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Article ; Online: Fracture detection in pediatric wrist trauma X-ray images using YOLOv8 algorithm.

Ju, Rui-Yang / Cai, Weiming

2023 Volume 13, Issue 1, Page(s) 20077

Abstract: Hospital emergency departments frequently receive lots of bone fracture cases, with pediatric wrist trauma fracture accounting for the majority of them. Before pediatric surgeons perform surgery, they need to ask patients how the fracture occurred and ... ...

Abstract	Hospital emergency departments frequently receive lots of bone fracture cases, with pediatric wrist trauma fracture accounting for the majority of them. Before pediatric surgeons perform surgery, they need to ask patients how the fracture occurred and analyze the fracture situation by interpreting X-ray images. The interpretation of X-ray images often requires a combination of techniques from radiologists and surgeons, which requires time-consuming specialized training. With the rise of deep learning in the field of computer vision, network models applying for fracture detection has become an important research topic. In this paper, we use data augmentation to improve the model performance of YOLOv8 algorithm (the latest version of You Only Look Once) on a pediatric wrist trauma X-ray dataset (GRAZPEDWRI-DX), which is a public dataset. The experimental results show that our model has reached the state-of-the-art (SOTA) mean average precision (mAP 50). Specifically, mAP 50 of our model is 0.638, which is significantly higher than the 0.634 and 0.636 of the improved YOLOv7 and original YOLOv8 models. To enable surgeons to use our model for fracture detection on pediatric wrist trauma X-ray images, we have designed the application "Fracture Detection Using YOLOv8 App" to assist surgeons in diagnosing fractures, reducing the probability of error analysis, and providing more useful information for surgery.
MeSH term(s)	Humans ; Child ; Wrist ; X-Rays ; Fractures, Bone/diagnostic imaging ; Algorithms ; Wrist Injuries
Language	English
Publishing date	2023-11-16
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-023-47460-7
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: NAC056 transcription factor confers freezing tolerance by positively regulating the expression of CBFs and NIA1 in Arabidopsis.

Xu, Peipei / Ma, Wei / Feng, Huafeng / Cai, Weiming

Plant communications

2024 , Page(s) 100923

Abstract: It is well known that freezing stress can seriously affect the growth and development of plants. However, the mechanisms of these effects and plant response to freezing stress need to be further explored. Here, we identified a NAC family transcription ... ...

Abstract	It is well known that freezing stress can seriously affect the growth and development of plants. However, the mechanisms of these effects and plant response to freezing stress need to be further explored. Here, we identified a NAC family transcription factor (TF) NAC056 that can promote freezing tolerance. The NAC056 mRNA level was obviously induced by freezing stress in roots. We showed that the nac056 mutant compromised freezing tolerance. NAC056 acts positively in response to freezing by directly promoting the key CBF pathway genes. Interestingly, we found that the CBF1 regulates nitrate assimilation by regulating the nitrate reductase gene, NIA1, in plants, therefore, NAC056-CBF1-NIA1 form a regulatory module for the assimilation of nitrate and the growth of roots under freezing stress. In addition, 35S::NAC056 transgenic plants promoted freezing tolerance. The cbfs triple mutant could partly reverse the 35S::NAC056-induced freezing tolerance. Thus, NAC056 confers freezing tolerance through the CBF pathway. Therefore, NAC056 mediates the response of plants to balance plant growth and freezing stress tolerance.
Language	English
Publishing date	2024-04-17
Publishing country	China
Document type	Journal Article
ISSN	2590-3462
ISSN (online)	2590-3462
DOI	10.1016/j.xplc.2024.100923
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: SMAX1 interacts with DELLA protein to inhibit seed germination under weak light conditions via gibberellin biosynthesis in Arabidopsis.

Xu, Peipei / Hu, Jinbo / Chen, Haiying / Cai, Weiming

Cell reports

2023 Volume 42, Issue 7, Page(s) 112740

Abstract: Karrikins (KARs) were first identified as a class of small-molecule chemicals derived from smoke that promote seed germination. However, the implied mechanism is still not well understood. Here, we find that KAR signaling mutants have a lower germination ...

