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  1. Article ; Online: DSFF-GAN: A novel stain transfer network for generating immunohistochemical image of endometrial cancer.

    Ma, Yihao / Zhang, Yiqiong / Wang, Zhengrong / Li, Juan / Miao, Yuehong / Yang, Fan / Pan, Wei

    Computers in biology and medicine

    2024  Volume 170, Page(s) 108046

    Abstract: Immunohistochemistry (IHC) is a commonly used histological examination technique. Compared to Hematoxylin and Eosin (H&E) staining, it enables the examination of protein expression and localization in tissues, which is valuable for cancer treatment and ... ...

    Abstract Immunohistochemistry (IHC) is a commonly used histological examination technique. Compared to Hematoxylin and Eosin (H&E) staining, it enables the examination of protein expression and localization in tissues, which is valuable for cancer treatment and prognosis assessment, such as the detection and diagnosis of endometrial cancer. However, IHC involves multiple staining steps, is time-consuming and expensive. One potential solution is to utilize deep learning networks to generate corresponding virtual IHC images from H&E images. However, the similarity of the IHC image generated by the existing methods needs to be further improved. In this work, we propose a novel dual-scale feature fusion (DSFF) generative adversarial network named DSFF-GAN, which comprises a cycle structure-color similarity loss, and DSFF block to constrain the model's training process and enhance its stain transfer capability. In addition, our method incorporates labeling information of positive cell regions as prior knowledge into the network to further improve the evaluation metrics. We train and test our model using endometrial cancer and publicly available breast cancer IHC datasets, and compare it with state-of-the-art methods. Compared to previous methods, our model demonstrates significant improvements in most evaluation metrics on both datasets. The research results show that our method further improves the quality of image generation and has potential value for the future clinical application of virtual IHC images.
    MeSH term(s) Female ; Humans ; Coloring Agents ; Endometrial Neoplasms/diagnostic imaging ; Staining and Labeling ; Benchmarking ; Eosine Yellowish-(YS) ; Image Processing, Computer-Assisted
    Chemical Substances Coloring Agents ; Eosine Yellowish-(YS) (TDQ283MPCW)
    Language English
    Publishing date 2024-01-28
    Publishing country United States
    Document type Journal Article
    ZDB-ID 127557-4
    ISSN 1879-0534 ; 0010-4825
    ISSN (online) 1879-0534
    ISSN 0010-4825
    DOI 10.1016/j.compbiomed.2024.108046
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Correction: Acidic and hypoxic tumor microenvironment regulation by CaO

    Ruan, Shuangrong / Yin, Weimin / Chang, Jiao / Yang, Yan / Sun, Jiuyuan / Ma, Xiaoyi / Liu, Ying / Zang, Jie / Liu, Yiqiong / Li, Yongyong / Ren, Tianbin / Dong, Haiqing

    Journal of nanobiotechnology

    2023  Volume 21, Issue 1, Page(s) 180

    Language English
    Publishing date 2023-06-07
    Publishing country England
    Document type Published Erratum
    ZDB-ID 2100022-0
    ISSN 1477-3155 ; 1477-3155
    ISSN (online) 1477-3155
    ISSN 1477-3155
    DOI 10.1186/s12951-023-01934-y
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Effect of benzoic acid and dopamine hydrochloride as a modulator in the water resistance of Universitetet i Oslo-67: Adsorption performance and mechanism.

    Zhang, Xiaodong / Ma, Shuting / Gao, Bin / Bi, Fukun / Liu, Qinhong / Zhao, Qiangyu / Xu, Jingcheng / Lu, Guang / Yang, Yiqiong / Wu, Minghong

    Journal of colloid and interface science

    2023  Volume 651, Page(s) 424–435

    Abstract: The severe hazards on ecological environment and human body caused by volatile organic compounds (VOCs) have attracted worldwide substantial attention. In this research, a series of novel modified Universitetet i Oslo-67 (UiO-67) with water resistance ... ...

