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"Xu, Heng"
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Corn or maize leaf disease classification based on CNN and vision mamba model
Accurate classification of corn leaf diseases is critical for timely detection and control of pests and diseases. By accurately recognizing different types of leaf diseases, farmers and agricultural experts can quickly take targeted control measures to reduce crop losses and safeguard corn yield and quality. Since these corn leaf disease images usually contain complex backgrounds, similar lesion features, and limited labeling data, it causes traditional convolutional neural networks (CNNs) to easily confuse the lesion region with the background, making it difficult to distinguish between different disease types. To address these limitations, we propose G-ResNet, a hybrid CNN-Vision Mamba network that enhances disease-relevant feature learning through a hierarchical feature attention module and a scale feature attention module. It was demonstrated experimentally that G-ResNet can better classify maize leaf disease images. The code is available at
https://github.com/gustafmy/g_resnet.git
.
Journal Article
Strongly lensed repeating fast radio bursts as precision probes of the universe
2018
Fast radio bursts (FRBs), bright transients with millisecond durations at ∼GHz and typical redshifts probably >0.8, are likely to be gravitationally lensed by intervening galaxies. Since the time delay between images of strongly lensed FRB can be measured to extremely high precision because of the large ratio ∼10
9
between the typical galaxy-lensing delay time
~
O
(10 days) and the width of bursts
~
O
(ms), we propose strongly lensed FRBs as precision probes of the universe. We show that, within the flat ΛCDM model, the Hubble constant
H
0
can be constrained with a ~0.91% uncertainty from 10 such systems probably observed with the square kilometer array (SKA) in <30 years. More importantly, the cosmic curvature can be model independently constrained to a precision of ∼0.076. This constraint can directly test the validity of the cosmological principle and break the intractable degeneracy between the cosmic curvature and dark energy.
Fast radio bursts (FRBs) are likely to be gravitationally lensed by intervening galaxies. Here, the authors propose to make accurate measurements of time delays between images of lensed FRBs as a powerful probe for precision cosmology.
Journal Article
Probing dark matter particles at CEPC
by
Liu, Zuowei
,
Xu, Yong-Heng
,
Zhang, Yu
in
Beyond Standard Model
,
Classical and Quantum Gravitation
,
Cosmology of Theories beyond the SM
2019
A
bstract
We investigate the capability of the future electron collider CEPC in probing the parameter space of several dark matter models, including millicharged dark matter models,
Z
′
portal dark matter models, and effective dark matter operators. In our analysis, the monophoton final state is used as the primary channel to detect dark matter models at CEPC. To maximize the signal to background significance, we study the energy and angular distributions of the monophoton channel arising from dark matter models and from the standard model to design a set of detector cuts. For the
Z
′
portal dark matter, we also analyze the
Z
′
boson visible decay channel which is found to be complementary to the monophoton channel in certain parameter space. The CEPC reach in the parameter space of dark matter models is also put in comparison with Xenon1T. We find that CEPC has the unprecedented sensitivity to certain parameter space for the dark matter models considered; for example, CEPC can improve the limits on millicharge by one order of magnitude than previous collider experiments for
O
1
−
100
GeV dark matter.
Journal Article
Pan-cancer single-cell analysis reveals the heterogeneity and plasticity of cancer-associated fibroblasts in the tumor microenvironment
2022
Cancer-associated fibroblasts (CAFs) are the predominant components of the tumor microenvironment (TME) and influence cancer hallmarks, but without systematic investigation on their ubiquitous characteristics across different cancer types. Here, we perform pan-cancer analysis on 226 samples across 10 solid cancer types to profile the TME at single-cell resolution, illustrating the commonalities/plasticity of heterogenous CAFs. Activation trajectory of the major CAF types is divided into three states, exhibiting distinct interactions with other cell components, and relating to prognosis of immunotherapy. Moreover, minor CAF components represent the alternative origin from other TME components (e.g., endothelia and macrophages). Particularly, the ubiquitous presentation of endothelial-to-mesenchymal transition CAF, which may interact with proximal SPP
1
+
tumor-associated macrophages, is implicated in endothelial-to-mesenchymal transition and survival stratifications. Our study comprehensively profiles the shared characteristics and dynamics of CAFs, and highlight their heterogeneity and plasticity across different cancer types. Browser of integrated pan-cancer single-cell information is available at
https://gist-fgl.github.io/sc-caf-atlas/
.
Cancer-associated fibroblasts (CAFs) are a predominant and critical component of the tumour microenvironment. Here, the authors integrate and analyse single-cell RNA-seq data of CAFs across 10 common solid cancer types, identifying their plasticity and interactions with other cell types.