Abstract	Karrikins (KARs) were first identified as a class of small-molecule chemicals derived from smoke that promote seed germination. However, the implied mechanism is still not well understood. Here, we find that KAR signaling mutants have a lower germination percentage than that of wild type under weak light conditions, and KARs promote seed germination through transcriptional activation of gibberellin (GA) biosynthesis via SMAX1. SMAX1 interacts with the DELLA proteins REPRESSOR of ga1-3-LIKE 1 (RGL1) and RGL3. The interaction enhances the transcriptional activity of SMAX1 and inhibits GIBBERELLIN 3-oxidase 2 (GA3ox2) gene expression. The KAR signaling mutant seed germination defect under weak light is partially rescued by exogenous application of GA
MeSH term(s)	Arabidopsis/metabolism ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Gene Expression Regulation, Plant ; Germination/genetics ; Gibberellins/metabolism ; Intracellular Signaling Peptides and Proteins/metabolism ; Seeds/genetics
Chemical Substances	Arabidopsis Proteins ; Gibberellins ; Intracellular Signaling Peptides and Proteins ; SMAX1 protein, Arabidopsis ; GAI protein, Arabidopsis
Language	English
Publishing date	2023-07-04
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2649101-1
ISSN	2211-1247 ; 2211-1247
ISSN (online)	2211-1247
ISSN	2211-1247
DOI	10.1016/j.celrep.2023.112740
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Book ; Online: Fracture Detection in Pediatric Wrist Trauma X-ray Images Using YOLOv8 Algorithm

Ju, Rui-Yang / Cai, Weiming

2023

Abstract	Hospital emergency departments frequently receive lots of bone fracture cases, with pediatric wrist trauma fracture accounting for the majority of them. Before pediatric surgeons perform surgery, they need to ask patients how the fracture occurred and analyze the fracture situation by interpreting X-ray images. The interpretation of X-ray images often requires a combination of techniques from radiologists and surgeons, which requires time-consuming specialized training. With the rise of deep learning in the field of computer vision, network models applying for fracture detection has become an important research topic. In this paper, we use data augmentation to improve the model performance of YOLOv8 algorithm (the latest version of You Only Look Once) on a pediatric wrist trauma X-ray dataset (GRAZPEDWRI-DX), which is a public dataset. The experimental results show that our model has reached the state-of-the-art (SOTA) mean average precision (mAP 50). Specifically, mAP 50 of our model is 0.638, which is significantly higher than the 0.634 and 0.636 of the improved YOLOv7 and original YOLOv8 models. To enable surgeons to use our model for fracture detection on pediatric wrist trauma X-ray images, we have designed the application "Fracture Detection Using YOLOv8 App" to assist surgeons in diagnosing fractures, reducing the probability of error analysis, and providing more useful information for surgery. Comment: Scientific Reports
Keywords	Computer Science - Computer Vision and Pattern Recognition
Subject code	006
Publishing date	2023-04-11
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Adaptive convolutional sparsity with sub-band correlation in the NSCT domain for MRI image fusion.

Hu, Qiu / Cai, Weiming / Xu, Shuwen / Hu, Shaohai / Wang, Lang / He, Xinyi

Physics in medicine and biology

2024 Volume 69, Issue 5

Abstract: Objective. ...

Abstract	Objective.
MeSH term(s)	Algorithms ; Magnetic Resonance Imaging/methods ; Technology ; Image Processing, Computer-Assisted/methods
Language	English
Publishing date	2024-02-26
Publishing country	England
Document type	Journal Article
ZDB-ID	208857-5
ISSN	1361-6560 ; 0031-9155
ISSN (online)	1361-6560
ISSN	0031-9155
DOI	10.1088/1361-6560/ad2636
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Article: Roles of

Zeng, Zixuan / Zou, Yu / Cai, Weiming / Lin, Fu-Cheng / Wang, Hongkai

Frontiers in microbiology

2024 Volume 15, Page(s) 1353710

Abstract: Introduction: Cordyceps cicadae: Methods: The roles of these genes in cyanidin production, growth, and development were elucidated through the gene knockout method, phenotypic analysis, transcriptomics, and metabolomics.: Results: CcDFR: ... ...

Abstract	Introduction: Cordyceps cicadae Methods: The roles of these genes in cyanidin production, growth, and development were elucidated through the gene knockout method, phenotypic analysis, transcriptomics, and metabolomics. Results: CcDFR Discussion: We revealed a distinct anthocyanin biosynthesis pathway in
Language	English
Publishing date	2024-03-06
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2024.1353710
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Article ; Online: The nitrate-inducible NAC transcription factor NAC056 controls nitrate assimilation and promotes lateral root growth in Arabidopsis thaliana.

Xu, Peipei / Ma, Wei / Hu, Jinbo / Cai, Weiming

PLoS genetics

2022 Volume 18, Issue 3, Page(s) e1010090

Abstract: Nitrate can affect many aspects of plant growth and development, such as promoting root growth and inhibiting the synthesis of secondary metabolites. However, the mechanisms underlying such effects and how plants can integrate nitrate signals and root ... ...