    Abstract The severe hazards on ecological environment and human body caused by volatile organic compounds (VOCs) have attracted worldwide substantial attention. In this research, a series of novel modified Universitetet i Oslo-67 (UiO-67) with water resistance were prepared and characterized, which had modified by benzoic acid and dopamine hydrochloride (67-ben-DH). On this basis, the adsorption performance, adsorption kinetics, defect engineering and water resistance of adsorbent were investigated. The results indicated that the excellent pore structure and specific surface area of 67-ben-DH-6 (molar ratio of Zr
    Language English
    Publishing date 2023-08-01
    Publishing country United States
    Document type Journal Article
    ZDB-ID 241597-5
    ISSN 1095-7103 ; 0021-9797
    ISSN (online) 1095-7103
    ISSN 0021-9797
    DOI 10.1016/j.jcis.2023.07.205
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Paracrine Effects of Renal Proximal Tubular Epithelial Cells on Podocyte Injury under Hypoxic Conditions Are Mediated by Arginase-II and TGF-β1.

    Ma, Yiqiong / Potenza, Duilio Michele / Ajalbert, Guillaume / Brenna, Andrea / Zhu, Cui / Ming, Xiu-Fen / Yang, Zhihong

    International journal of molecular sciences

    2023  Volume 24, Issue 4

    Abstract: Hypoxia is an important risk for renal disease. The mitochondrial enzyme arginase-II (Arg-II) is expressed and/or induced by hypoxia in proximal tubular epithelial cells (PTECs) and in podocytes, leading to cellular damage. Because PTECs are vulnerable ... ...

    Abstract Hypoxia is an important risk for renal disease. The mitochondrial enzyme arginase-II (Arg-II) is expressed and/or induced by hypoxia in proximal tubular epithelial cells (PTECs) and in podocytes, leading to cellular damage. Because PTECs are vulnerable to hypoxia and located in proximity to podocytes, we examined the role of Arg-II in the crosstalk of PTECs under hypoxic conditions with podocytes. A human PTEC cell line (HK2) and a human podocyte cell line (AB8/13) were cultured.
    MeSH term(s) Humans ; Apoptosis ; Arginase/metabolism ; Epithelial Cells/metabolism ; Kidney Tubules, Proximal/metabolism ; Paracrine Communication/genetics ; Podocytes/metabolism ; Podocytes/pathology ; Transforming Growth Factor beta1/metabolism
    Chemical Substances Arginase (EC 3.5.3.1) ; Transforming Growth Factor beta1
    Language English
    Publishing date 2023-02-10
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms24043587
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Whole-Genome Resequencing Reveals the Diversity of Patchouli Germplasm

    Zhipeng Li / Yiqiong Chen / Yangyan Li / Ying Zeng / Wanying Li / Xiaona Ma / Lili Huang / Yanting Shen

    International Journal of Molecular Sciences, Vol 24, Iss 10970, p

    2023  Volume 10970

    Abstract: As an important medicinal and aromatic plant, patchouli is distributed throughout most of Asia. However, current research on patchouli’s genetic diversity is limited and lacks genome-wide studies. Here, we have collected seven representative patchouli ... ...

    Abstract As an important medicinal and aromatic plant, patchouli is distributed throughout most of Asia. However, current research on patchouli’s genetic diversity is limited and lacks genome-wide studies. Here, we have collected seven representative patchouli accessions from different localities and performed whole-genome resequencing on them. In total, 402,650 single nucleotide polymorphisms (SNPs) and 153,233 insertions/deletions (INDELs) were detected. Based on these abundant genetic variants, patchouli accessions were primarily classified into the Chinese group and the Southeast Asian group. However, the accession SP (Shipai) collected from China formed a distinct subgroup within the Southeast Asian group. As SP has been used as a genuine herb in traditional Chinese medicine, its unique molecular markers have been subsequently screened and verified. For 26,144 specific SNPs and 16,289 specific INDELs in SP, 10 of them were validated using Polymerase Chain Reaction (PCR) following three different approaches. Further, we analyzed the effects of total genetic variants on genes involved in the sesquiterpene synthesis pathway, which produce the primary phytochemical compounds found in patchouli. Eight genes were ultimately investigated and a gene encoding nerolidol synthetase ( PatNES ) was chosen and confirmed through biochemical assay. In accession YN, genetic variants in PatNES led to a loss of synthetase activity. Our results provide valuable information for understanding the diversity of patchouli germplasm resources.
    Keywords patchouli ; whole-genome resequencing ; genetic variation ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 572
    Language English
    Publishing date 2023-06-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Whole-Genome Resequencing Reveals the Diversity of Patchouli Germplasm.

    Li, Zhipeng / Chen, Yiqiong / Li, Yangyan / Zeng, Ying / Li, Wanying / Ma, Xiaona / Huang, Lili / Shen, Yanting

    International journal of molecular sciences

    2023  Volume 24, Issue 13

    Abstract: As an important medicinal and aromatic plant, patchouli is distributed throughout most of Asia. However, current research on patchouli's genetic diversity is limited and lacks genome-wide studies. Here, we have collected seven representative patchouli ... ...

