WeakTr: Exploring Plain Vision Transformer for Weakly-supervised Semantic Segmentation

This paper explores the properties of the plain Vision Transformer (ViT) for Weakly-supervised Semantic Segmentation (WSSS). The class activation map (CAM) is of critical importance for understanding a classification network and launching WSSS. We observe that different attention heads of ViT focus on different image areas. Thus a novel weight-based method is proposed to end-to-end estimate the importance of attention heads, while the self-attention maps are adaptively fused for high-quality CAM results that tend to have more complete objects. Besides, we propose a ViT-based gradient clipping decoder for online retraining with the CAM results to complete the WSSS task. We name this plain Transformer-based Weakly-supervised learning framework WeakTr. It achieves the state-of-the-art WSSS performance on standard benchmarks, i.e., 78.4% mIoU on the val set of PASCAL VOC 2012 and 50.3% mIoU on the val set of COCO 2014. Code is available at https://github.com/hustvl/WeakTr.Comment: 20 pages, 11 figure

The <i>Sinocyclocheilus</i> cavefish genome provides insights into cave adaptation

BACKGROUND: An emerging cavefish model, the cyprinid genus Sinocyclocheilus, is endemic to the massive southwestern karst area adjacent to the Qinghai-Tibetan Plateau of China. In order to understand whether orogeny influenced the evolution of these species, and how genomes change under isolation, especially in subterranean habitats, we performed whole-genome sequencing and comparative analyses of three species in this genus, S. grahami, S. rhinocerous and S. anshuiensis. These species are surface-dwelling, semi-cave-dwelling and cave-restricted, respectively. RESULTS: The assembled genome sizes of S. grahami, S. rhinocerous and S. anshuiensis are 1.75 Gb, 1.73 Gb and 1.68 Gb, respectively. Divergence time and population history analyses of these species reveal that their speciation and population dynamics are correlated with the different stages of uplifting of the Qinghai-Tibetan Plateau. We carried out comparative analyses of these genomes and found that many genetic changes, such as gene loss (e.g. opsin genes), pseudogenes (e.g. crystallin genes), mutations (e.g. melanogenesis-related genes), deletions (e.g. scale-related genes) and down-regulation (e.g. circadian rhythm pathway genes), are possibly associated with the regressive features (such as eye degeneration, albinism, rudimentary scales and lack of circadian rhythms), and that some gene expansion (e.g. taste-related transcription factor gene) may point to the constructive features (such as enhanced taste buds) which evolved in these cave fishes. CONCLUSION: As the first report on cavefish genomes among distinct species in Sinocyclocheilus, our work provides not only insights into genetic mechanisms of cave adaptation, but also represents a fundamental resource for a better understanding of cavefish biology. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12915-015-0223-4) contains supplementary material, which is available to authorized users

Mudskipper genomes provide insights into the terrestrial adaptation of amphibious fishes

Mudskippers are amphibious fishes that have developed morphological and physiological adaptations to match their unique lifestyles. Here we perform whole-genome sequencing of four representative mudskippers to elucidate the molecular mechanisms underlying these adaptations. We discover an expansion of innate immune system genes in the mudskippers that may provide defence against terrestrial pathogens. Several genes of the ammonia excretion pathway in the gills have experienced positive selection, suggesting their important roles in mudskippers’ tolerance to environmental ammonia. Some vision-related genes are differentially lost or mutated, illustrating genomic changes associated with aerial vision. Transcriptomic analyses of mudskippers exposed to air highlight regulatory pathways that are up- or down-regulated in response to hypoxia. The present study provides a valuable resource for understanding the molecular mechanisms underlying water-to-land transition of vertebrates

