Bioinformatics and Biomedical Informatics with ChatGPT: Year One Review

The year 2023 marked a significant surge in the exploration of applying large language model (LLM) chatbots, notably ChatGPT, across various disciplines. We surveyed the applications of ChatGPT in various sectors of bioinformatics and biomedical informatics throughout the year, covering omics, genetics, biomedical text mining, drug discovery, biomedical image understanding, bioinformatics programming, and bioinformatics education. Our survey delineates the current strengths and limitations of this chatbot in bioinformatics and offers insights into potential avenues for future development.

Deformable Kernel Convolutional Network for Video Extreme Super-Resolution

Video super-resolution, which attempts to reconstruct high-resolution video frames from their corresponding low-resolution versions, has received increasingly more attention in recent years. Most existing approaches opt to use deformable convolution to temporally align neighboring frames and apply traditional spatial attention mechanism (convolution based) to enhance reconstructed features. However, such spatial-only strategies cannot fully utilize temporal dependency among video frames. In this paper, we propose a novel deep learning based VSR algorithm, named Deformable Kernel Spatial Attention Network (DKSAN). Thanks to newly designed Deformable Kernel Convolution Alignment (DKC_Align) and Deformable Kernel Spatial Attention (DKSA) modules, DKSAN can better exploit both spatial and temporal redundancies to facilitate the information propagation across different layers. We have tested DKSAN on AIM2020 Video Extreme Super-Resolution Challenge to super-resolve videos with a scale factor as large as 16. Experimental results demonstrate that our proposed DKSAN can achieve both better subjective and objective performance compared with the existing state-of-the-art EDVR on Vid3oC and IntVID datasets.

AIM 2020 Challenge on Video Extreme Super-Resolution: Methods and Results

This paper reviews the video extreme super-resolution challenge associated with the AIM 2020 workshop at ECCV 2020. Common scaling factors for learned video super-resolution (VSR) do not go beyond factor 4. Missing information can be restored well in this region, especially in HR videos, where the high-frequency content mostly consists of texture details. The task in this challenge is to upscale videos with an extreme factor of 16, which results in more serious degradations that also affect the structural integrity of the videos. A single pixel in the low-resolution (LR) domain corresponds to 256 pixels in the high-resolution (HR) domain. Due to this massive information loss, it is hard to accurately restore the missing information. Track 1 is set up to gauge the state-of-the-art for such a demanding task, where fidelity to the ground truth is measured by PSNR and SSIM. Perceptually higher quality can be achieved in trade-off for fidelity by generating plausible high-frequency content. Track 2 therefore aims at generating visually pleasing results, which are ranked according to human perception, evaluated by a user study. In contrast to single image super-resolution (SISR), VSR can benefit from additional information in the temporal domain. However, this also imposes an additional requirement, as the generated frames need to be consistent along time.