    Abstract As an important medicinal and aromatic plant, patchouli is distributed throughout most of Asia. However, current research on patchouli's genetic diversity is limited and lacks genome-wide studies. Here, we have collected seven representative patchouli accessions from different localities and performed whole-genome resequencing on them. In total, 402,650 single nucleotide polymorphisms (SNPs) and 153,233 insertions/deletions (INDELs) were detected. Based on these abundant genetic variants, patchouli accessions were primarily classified into the Chinese group and the Southeast Asian group. However, the accession SP (Shipai) collected from China formed a distinct subgroup within the Southeast Asian group. As SP has been used as a genuine herb in traditional Chinese medicine, its unique molecular markers have been subsequently screened and verified. For 26,144 specific SNPs and 16,289 specific INDELs in SP, 10 of them were validated using Polymerase Chain Reaction (PCR) following three different approaches. Further, we analyzed the effects of total genetic variants on genes involved in the sesquiterpene synthesis pathway, which produce the primary phytochemical compounds found in patchouli. Eight genes were ultimately investigated and a gene encoding nerolidol synthetase (
    MeSH term(s) Pogostemon/genetics ; Sequence Analysis, DNA ; Polymorphism, Single Nucleotide ; Genome, Plant ; Asia
    Language English
    Publishing date 2023-06-30
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms241310970
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Two interacting basic helix-loop-helix transcription factors control flowering time in rice.

    Yin, Yanbin / Yan, Zhiqiang / Guan, Jianing / Huo, Yiqiong / Wang, Tianqiong / Li, Tong / Cui, Zhibo / Ma, Wenhong / Wang, Xiaoxue / Chen, Wenfu

    Plant physiology

    2023  Volume 192, Issue 1, Page(s) 205–221

    Abstract: Flowering time is one of the most important agronomic traits affecting the adaptation and yield of rice (Oryza sativa). Heading date 1 (Hd1) is a key factor in the photoperiodic control of flowering time. In this study, two basic helix-loop-helix (bHLH) ... ...

    Abstract Flowering time is one of the most important agronomic traits affecting the adaptation and yield of rice (Oryza sativa). Heading date 1 (Hd1) is a key factor in the photoperiodic control of flowering time. In this study, two basic helix-loop-helix (bHLH) transcription factors, Hd1 Binding Protein 1 (HBP1) and Partner of HBP1 (POH1) were identified as transcriptional regulators of Hd1. We generated knockout mutants of HBP1 and ectopically expressed transgenic lines of the two bHLH transcription factors and used these lines to investigate the roles of these two factors in regulating flowering time. HBP1 physically associated with POH1 forming homo- or heterodimers to perform their functions. Both HBP1 and POH1 bound directly to the cis-acting elements located in the promoter of Hd1 to activate its expression. CRISPR/Cas9-generated knockout mutations of HBP1, but not POH1 mutations, promoted earlier flowering time; conversely, HBP1 and POH1 overexpression delayed flowering time in rice under long-day and short-day conditions by activating the expression of Hd1 and suppressing the expression of Early heading date 1 (Ehd1), Heading date 3a (Hd3a), and Rice Flowering locus T 1 (RFT1), thus controlling flowering time in rice. Our findings revealed a mechanism for flowering time control through transcriptional regulation of Hd1 and laid theoretical and practical foundations for improving the growth period, adaptation, and yield of rice.
    MeSH term(s) Flowers ; Oryza/metabolism ; Basic Helix-Loop-Helix Transcription Factors/genetics ; Basic Helix-Loop-Helix Transcription Factors/metabolism ; Photoperiod ; Phenotype ; Plant Proteins/genetics ; Plant Proteins/metabolism ; Gene Expression Regulation, Plant
    Chemical Substances Basic Helix-Loop-Helix Transcription Factors ; Plant Proteins
    Language English
    Publishing date 2023-02-09
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 208914-2
    ISSN 1532-2548 ; 0032-0889
    ISSN (online) 1532-2548
    ISSN 0032-0889
    DOI 10.1093/plphys/kiad077
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article: Potential vorticity perspective of the genesis of a Tibetan Plateau vortex in June 2016

    Wu, Guoxiong / Tang, Yiqiong / He, Bian / Liu, Yimin / Mao, Jiangyu / Ma, Tingting / Ma, Ting

    Climate dynamics. 2022 June, v. 58, no. 11-12

    2022  

    Abstract: At midnight on 27–28 June 2016, a Tibetan Plateau (TP) Vortex (TPV) generated over the western TP that subsequently caused a downstream record-breaking rainstorm and extremely severe natural disaster. Based on reanalysis data and satellite imagery, this ... ...