Journal Article
Multi‐networks connectivity at baseline predicts the clinical efficacy of left angular gyrus‐navigated rTMS in the spectrum of Alzheimer's disease: A sham‐controlled study
by
Yang, Zhi‐Yuan
,
Qin, Ruo‐Meng
,
Chen, Hai‐Feng
in
Aged
,
Alzheimer Disease - diagnostic imaging
,
Alzheimer Disease - psychology
2023
Introduction Neuro‐navigated repetitive transcranial magnetic stimulation (rTMS) is effective in alleviating cognitive deficits in Alzheimer's disease (AD). However, the strategy for target determination and the mechanisms for cognitive improvement remain unclear. Methods One hundred and thirteen elderly subjects were recruited in this study, including both cross‐sectional (n = 79) and longitudinal experiments (the rTMS group: n = 24; the sham group: n = 10). The cross‐sectional experiment explored the precise intervention target based on the cortical–hippocampal network. The longitudinal experiment investigated the clinical efficacy of neuro‐navigated rTMS treatment over a four‐week period and explored its underlying neural mechanism using seed‐based and network‐based analysis. Finally, we applied connectome‐based predictive modeling to predict the rTMS response using these functional features at baseline. Results RTMS at a targeted site of the left angular gyrus (MNI: −45, −67, 38) significantly induced cognitive improvement in memory and language function (p < 0.001). The improved cognition correlated with the default mode network (DMN) subsystems. Furthermore, the connectivity patterns of DMN subsystems (r = 0.52, p = 0.01) or large‐scale networks (r = 0.85, p = 0.001) at baseline significantly predicted the Δ language cognition after the rTMS treatment. The connectivity patterns of DMN subsystems (r = 0.47, p = 0.019) or large‐scale networks (r = 0.80, p = 0.001) at baseline could predict the Δ memory cognition after the rTMS treatment. Conclusion These findings suggest that neuro‐navigated rTMS targeting the left angular gyrus could improve cognitive function in AD patients. Importantly, dynamic regulation of the intra‐ and inter‐DMN at baseline may represent a potential predictor for favorable rTMS treatment response in patients with cognitive impairment. A summary of the study design and participant flow through the study. (A) Flow chat of enrollment and treatment in the longitudinal experiment; (B) and (C) seed‐based analysis and network‐based analysis; (D) predicting the therapeutic effect of rTMS; Abbreviations: LOO, leave‐one‐out; CPM, connectome‐based predictive modeling; rTMS, repetitive transcranial magnetic stimulation.
Journal Article
Oxidative 1,2-carboamination of alkenes with alkyl nitriles and amines toward γ-amino alkyl nitriles
by
Luo, Shenglian
,
Li, Jin-Heng
,
Song, Ren-Jie
in
639/638/403/933
,
639/638/549/933
,
639/638/77/888
2017
Difunctionalization of alkenes has become a powerful tool for quickly increasing molecular complexity in synthesis. Despite significant progress in the area of alkene difunctionalization involving the incorporation of a nitrogen atom across the C–C double bonds, approaches for the direct 1,2-carboamination of alkenes to produce linear
N
-containing molecules are scarce and remain a formidable challenge. Here we describe a radical-mediated oxidative intermolecular 1,2-alkylamination of alkenes with alkyl nitriles and amines involving C(
sp
3
)–H oxidative functionalization catalysed by a combination of Ag
2
CO
3
with iron Lewis acids. This three-component alkene 1,2-alkylamination method is initiated by the C(
sp
3
)–H oxidative radical functionalization, which enables one-step formation of two new chemical bonds, a C–C bond and a C–N bond, to selectively produce
γ
-amino alkyl nitriles.
Difunctionalization of readily available alkenes is a powerful method to quickly build molecular complexity. Here the authors report a three-component, oxidative carboamination between alkenes, alkyl nitriles and amines, producing
γ
-amino alkyl nitriles.
Journal Article
Auxin abolishes SHI-RELATED SEQUENCE5-mediated inhibition of lateral root development in Arabidopsis
by
Li, Juan
,
Xu, Heng-Hao
,
Lu, Ying-Tang
in
Arabidopsis
,
Arabidopsis - drug effects
,
Arabidopsis - genetics
2020
• Lateral roots (LRs), which form in the plant postembryonically, determine the architecture of the root system. While negative regulatory factors that inhibit LR formation and are counteracted by auxin exist in the pericycle, these factors have not been characterised.
• Here, we report that SHI-RELATED SEQUENCE5 (SRS5) is an intrinsic negative regulator of LR formation and that auxin signalling abolishes this inhibitory effect of SRS5. Whereas LR primordia (LRPs) and LRs were fewer and less dense in SRS5ox and Pro35S:SRS5-GFP plants than in the wild-type, they were more abundant and denser in the srs5-2 loss-of-function mutant. SRS5 inhibited LR formation by directly downregulating the expression of LATERAL ORGAN BOUNDARIES-DOMAIN 16 (LBD16) and LBD29.
• Auxin repressed SRS5 expression. Auxin-mediated repression of SRS5 expression was not observed in the arf7-1 arf19-1 double mutant, likely because ARF7 and ARF19 bind to the promoter of SRS5 and inhibit its expression in response to auxin.
• Taken together, our data reveal that SRS5 negatively regulates LR formation by repressing the expression of LBD16 and LBD29 and that auxin releases this inhibitory effect through ARF7 and ARF19.
