible under http://isoda.online/. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=112 SRC="FIGDIR/small/605811v1_ufig1.gif" ALT="Figure 1"> View larger version (41K): org.highwire.dtl.DTLVardef@1eb61c8org.highwire.dtl.DTLVardef@60a7feorg.highwire.dtl.DTLVardef@1b54b41org.highwire.dtl.DTLVardef@15fd1b2_HPS_FORMAT_FIGEXP M_FIG C_FIG Graphical summary for iSODA showcasing some application examples, the data import, the single-omics and multi-omics modules.

bioinformatics↗