    Abstract At midnight on 27–28 June 2016, a Tibetan Plateau (TP) Vortex (TPV) generated over the western TP that subsequently caused a downstream record-breaking rainstorm and extremely severe natural disaster. Based on reanalysis data and satellite imagery, this study investigates the formation of this TPV from a potential vorticity (PV) perspective. Results show that, in late June 2016, a remarkable circulation anomaly occurred over the TP and its peripheral area, with easterly flow in the middle and lower troposphere developing in the subtropical zone, replacing the normal westerly flow there. Its forefront merged with the southwesterly flow from the west and penetrated and converged over the western TP where the surface was warmer than normal, forming a low-level jet and downward slantwise isentropic surfaces in-situ. When the air parcel slid down the slantwise isentropic surface, its vertical relative vorticity developed owing to slantwise vorticity development associated with PV restructuring. At the same time, the penetrating southwesterly flow brought abundant water vapor to the western TP and induced increasing sub-cloud entropy and air ascent there. Low-layer cloud formed and the cloud liquid water content increased. The strong latent heat that was released in association with the formation of cloud produced strong diabatic heating near 400 hPa at night and strong PV generation below. The normal diurnal variation was interrupted and the vortex was generated near the surface. These results demonstrate that, against a favorable circulation background, both adiabatic and diabatic PV processes are crucial for TPV genesis.
    Keywords air ; diurnal variation ; dynamics ; entropy ; heat ; latent heat ; liquids ; remote sensing ; subtropics ; troposphere ; water content ; water vapor ; China
    Language English
    Dates of publication 2022-06
    Size p. 3351-3367.
    Publishing place Springer Berlin Heidelberg
    Document type Article
    ZDB-ID 1471747-5
    ISSN 1432-0894 ; 0930-7575
    ISSN (online) 1432-0894
    ISSN 0930-7575
    DOI 10.1007/s00382-021-06102-2
    Database NAL-Catalogue (AGRICOLA)

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  9. Article ; Online: Low level of urinary cotinine in pregnant women also matters: variability, exposure characteristics, and association with oxidative stress markers.

    Zhang, Yiqiong / Wan, Yanjian / Liu, Hongxiu / Qian, Xi / Ma, Jiaolong / Xu, Shunqing / Xia, Wei / Li, Yuanyuan

    Environmental science and pollution research international

    2023  Volume 30, Issue 34, Page(s) 82732–82742

    Abstract: ... a major metabolite of nicotine) and oxidative stress markers including 8-OHdG, 8-OHG, and HNE-MA ... concentrations and 8-OHdG (0.28; 0.25, 0.30), 8-OHG (0.27; 0.25, 0.29), and HNE-MA (0.27; 0.21, 0.32 ...