Journal Article
Effect of dapagliflozin on ferroptosis through the gut microbiota metabolite TMAO during myocardial ischemia–reperfusion injury in diabetes mellitus rats
2024
Dapagliflozin (DAPA) demonstrates promise in the management of diabetic mellitus (DM) and cardiomyopathy. Trimethylamine N-oxide (TMAO) is synthesized by the gut microbiota through the metabolic conversion of choline and phosphatidylcholine. Ferroptosis may offer novel therapeutic avenues for the management of diabetes and myocardial ischemia–reperfusion injury (IRI). However, the precise mechanism underlying ferroptosis in cardiomyocytes and the specific role of TMAO generated by gut microbiota in the therapeutic approach for DM and myocardial IRI utilizing DAPA need to be further explored. Nine male SD rats with specific pathogen-free (SPF) status were randomly divided equally into the normal group, the DM + IRI (DIR) group, and the DAPA group. The diversity of the gut microbiota was analyzed using 16S rRNA gene sequencing. Additionally, the Wekell technique was employed to measure the levels of TMAO in the three groups. Application of network pharmacology to search for intersection targets of DAPA, DIR, and ferroptosis, and RT-PCR experimental verification. Ultimately, the overlapping targets that were acquired were subjected to molecular docking analysis with TMAO. The changes of Bacteroidetes and Firmicutes in the gut microbiota of DIR rats were most significantly affected by DAPA. Escherichia-Shigella and Prevotella_9 within the phylum Bacteroidetes could be identified as the primary effects of DAPA on DIR. Compared with the normal group, the TMAO content in the DIR group was significantly increased, while the TMAO content in the DAPA group was decreased compared to the DIR group. For the network pharmacology analysis, DAPA and DIR generated 43 intersecting target genes, and then further intersected with ferroptosis-related genes, resulting in 11 overlapping target genes. The mRNA expression of ALB, HMOX1, PPARG, CBS, LCN2, and PPARA decreased in the DIR group through reverse transcription polymerase chain reaction (RT-PCR) validation, while the opposite trend was observed in the DAPA group. The docking score between TMAO and DPP4 was − 5.44, and the MM-GBSA result of − 22.02 kcal/mol. It epitomizes the finest docking performance among all the target genes with the lowest score. DAPA could reduce the levels of metabolite TMAO produced by gut microbiota, thereby regulating related target genes to decrease ferroptosis in DIR cardiomyocytes.
Journal Article
Motor skill learning induces brain network plasticity: A diffusion-tensor imaging study
2019
Motor skills and the acquisition of brain plasticity are important topics in current research. The development of non-invasive white matter imaging technology, such as diffusion-tensor imaging and the introduction of graph theory make it possible to study the effects of learning skills on the connection patterns of brain networks. However, few studies have characterized the brain network topological features of motor skill learning, especially open skill. Given the need to interact with environmental changes in real time, we hypothesized that the brain network of high-level open-skilled athletes had higher transmission efficiency and stronger interaction in attention, visual and sensorimotor networks. We selected 21 high-level basketball players and 25 ordinary individuals as control subjects, collected their DTI data, built a network of brain structures, and used graph theory to analyze and compare the network properties of the two groups at global and regional levels. In addition, we conducted a correlation analysis on the training years of high-level athletes and brain network nodal parameters on the regional level to assess the relationship between brain network topological characteristics and skills learning. We found that on the global-level, the brain network of high-level basketball players had a shorter path length, small-worldness, and higher global efficiency. On the regional level, the brain nodes of the high-level athletes had nodal parameters that were significantly higher than those of control groups, and were mainly distributed in the visual network, the default mode network, and the attention network. The changes in brain node parameters were significantly related to the number of training years.
Journal Article
Differential regulation of alternative promoters emerges from unified kinetics of enhancer-promoter interaction
2022
Many eukaryotic genes contain alternative promoters with distinct expression patterns. How these promoters are differentially regulated remains elusive. Here, we apply single-molecule imaging to quantify the transcriptional regulation of two alternative promoters (P1 and P2) of the Bicoid (Bcd) target gene
hunchback
in syncytial blastoderm
Drosophila
embryos. Contrary to the previous notion that Bcd only activates P2, we find that Bcd activates both promoters via the same two enhancers. P1 activation is less frequent and requires binding of more Bcd molecules than P2 activation. Using a theoretical model to relate promoter activity to enhancer states, we show that the two promoters follow common transcription kinetics driven by sequential Bcd binding at the two enhancers. Bcd binding at either enhancer primarily activates P2, while P1 activation relies more on Bcd binding at both enhancers. These results provide a quantitative framework for understanding the kinetic mechanisms of complex eukaryotic gene regulation.
Alternative promoters differ in their expression patterns, whose mechanisms are not well understood. Here the authors show that alternative promoters of a
Drosophila
embryonic gene hunchback are regulated by different action modes of two enhancers.
Journal Article