The role of awareness in shaping responses in human visual cortex

The visual cortex contains information about stimuli even when they are not consciously perceived. However, it remains unknown whether the visual system integrates local features into global objects without awareness. Here, we tested this by measuring brain activity in human observers viewing fragmented shapes that were either visible or rendered invisible by fast counterphase flicker. We then projected measured neural responses to these stimuli back into visual space. Visible stimuli caused robust responses reflecting the positions of their component fragments. Their neural representations also strongly resembled one another regardless of local features. By contrast, representations of invisible stimuli differed from one another and, crucially, also from visible stimuli. Our results demonstrate that even the early visual cortex encodes unconscious visual information differently from conscious information, presumably by only encoding local features. This could explain previous conflicting behavioural findings on unconscious visual processing

Joint Hypergraph Learning and Sparse Regression for Feature Selection

In this paper, we propose a unified framework for improved structure estimation and feature selection. Most existing graph-based feature selection methods utilise a static representation of the structure of the available data based on the Laplacian matrix of a simple graph. Here on the other hand, we perform data structure learning and feature selection simultaneously. To improve the estimation of the manifold representing the structure of the selected features, we use a higher order description of the neighbour- hood structures present in the available data using hypergraph learning. This allows those features which participate in the most significant higher order relations to be se- lected, and the remainder discarded, through a sparsification process. We formulate a single objective function to capture and regularise the hypergraph weight estimation and feature selection processes. Finally, we present an optimization algorithm to re- cover the hyper graph weights and a sparse set of feature selection indicators. This process offers a number of advantages. First, by adjusting the hypergraph weights, we preserve high-order neighborhood relations reflected in the original data, which cannot be modeled by a simple graph. Moreover, our objective function captures the global discriminative structure of the features in the data. Comprehensive experiments on 9 benchmark data sets show that our method achieves statistically significant improve- ment over state-of-art feature selection methods, supporting the effectiveness of the proposed method

Transcriptome dynamics-based operon prediction and verification in Streptomyces coelicolor

Streptomyces spp. produce a variety of valuable secondary metabolites, which are regulated in a spatio-temporal manner by a complex network of inter-connected gene products. Using a compilation of genome-scale temporal transcriptome data for the model organism, Streptomyces coelicolor, under different environmental and genetic perturbations, we have developed a supervised machine-learning method for operon prediction in this microorganism. We demonstrate that, using features dependent on transcriptome dynamics and genome sequence, a support vector machines (SVM)-based classification algorithm can accurately classify >90% of gene pairs in a set of known operons. Based on model predictions for the entire genome, we verified the co-transcription of more than 250 gene pairs by RT-PCR. These results vastly increase the database of known operons in S. coelicolor and provide valuable information for exploring gene function and regulation to harness the potential of this differentiating microorganism for synthesis of natural products

The role of awareness in shaping responses in human visual cortex

The visual cortex contains information about stimuli even when they are not consciously perceived. However, it remains unknown whether the visual system integrates local features into global objects without awareness. Here, we tested this by measuring brain activity in human observers viewing fragmented shapes that were either visible or rendered invisible by fast counterphase flicker. We then projected measured neural responses to these stimuli back into visual space. Visible stimuli caused robust responses reflecting the positions of their component fragments. Their neural representations also strongly resembled one another regardless of local features. By contrast, representations of invisible stimuli differed from one another and, crucially, also from visible stimuli. Our results demonstrate that even the early visual cortex encodes unconscious visual information differently from conscious information, presumably by only encoding local features. This could explain previous conflicting behavioural findings on unconscious visual processing

BIOINFORMATICS ORIGINAL PAPER doi:10.1093/bioinformatics/btm322

Annotation-based distance measures for patient subgroup discovery in clinical microarray studie