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Chau, T.

Publications and source records attributed to Chau, T..

2 recordsLinked to original sources

Cross-species single-cell annotation with orthologous marker gene groups

Single-cell RNA sequencing (scRNA-seq) technology has been widely used in characterizing various cell types from in plant growth and development1-6. Applications of this technology in Arabidopsis have benefited from the extensive knowledge of cell-type identity markers7,8. Contrastingly, accurate labeling of cell types in other plant species remains a challenge due to the scarcity of known marker genes9. Various approaches have been explored to address this issue; however, studies have found many closest orthologs of cell-type identity marker genes in Arabidopsis do not exhibit the same cell-type identity across diverse plant species10,11. To address this challenge, we have developed a novel computational strategy called Orthologous Marker Gene Groups (OMGs). We demonstrated that using OMGs as a unit to determine cell type identity enables assignment of cell types by comparing 15 distantly related species. Our analysis revealed 14 dominant clusters with substantial conservation in shared cell-type markers across monocots and dicots.

bioinformatics↗

Online decoding of covert speech based on the passive perception of speech

BackgroundBrain-computer interfaces (BCIs) can offer solutions to communicative impairments induced by conditions such as locked-in syndrome. While covert speech-based BCIs have garnered interest, a major issue facing their clinical translation is the collection of sufficient volumes of high signal-to-noise ratio (SNR) examples of covert speech signals which can typically induce fatigue in users. Fortuitously, investigations into the linkage between covert speech and speech perception have revealed spatiotemporal similarities suggestive of shared encoding mechanisms. Here, we sought to demonstrate that an electroencephalographic cross-condition machine learning model of speech perception and covert speech can successfully decode neural speech patterns during online BCI scenarios. MethodsIn the current study, ten participants underwent a dyadic protocol whereby participants perceived the audio of a randomly chosen word and then subsequently mentally rehearsed it. Eight words were used during the offline sessions and subsequently narrowed down to three classes for the online session (two words, rest). The modelling was achieved by estimating a functional mapping derived from speech perception and covert speech signals of the same speech token (features were extracted via a Riemannian approach). ResultsWhile most covert speech BCIs deal with binary and offline classifications, we report an average ternary and online BCI accuracy of 75.3% (60% chance-level), reaching up to 93% in select participants. Moreover, we found that perception-covert modelling effectively enhanced the SNR of covert speech signals correlatively to their high-frequency correspondences. ConclusionsThese findings may pave the way to efficient and more user-friendly data collection for passively training such BCIs. Future iterations of this BCI can lead to a combination of audiobooks and unsupervised learning to train a non-trivial vocabulary that can support proto-naturalistic communication. Significance StatementCovert speech brain-computer interfaces (BCIs) provide new communication channels. However, these BCIs face practical challenges in collecting large volumes of high-quality covert speech data which can both induce fatigue and degrade BCI performance. This study leverages the reported spatiotemporal correspondences between covert speech and speech perception by deriving a functional mapping between them. While multiclass and online covert speech classification has previously been challenging, this study reports an average ternary and online classification accuracy of 75.3%, reaching up to 93% for select participants. Moreover, the current modelling approach augmented the signal-to-noise ratio of covert speech signals correlatively to their gamma-band correspondences. The proposed approach may pave the way toward a more efficient and user-friendly method of training covert speech BCIs.

neuroscience↗