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Article: The application of CRISPR genome editing technologies in the pathogenesis studies, diagnosis, prevention and treatment of infectious diseases.

Zhen-Rong, Yang / Gang-Qiao, Zhou

Yi chuan = Hereditas

2024 Volume 45, Issue 11, Page(s) 950–962

Abstract: The CRISPR genome editing technology shows great application prospects in gene manipulation and infectious disease research, and is of great value for effective control and cure of infectious diseases. It has been utilized to generate specific disease ... ...

Abstract	The CRISPR genome editing technology shows great application prospects in gene manipulation and infectious disease research, and is of great value for effective control and cure of infectious diseases. It has been utilized to generate specific disease models in cells, organoids and animals, which provide great convenience for research into the molecular mechanisms associated with infectious diseases. CRISPR screening technology enables high-throughput identification of risk factors. New molecular diagnostic tools based on CRISPR offer a more sensitive and faster method for detecting pathogens. The use of CRISPR tools to introduce resistance genes or to specifically destroy risk genes and virus genomes is intended to help prevent or treat infectious diseases. This review discusses the application of CRISPR genome editing technologies in the construction of disease models, screening of risk factors, pathogen diagnosis, and prevention and treatment of infectious diseases, thereby providing a reference for follow-up research in pathogenesis, diagnosis, prevention and treatment of infectious diseases.
MeSH term(s)	Gene Editing/methods ; Humans ; Animals ; Communicable Diseases/diagnosis ; Communicable Diseases/therapy ; Communicable Diseases/genetics ; CRISPR-Cas Systems ; Clustered Regularly Interspaced Short Palindromic Repeats
Language	English
Publishing date	2024-05-19
Publishing country	China
Document type	Journal Article ; Review
ISSN	0253-9772
ISSN	0253-9772
DOI	10.16288/j.yczz.23-206
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: ELM-KL-LSTM

Qiao Zhou / Zhong-Yi Wang / Lan Huang

PeerJ Computer Science, Vol 9, p e

a robust and general incremental learning method for efficient classification of time series data

2023 Volume 1732

Abstract: Efficiently analyzing and classifying dynamically changing time series data remains a challenge. The main issue lies in the significant differences in feature distribution that occur between old and new datasets generated constantly due to varying ... ...

Abstract	Efficiently analyzing and classifying dynamically changing time series data remains a challenge. The main issue lies in the significant differences in feature distribution that occur between old and new datasets generated constantly due to varying degrees of concept drift, anomalous data, erroneous data, high noise, and other factors. Taking into account the need to balance accuracy and efficiency when the distribution of the dataset changes, we proposed a new robust, generalized incremental learning (IL) model ELM-KL-LSTM. Extreme learning machine (ELM) is used as a lightweight pre-processing model which is updated using the new designed evaluation metrics based on Kullback-Leibler (KL) divergence values to measure the difference in feature distribution within sliding windows. Finally, we implemented efficient processing and classification analysis of dynamically changing time series data based on ELM lightweight pre-processing model, model update strategy and long short-term memory networks (LSTM) classification model. We conducted extensive experiments and comparation analysis based on the proposed method and benchmark methods in several different real application scenarios. Experimental results show that, compared with the benchmark methods, the proposed method exhibits good robustness and generalization in a number of different real-world application scenarios, and can successfully perform model updates and efficient classification analysis of incremental data with varying degrees improvement of classification accuracy. This provides and extends a new means for efficient analysis of dynamically changing time-series data.
Keywords	Concept drift ; Lightweight preprocessing model ; Model update strategy ; Efficient classification analyzing ; Dynamically changing time series data ; Electronic computers. Computer science ; QA75.5-76.95
Subject code	006
Language	English
Publishing date	2023-12-01T00:00:00Z
Publisher	PeerJ Inc.
Document type	Article ; Online
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Article ; Online: Acidic Metal-Based Functional Ionic Liquids Catalyze the Synthesis of Bio-Based PEF Polyester

Qiao Zhou / Yuanyuan Zhao / Yafei Shi / Rongrong Zheng / Liying Guo

Polymers, Vol 16, Iss 1, p

2023 Volume 103

Abstract: Utilizing triethylenediamine (DA), 1,3-propanesultone (PS), whose ring opens during the formation of the dizwiterion-intermediate DA-2PS, and the metal chlorides XCly, where X = Sn(IV), Zn(II),Al(III), Fe(III) and Mn(II), are used for the synthesis of ... ...