    Abstract China has relatively high indoor contamination of nicotine, according to recent publications. Therefore, nicotine exposure risks for sensitive populations such as pregnant women in China are of concern. The variability of its internal exposure levels across three trimesters among pregnant women is not well documented. Factors related with nicotine exposure across pregnancy and its associations with oxidative stress markers are also understudied. Based on a birth cohort, we measured concentrations of cotinine (a major metabolite of nicotine) and oxidative stress markers including 8-OHdG, 8-OHG, and HNE-MA in urine samples collected at three trimesters from 1,155 pregnant women enrolled between January 2014 and June 2017 in Wuhan, China. The variability of urinary cotinine across the trimesters, potential factors associated with it, as well as the relationships between urinary cotinine and oxidative stress markers were assessed in pregnant women with cotinine concentrations of < 50 ng/mL (the cutoff value to distinguish smokers and non-smokers). Urinary specific gravity adjusted median concentrations of cotinine (ng/mL) in the entire pregnancy, first, second, and third trimester were 3.04, 3.32, 3.36, and 2.50, respectively, which exhibited fair reliability (intraclass correlation coefficient: 0.47) across pregnancy. Most participants had an estimated daily intake of nicotine higher than the acceptable value (100 ng/kg-bw/day) recommended by the UK and the USA. Maternal age, education level, pre-pregnancy body mass index, and sampling seasons were related to urinary concentrations of cotinine. After adjusting for confounding factors, significant positive relationships (β; 95% confidence interval) were observed between urinary cotinine concentrations and 8-OHdG (0.28; 0.25, 0.30), 8-OHG (0.27; 0.25, 0.29), and HNE-MA (0.27; 0.21, 0.32), respectively (p < 0.01). These results lend insight into the major factors associated with nicotine exposure of pregnant women at environmentally relevant levels and its potential effect on oxidative stress with a large sample size, and warrant the necessity of reducing the exposure in sensitive populations.
    MeSH term(s) Humans ; Pregnancy ; Female ; Cotinine/urine ; Nicotine ; Pregnant Women ; Reproducibility of Results ; 8-Hydroxy-2'-Deoxyguanosine ; Oxidative Stress
    Chemical Substances Cotinine (K5161X06LL) ; Nicotine (6M3C89ZY6R) ; 8-Hydroxy-2'-Deoxyguanosine (88847-89-6)
    Language English
    Publishing date 2023-06-17
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 1178791-0
    ISSN 1614-7499 ; 0944-1344
    ISSN (online) 1614-7499
    ISSN 0944-1344
    DOI 10.1007/s11356-023-27624-8
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Bacillus cereus NJ01 induces SA- and ABA-mediated immunity against bacterial pathogens through the EDS1-WRKY18 module.

    Wang, Dacheng / Wei, Lirong / Ma, Jinbiao / Wan, Yingqiao / Huang, Keyi / Sun, Yiqiong / Wen, Huili / Chen, Zhipeng / Li, Zijie / Yu, Dongli / Cui, Haitao / Wu, Jingni / Wu, Yufeng / Kim, Sun Tae / Zhao, Jing / Parker, Jane E / Tsuda, Kenichi / Jiang, Chunhao / Wang, Yiming

    Cell reports

    2024  Volume 43, Issue 4, Page(s) 113985

    Abstract: Emerging evidence suggests a beneficial role of rhizobacteria in ameliorating plant disease resistance in an environment-friendly way. In this study, we characterize a rhizobacterium, Bacillus cereus NJ01, that enhances bacterial pathogen resistance in ... ...

    Abstract Emerging evidence suggests a beneficial role of rhizobacteria in ameliorating plant disease resistance in an environment-friendly way. In this study, we characterize a rhizobacterium, Bacillus cereus NJ01, that enhances bacterial pathogen resistance in rice and Arabidopsis. Transcriptome analyses show that root inoculation of NJ01 induces the expression of salicylic acid (SA)- and abscisic acid (ABA)-related genes in Arabidopsis leaves. Genetic evidence showed that EDS1, PAD4, and WRKY18 are required for B. cereus NJ01-induced bacterial resistance. An EDS1-PAD4 complex interacts with WRKY18 and enhances its DNA binding activity. WRKY18 directly binds to the W box in the promoter region of the SA biosynthesis gene ICS1 and ABA biosynthesis genes NCED3 and NCED5 and contributes to the NJ01-induced bacterial resistance. Taken together, our findings indicate a role of the EDS1/PAD4-WRKY18 complex in rhizobacteria-induced disease resistance.
    MeSH term(s) Bacillus cereus/genetics ; Abscisic Acid/metabolism ; Arabidopsis/immunology ; Arabidopsis/microbiology ; Arabidopsis/genetics ; Arabidopsis Proteins/metabolism ; Arabidopsis Proteins/genetics ; Plant Diseases/microbiology ; Plant Diseases/immunology ; DNA-Binding Proteins/metabolism ; DNA-Binding Proteins/genetics ; Salicylic Acid/metabolism ; Gene Expression Regulation, Plant ; Transcription Factors/metabolism ; Transcription Factors/genetics ; Oryza/microbiology ; Oryza/immunology ; Oryza/genetics ; Disease Resistance/genetics ; Disease Resistance/immunology ; Plant Immunity
    Chemical Substances Abscisic Acid (72S9A8J5GW) ; Arabidopsis Proteins ; DNA-Binding Proteins ; Salicylic Acid (O414PZ4LPZ) ; Transcription Factors ; EDS1 protein, Arabidopsis
    Language English
    Publishing date 2024-03-21
    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.2024.113985
    Database MEDical Literature Analysis and Retrieval System OnLINE

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