Abstract	Nitrate can affect many aspects of plant growth and development, such as promoting root growth and inhibiting the synthesis of secondary metabolites. However, the mechanisms underlying such effects and how plants can integrate nitrate signals and root growth needs further exploration. Here, we identified a nitrate-inducible NAC family transcription factor (TF) NAC056 which promoted both nitrate assimilation and root growth in Arabidopsis. NAC056 is a nuclear-localized transcription activator, which is predominantly expressed in the root system and hypocotyl. Using the yeast one-hybrid assay, we identified the NAC056-specific binding sequence (NAC56BM), T [T/G/A] NCTTG. We further showed that the nac056 mutant compromised root growth. NAC056 overexpression promotes LR Initiation and nitrate deficiency tolerance. Using RNA sequencing analysis and in vitro biochemical experiment, we found NAC056 regulated the expression of genes required for NO3- assimilation, directly targeting the key nitrate assimilation gene NIA1. In addition, mutation of NIA1 suppresses LR development and nitrate deficiency tolerance in the 35S::NAC056 transgenic plants. Therefore, NAC056 mediates the response of plants to environmental nitrate signals to promote root growth in Arabidopsis.
MeSH term(s)	Arabidopsis ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Gene Expression Regulation, Plant ; Nitrates/metabolism ; Plant Roots ; Transcription Factors/genetics ; Transcription Factors/metabolism
Chemical Substances	Arabidopsis Proteins ; Nitrates ; Transcription Factors ; At3g15510 protein, Arabidopsis
Language	English
Publishing date	2022-03-09
Publishing country	United States
Document type	Journal Article
ZDB-ID	2186725-2
ISSN	1553-7404 ; 1553-7390
ISSN (online)	1553-7404
ISSN	1553-7390
DOI	10.1371/journal.pgen.1010090
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Article ; Online: Karrikin signaling regulates hypocotyl shade avoidance response by modulating auxin homeostasis in Arabidopsis.

Xu, Peipei / Jinbo, Hu / Cai, Weiming

The New phytologist

2022 Volume 236, Issue 5, Page(s) 1748–1761

Abstract: Shade affects all aspects of plant growth and development, including seed germination, hypocotyl elongation, petiole growth, leaf hyponasty, and flowering time. Here, we found that mutations in the key Arabidopsis karrikins signal perception-associated ... ...

Abstract	Shade affects all aspects of plant growth and development, including seed germination, hypocotyl elongation, petiole growth, leaf hyponasty, and flowering time. Here, we found that mutations in the key Arabidopsis karrikins signal perception-associated KARRIKIN INSENSITIVE 2 (KAI2) gene, encoding an α/β-fold hydrolase, and the MORE AXILLARY GROWTH 2 (MAX2) gene, encoding an F-box protein, led to greater hypocotyl elongation under shade avoidance conditions. We further verified that these phenotypes were caused by perception of the endogenous KAI2-ligands (KLs), and that this phenotype is independent of strigolactone biosynthetic or signaling pathways. Upon perception of a KL, it is probable that the target protein forms a complex with the KAI2/MAX2 proteins, which are degraded through the action of the 26S proteasome. We demonstrated that SUPPRESSOR OF MAX2-1 (SMAX1) is the degradation target for the KAI2/MAX2 complex in the context of shade avoidance. KAI2 and MAX2 require SMAX1 to limit the hypocotyl growth associated with shade avoidance. Treatment with l-kynurenine, an inhibitor of auxin accumulation, partially restored elongation of kai2 mutant hypocotyls under simulated shade. Furthermore, KAI2 is involved in regulating auxin accumulation and polar auxin transport, which may contribute to the hypocotyl shade response. In addition, SMAX1 gene overexpression promoted the hypocotyl shade response. RNA-sequencing analysis revealed that SMAX1-overexpression affected the expression of many auxin homeostasis genes, especially under simulated shade. Altogether, our data support the conclusion that KL signaling regulates shade avoidance by modulating auxin homeostasis in the hypocotyl.
MeSH term(s)	Arabidopsis/metabolism ; Hypocotyl ; Arabidopsis Proteins/metabolism ; Gene Expression Regulation, Plant ; Indoleacetic Acids/metabolism ; Homeostasis ; Intracellular Signaling Peptides and Proteins/metabolism
Chemical Substances	3-methyl-2H-furo(2,3-c)pyran-2-one ; Arabidopsis Proteins ; Indoleacetic Acids ; SMAX1 protein, Arabidopsis ; Intracellular Signaling Peptides and Proteins
Language	English
Publishing date	2022-09-28
Publishing country	England
Document type	Journal Article
ZDB-ID	208885-x
ISSN	1469-8137 ; 0028-646X
ISSN (online)	1469-8137
ISSN	0028-646X
DOI	10.1111/nph.18459
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Karrikin signaling regulates hypocotyl shade avoidance response by modulating auxin homeostasis in Arabidopsis

