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Bauer, F.

Publications and source records attributed to Bauer, F..

2 recordsLinked to original sources

Differential representation of natural and manmade images in the human ventral visual stream

AO_SCPLOWBSTRACTC_SCPLOWThe human visual cortex processes visual stimuli hierarchically. Early visual areas (V1, V2) of the ventral visual stream feed crude visual features (like orientation and edges) into later visual areas (V4, lateral occipital (Lat Occ), inferior temporal (IT)) that then encode complex visual features (like object form). Previous studies have reported a difference in fMRI responses between natural and urban landscapes in certain parts of the brain. Here we asked if this distinction in the representation of complex natural and man-made visual stimuli extends to the ventral visual stream and if state-of-the-art convolutional neural networks (CNN) provide a map to this categorical distinction. To assess this, we used an open source fMRI data set of V1-4 and LatOcc BOLD responses to 1750 passively viewed natural and man-made grayscale images. The same images were fed into the pre-trained CORnet-S, a CNN designed to model hierarchical human visual processing layer-wise. To identify differences in representations within and between the human visual cortex and the CNN, we computed representational dissimilarity matrices. The BOLD response to the manmade and natural images shows correlation differences for the two categories, which increase across V4 and LatOcc. Such differences were also observed in the model CORnet-S for the layers V4 and IT. Our results suggest that the human visual cortex processes natural and manmade images differently starting from V4 and that this representational difference is modeled in CORnet-S. In both, categorical representation is progressively established in the later processing stages. This might indicate that the brain has perhaps developed two-distinct systems for their representations which can be directed through evolution. Further analysis may elucidate the contributory role of evolution towards this paradigm.

neuroscience↗

Combining deep learning and automated feature extraction to analyze minirhizotron images: development and validation of a new pipeline

Root systems of crops play a significant role in agro-ecosystems. The root system is essential for water and nutrient uptake, plant stability, symbiosis with microbes and a good soil structure. Minirhizotrons, consisting of transparent tubes that create windows into the soil, have shown to be effective to non-invasively investigate the root system. Root traits, like root length observed around the tubes of minirhizotron, can therefore be obtained throughout the crop growing season. Analyzing datasets from minirhizotrons using common manual annotation methods, with conventional software tools, are time consuming and labor intensive. Therefore, an objective method for high throughput image analysis that provides data for field root-phenotyping is necessary. In this study we developed a pipeline combining state-of-the-art software tools, using deep neural networks and automated feature extraction. This pipeline consists of two major components and was applied to large root image datasets from minirhizotrons. First, a segmentation by a neural network model, trained with a small image sample is performed. Training and segmentation are done using "Root-Painter". Then, an automated feature extraction from the segments is carried out by "RhizoVision Explorer". To validate the results of our automated analysis pipeline, a comparison of root length between manually annotated and automatically processed data was realized with more than 58,000 images. Mainly the results show a high correlation (R=0.81) between manually and automatically determined root lengths. With respect to the processing time, our new pipeline outperforms manual annotation by 98.1 - 99.6 %. Our pipeline,combining state-of-the-art software tools, significantly reduces the processing time for minirhizotron images. Thus, image analysis is no longer the bottle-neck in high-throughput phenotyping approaches.

plant biology↗