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Ginzburg, S.

Publications and source records attributed to Ginzburg, S..

2 recordsLinked to original sources

Brain-Wide Subnetworks within and between Naturally Socializing Typical and Autism Model Mice

Social interaction is inherently asymmetric, requiring coordinated activity between non-homologous brain regions across individuals. However, the brain-wide dynamics underlying such inter-brain coordination remain poorly understood. We used multi-fiber photometry to simultaneously record from 24 brain regions in pairs of freely interacting mice, including a model of autism. Social interactions evoked widespread, dynamic activity across brains, with inter-brain synchrony, especially between non-homologous areas, exceeding intra-brain synchrony, particularly in dominant mice. Network analysis revealed three subnetworks: (1) Emotional, intra-brain enhanced in subordinates; (2) Sensory, spanning both mice; (3) Decision/consolidation, linking dominant prefrontal cortex to subordinate hippocampus. These subnetworks encoded dominance, identity, and interaction roles, and followed a clear temporal sequence around social events. In an autism model, socially evoked activity was hyperactive displaying mostly within brain synchrony but lacked inter-brain synchrony. Our results uncover dynamic inter-brain circuits as a hallmark of social behavior and reveal their disruption in autism.

neuroscience↗

EnTAP: Bringing Faster and Smarter Functional Annotation to Non-Model Eukaryotic Transcriptomes

EnTAP (Eukaryotic Non-Model Transcriptome Annotation Pipeline) was designed to improve the accuracy, speed, and flexibility of functional gene annotation for de novo assembled transcriptomes in non-model eukaryotes. This software package addresses the fragmentation and related assembly issues that result in inflated transcript estimates and poor annotation rates, while focusing primarily on protein-coding transcripts. Following filters applied through assessment of true expression and frame selection, open-source tools are leveraged to functionally annotate the translated proteins. Downstream features include fast similarity search across three repositories, protein domain assignment, orthologous gene family assessment, and Gene Ontology term assignment. The final annotation integrates across multiple databases and selects an optimal assignment from a combination of weighted metrics describing similarity search score, taxonomic relationship, and informativeness. Researchers have the option to include additional filters to identify and remove contaminants, identify associated pathways, and prepare the transcripts for enrichment analysis. This fully featured pipeline is easy to install, configure, and runs significantly faster than comparable annotation packages. EnTAP is optimized to generate extensive functional information for the gene space of organisms with limited or poorly characterized genomic resources.

bioinformatics↗