Xu, Peipei / Jinbo, Hu / Cai, Weiming

New Phytologist. 2022 Dec., v. 236, no. 5 p.1748-1761

2022

Abstract	Shade affects all aspects of plant growth and development, including seed germination, hypocotyl elongation, petiole growth, leaf hyponasty, and flowering time. Here, we found that mutations in the key Arabidopsis karrikins signal perception‐associated KARRIKIN INSENSITIVE 2 (KAI2) gene, encoding an α/β‐fold hydrolase, and the MORE AXILLARY GROWTH 2 (MAX2) gene, encoding an F‐box protein, led to greater hypocotyl elongation under shade avoidance conditions. We further verified that these phenotypes were caused by perception of the endogenous KAI2‐ligands (KLs), and that this phenotype is independent of strigolactone biosynthetic or signaling pathways. Upon perception of a KL, it is probable that the target protein forms a complex with the KAI2/MAX2 proteins, which are degraded through the action of the 26S proteasome. We demonstrated that SUPPRESSOR OF MAX2‐1 (SMAX1) is the degradation target for the KAI2/MAX2 complex in the context of shade avoidance. KAI2 and MAX2 require SMAX1 to limit the hypocotyl growth associated with shade avoidance. Treatment with l‐kynurenine, an inhibitor of auxin accumulation, partially restored elongation of kai2 mutant hypocotyls under simulated shade. Furthermore, KAI2 is involved in regulating auxin accumulation and polar auxin transport, which may contribute to the hypocotyl shade response. In addition, SMAX1 gene overexpression promoted the hypocotyl shade response. RNA‐sequencing analysis revealed that SMAX1‐overexpression affected the expression of many auxin homeostasis genes, especially under simulated shade. Altogether, our data support the conclusion that KL signaling regulates shade avoidance by modulating auxin homeostasis in the hypocotyl.
Keywords	Arabidopsis ; F-box proteins ; auxins ; biosynthesis ; gene overexpression ; genes ; homeostasis ; hypocotyls ; hyponasty ; karrikins ; mutants ; petioles ; phenotype ; proteasome endopeptidase complex ; seed germination ; sequence analysis ; strigolactones
Language	English
Dates of publication	2022-12
Size	p. 1748-1761.
Publishing place	John Wiley & Sons, Ltd
Document type	Article ; Online
Note	JOURNAL ARTICLE
ZDB-ID	208885-x
ISSN	1469-8137 ; 0028-646X
ISSN (online)	1469-8137
ISSN	0028-646X
DOI	10.1111/nph.18459
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Recovery of the phenolic compounds from artificial cultivated Sanghuangporus vaninii using a green method and biological properties of phenolic extract in vitro

Zhang, Yangyang / Lv, Guoying / Song, Tingting / Chen, Chun / Zhang, Zuofa / Cai, Weiming

International Journal of Food Science & Technology. 2023 July, v. 58, no. 7 p.3969-3981

2023

Abstract: Modern research has demonstrated that Sanghuangporus vaninii (S. vaninii) has significant therapeutic value, and phenolic compounds are one of its most active ingredients. In this study, deep eutectic solvents (DES) were used to extract the phenolic ... ...

Abstract	Modern research has demonstrated that Sanghuangporus vaninii (S. vaninii) has significant therapeutic value, and phenolic compounds are one of its most active ingredients. In this study, deep eutectic solvents (DES) were used to extract the phenolic components from S. vaninii using response surface methodology. The optimal conditions were obtained with a water content of 20%, a material‐to‐liquid ratio of 1:60 g mL⁻¹, an extraction temperature of 70°C and an extraction time of 34 min. Under these conditions, the total phenolic content reached 9.71 ± 0.69 mg g⁻¹, which was higher than the conventional method (4.23 ± 0.44 mg g⁻¹). The phenolic extract was then purified by HPD‐100, and the purified phenolic extracts exhibited distinct antioxidant, antibacterial and hypoglycaemic activities. Twenty‐five phenolic compounds were identified using UPLC‐Triple‐TOF‐MS/MS. These data implied that the integrated action of the identified phenolic compounds had a decisive influence on the biological activity of the extracts, and this study furnished the basis for the utilisation of S. vaninii.
Keywords	antioxidants ; bioactive properties ; food science ; response surface methodology ; technology ; temperature ; therapeutics ; water content
Language	English
Dates of publication	2023-07
Size	p. 3969-3981.
Publishing place	John Wiley & Sons, Ltd
Document type	Article ; Online
Note	JOURNAL ARTICLE
ZDB-ID	883561-5
ISSN	0950-5423
ISSN	0950-5423
DOI	10.1111/ijfs.15993
Database	NAL-Catalogue (AGRICOLA)

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