bioRxiv Science⌕ Search

Biology subjects

Almog, S.

Publications and source records attributed to Almog, S..

2 recordsLinked to original sources

Visual and auditory deep learning models capture neural representations of naturalistic social interaction in the superior temporal sulcus

The superior temporal sulcus (STS) is selectively responsive to multimodal social interactions. Yet studies so far have relied on pre-defined, simplified stimuli or features to uncover the type of information that drives STS activity. We hypothesized that high-dimensional representations from visual and auditory deep learning models would better predict STS responses to naturalistic social interactions. We used self-supervised visual and auditory deep learning models to extract representations of movie frames and audio, respectively, of a TV series participants watched during fMRI scanning. Voxel-wise encoding models of a joint visual-auditory representation outperformed human-made social-affective annotations in predicting STS. Variance partition further revealed visual-auditory posterior-to-anterior gradient within the STS. To interpret what these models encode, we applied Principal Component Analysis to the encoding model weights. In both the visual and auditory models the first dimension tracked social interaction and peaked in the STS, indicating that social interaction is a dominant dimension of STS representation across both modalities. We conclude that the STS represents naturalistic social interaction in a multimodal manner, integrating visual and auditory information, and that visual and auditory deep learning models capture key representational properties of these responses.

neuroscience↗

Prediction of synonymous corrections by the BE-FF computational tool expands the targeting scope of base editing

Base editing is a genome-editing approach that employs the CRISPR/Cas system to precisely install point mutations within the genome. A cytidine or adenosine deaminase enzyme is fused to a deactivated Cas and converts C to T or A to G, respectively. The diversified repertoire of base editors, varied in their Cas and deaminase proteins, provides a wide range of functionality. However, existing base-editors can only induce transition substitutions in a specified region determined by the base editor, thus, they are incompatible for many point mutations. Here, we present BE-FF (Base Editors Functional Finder), a novel computational tool that identifies suitable base editors to correct the translated sequence erred by a given single nucleotide variation. Even if a perfect correction of the single nucleotide variation is not possible, BE-FF detects synonymous corrections to produce the reference protein. To assess the potential of BE-FF, we analysed a database of human pathogenic point mutations and found suitable base editors for 60.9% of the transition mutations. Importantly, 19.4% of them were made possible only by synonymous corrections. Moreover, we detected 298 cases in which pathogenic mutations caused by transversions were potentially repairable by base editing via synonymous corrections, although it had been thought impractical. The BE-FF tool and the database are available at https://www.danioffenlab.com/be-ff. GRAPHICAL ABSTRACT O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=76 SRC="FIGDIR/small/890244v1_ufig1.gif" ALT="Figure 1"> View larger version (17K): org.highwire.dtl.DTLVardef@36330borg.highwire.dtl.DTLVardef@514ca0org.highwire.dtl.DTLVardef@17dbc56org.highwire.dtl.DTLVardef@1d7d8d2_HPS_FORMAT_FIGEXP M_FIG C_FIG

bioinformatics↗