Solvent engineering for the formation of high-quality perovskite films:a review

Organic-inorganic hybrid perovskite solar cells have made tremendous breakthroughs in device photovoltaic performance, but the solution chemistry features are poorly understood. Herein, the fundamental processes of perovskite crystal crystallization and several templates for crystal growth are described. Then the solvent systems for preparing perovskite thin films are introduced, including pure, binary, and ternary solvents. The interaction of precursor ligand molecules in solution, which is related to the nature of the intermediate phase, is dependent on distinct ligand molecules, including dimethylformamide (DMF), N-methyl-2-pyrrolidone (NMP), dimethyl sulfoxide (DMSO), acetonitrile (ACN), urea, etc. The polarity of the solvent determines the degree of binding to Pb2+ and the stability of the complex, which affects the quality of the perovskite films. In solvent engineering research field, strong polar solvents will interact with Pb2+, which leads to the extensive study of perovskite intermediate phases. In this review, several typical intermediate phases are summarized as solvent-induced intermediates, HI intermediates, MA intermediates and MAAc intermediates. The intermediate phases are annealed or antisolvent treated to further form perovskite films, resulting in perovskite films with low defects, high-quality and few pinholes. On this basis, we propose the use of green solvents instead of toxic solvents for the preparation of perovskite thin films by multi-solvent systems, which provides some feasible ideas for further realization of high-performance perovskite solar cells with long-term device stability. Overall, this review seeks to provide a comprehensive and detailed analysis of the most recent advancements in solvent engineering for perovskite film formation, emphasizing its potential to improve the performance and stability of PSCs. In addition, it offers insights into the mechanisms underlying solvent engineering and its influence on film morphology and crystallization

Association of 24-h urinary sodium excretion with microalbuminuria in a Chinese population

Abstract To assess the relationship of sodium, potassium and the ratio of sodium to potassium (Na/K) with albuminuria, a cross-sectional study was carried out in China in 2017. Sodium, potassium and albumin excretions were examined in a 24-h (h) urine sample collected from 1486 participants. Microalbuminuria was defined as 24-h urinary albumin excretion between 30 and 300 mg/24 h. The participants had an average age of 46.2 ± 14.1 years old, and 48.9% were men. The proportion of patients with microalbuminuria was 9.0%. As illustrated by the adjusted generalized linear mixed model, sodium concentration increased significantly with the increase in 24-h urinary albumin (β = 1.16, 95% confidence interval (CI) 0.38–1.93; P = 0.003). Multivariable-adjusted logistic regression analyses demonstrated that the odds ratio (OR) of microalbuminuria increased with the quartiles of sodium [OR = 2.20, 95% CI 1.26–3.84 (the maximum quartile vs. the minimum quartile), P for trend = 0.006]. Potassium and the Na/K ratio did not have any association with outcome indicators. A high amount of sodium intake was potentially correlated with early renal function impairment

Weighted Gene Co-Expression Analysis Network-Based Analysis on the Candidate Pathways and Hub Genes in Eggplant Bacterial Wilt-Resistance: A Plant Research Study

Solanum melongena L. (eggplant) bacterial wilt is a severe soil borne disease. Here, this study aimed to explore the regulation mechanism of eggplant bacterial wilt-resistance by transcriptomics with weighted gene co-expression analysis network (WGCNA). The different expression genes (DEGs) of roots and stems were divided into 21 modules. The module of interest (root: indianred4, stem: coral3) with the highest correlation with the target traits was selected to elucidate resistance genes and pathways. The selected module of roots and stems co-enriched the pathways of MAPK signalling pathway, plant pathogen interaction, and glutathione metabolism. Each top 30 hub genes of the roots and stems co-enriched a large number of receptor kinase genes. A total of 14 interesting resistance-related genes were selected and verified with quantitative polymerase chain reaction (qPCR). The qPCR results were consistent with those of WGCNA. The hub gene of EGP00814 (namely SmRPP13L4) was further functionally verified; SmRPP13L4 positively regulated the resistance of eggplant to bacterial wilt by qPCR and virus-induced gene silencing (VIGS). Our study provides a reference for the interaction between eggplants and bacterial wilt and the breeding of broad-spectrum and specific eggplant varieties that are bacterial wilt-resistant