SynFundus-1M: A High-quality Million-scale Synthetic fundus images Dataset with Fifteen Types of Annotation

Large-scale public datasets with high-quality annotations are rarely available for intelligent medical imaging research, due to data privacy concerns and the cost of annotations. In this paper, we release SynFundus-1M, a high-quality synthetic dataset containing over one million fundus images in terms of \textbf{eleven disease types}. Furthermore, we deliberately assign four readability labels to the key regions of the fundus images. To the best of our knowledge, SynFundus-1M is currently the largest fundus dataset with the most sophisticated annotations. Leveraging over 1.3 million private authentic fundus images from various scenarios, we trained a powerful Denoising Diffusion Probabilistic Model, named SynFundus-Generator. The released SynFundus-1M are generated by SynFundus-Generator under predefined conditions. To demonstrate the value of SynFundus-1M, extensive experiments are designed in terms of the following aspect: 1) Authenticity of the images: we randomly blend the synthetic images with authentic fundus images, and find that experienced annotators can hardly distinguish the synthetic images from authentic ones. Moreover, we show that the disease-related vision features (e.g. lesions) are well simulated in the synthetic images. 2) Effectiveness for down-stream fine-tuning and pretraining: we demonstrate that retinal disease diagnosis models of either convolutional neural networks (CNN) or Vision Transformer (ViT) architectures can benefit from SynFundus-1M, and compared to the datasets commonly used for pretraining, models trained on SynFundus-1M not only achieve superior performance but also demonstrate faster convergence on various downstream tasks. SynFundus-1M is already public available for the open-source community

Identification of Interacting Proteins of Transcription Factor DpAP2 Related to Carotenoid Biosynthesis From Marine Microalga Dunaliella parva

Carotenoids are widely distributed and structurally diverse, which have significant roles in the photosynthesis of plants. As a precursor of vitamin A, carotenoids are also antioxidants that reduce various chronic diseases, which are beneficial for human health. Currently, the existing studies concerned the biological roles of APETALA2 (AP2)/ethylene-responsive factor (ERF) genes originated from higher plants. The AP2 superfamily of the transcriptional regulator was identified in higher plants, which was related to growth, development, carotenoid metabolism, and responses to various stresses. However, the regulatory mechanisms of the AP2-modulating carotenoid metabolism have not been reported in microalgae, which remain to be elucidated. Dunaliella parva AP2 (i.e., DpAP2), an important transcription factor, promotes carotenoid accumulation by binding to the promoter of target gene. Here, we identified an important AP2/ERF transcription factor, DpAP2, which could promote carotenoid accumulation by binding to the promoter of target gene. To demonstrate the function of DpAP2, the interacting proteins were identified by the yeast two-hybrid system. The results showed that DpAP2 could interact with three proteins with different activities (DNA-binding transcription factor activity, protein kinase activity, and alpha-D-phosphohexomutase activity); these proteins may be associated with multiple biological processes. This paper laid a good foundation for a deep understanding of the regulatory mechanisms of DpAP2 and genetic engineering breeding in D. parva

TensorMD: Scalable Tensor-Diagram based Machine Learning Interatomic Potential on Heterogeneous Many-Core Processors

Molecular dynamics simulations have emerged as a potent tool for investigating the physical properties and kinetic behaviors of materials at the atomic scale, particularly in extreme conditions. Ab initio accuracy is now achievable with machine learning based interatomic potentials. With recent advancements in high-performance computing, highly accurate and large-scale simulations become feasible. This study introduces TensorMD, a new machine learning interatomic potential (MLIP) model that integrates physical principles and tensor diagrams. The tensor formalism provides a more efficient computation and greater flexibility for use with other scientific codes. Additionally, we proposed several portable optimization strategies and developed a highly optimized version for the new Sunway supercomputer. Our optimized TensorMD can achieve unprecedented performance on the new Sunway, enabling simulations of up to 52 billion atoms with a time-to-solution of 31 ps/step/atom, setting new records for HPC + AI + MD

Search for dark matter produced in association with bottom or top quarks in √s = 13 TeV pp collisions with the ATLAS detector

A search for weakly interacting massive particle dark matter produced in association with bottom or top quarks is presented. Final states containing third-generation quarks and miss- ing transverse momentum are considered. The analysis uses 36.1 fb−1 of proton–proton collision data recorded by the ATLAS experiment at √s = 13 TeV in 2015 and 2016. No significant excess of events above the estimated backgrounds is observed. The results are in- terpreted in the framework of simplified models of spin-0 dark-matter mediators. For colour- neutral spin-0 mediators produced in association with top quarks and decaying into a pair of dark-matter particles, mediator masses below 50 GeV are excluded assuming a dark-matter candidate mass of 1 GeV and unitary couplings. For scalar and pseudoscalar mediators produced in association with bottom quarks, the search sets limits on the production cross- section of 300 times the predicted rate for mediators with masses between 10 and 50 GeV and assuming a dark-matter mass of 1 GeV and unitary coupling. Constraints on colour- charged scalar simplified models are also presented. Assuming a dark-matter particle mass of 35 GeV, mediator particles with mass below 1.1 TeV are excluded for couplings yielding a dark-matter relic density consistent with measurements