Abstract	Utilizing triethylenediamine (DA), 1,3-propanesultone (PS), whose ring opens during the formation of the dizwiterion-intermediate DA-2PS, and the metal chlorides XCly, where X = Sn(IV), Zn(II),Al(III), Fe(III) and Mn(II), are used for the synthesis of five kinds of acidic metal-based functionalized ionic liquid catalysts ([DA-2PS][XCly] 2 ). Their chemical structures, thermal stability and dual acidic active site were analyzed. We investigated the performance of [DA-2PS][XCly] 2 in catalyzing the esterification reaction between 2,5-furandicarboxylic acid (FDCA) and ethylene glycol (EG) to synthesize poly (ethylene 2,5-furandicarboxylate)(PEF). Among the catalysts tested, [DA-2PS][SnCl 5 ] 2 exhibited the best catalytic performance under identical process parameters, and the optimal catalyst dosage was determined to be 0.05 mol% based on FDCA. The optimal conditions for the reaction were predicted using response surface methodology: a feed ratio of EG:FDCA = 1.96:1, an esterification temperature of 219.86 °C, a polycondensation temperature of 240.04 °C and a polycondensation time of 6.3 h, with a intrinsic viscosity of 0.67 dL·g −1 . The resulting PEF was experimentally verified to exhibit an intrinsic viscosity of 0.68 dL·g −1 and a number average molecular weight of 28,820 g·mol −1 . Finally, the structure and thermal properties of PEF were characterized. The results confirmed that PEF possessed the correct structure, exhibited high thermal stability and demonstrated excellent thermal properties.
Keywords	ionic liquid ; catalyst ; biobased ; direct esterification ; poly(ethylene 2,5-furandicarboxylate) ; Organic chemistry ; QD241-441
Subject code	660
Language	English
Publishing date	2023-12-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Identification of miRNA biomarkers for stomach adenocarcinoma

Hao Qian / Nanxue Cui / Qiao Zhou / Shihai Zhang

BMC Bioinformatics, Vol 23, Iss 1, Pp 1-

2022 Volume 12

Abstract: Abstract Background Stomach adenocarcinoma (STAD) is a common malignant tumor in the world and its prognosis is poor, miRNA plays a role mainly by influencing the expression of mRNAs, and participates in the occurrence and development of tumors. However, ...

Abstract	Abstract Background Stomach adenocarcinoma (STAD) is a common malignant tumor in the world and its prognosis is poor, miRNA plays a role mainly by influencing the expression of mRNAs, and participates in the occurrence and development of tumors. However, reliable miRNA prognostic models for stomach adenocarcinoma remain to be identified. Results Using the data from the Cancer Genome Atlas (TCGA), a prognostic model of stomach adenocarcinoma was established including tumor stage and expression levels of 4 miRNAs (hsa-miR-379-3p, hsa-miR-2681-3p, hsa-miR-6499-5p and hsa-miR-6807-3p). A total of 50 ultimate target genes of these miRNAs were obtained through prediction. Enrichment analysis revealed that target genes were mainly concentrated in neural function and TGF-β and FoxO signaling pathways. Survival analysis showed that three model miRNAs (hsa-miR-379-3p, hsa-miR-2681-3p and hsa-miR-6807-3p) and five final target genes (DLC1, LRFN5, NOVA1, POU3F2 and PRICKLE2) were associated with the patient's overall survival outcome. Conclusions We used bioinformatics methods to screen new prognostic miRNA markers from TCGA and established a prognostic model of STAD, so as to provide a basis for the diagnosis, prognosis, and treatment of STAD in the future.
Keywords	TCGA ; STAD ; miRNA ; Bioinformatics ; Prognostic model ; Computer applications to medicine. Medical informatics ; R858-859.7 ; Biology (General) ; QH301-705.5
Subject code	500
Language	English
Publishing date	2022-05-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Genome-Wide Identification and Expression Analysis of the Copper Transporter ( COPT / Ctr ) Gene Family in Kandelia obovata , a Typical Mangrove Plant

Quaid Hussain / Ting Ye / Sihui Li / Jackson Nkoh Nkoh / Qiao Zhou / Chenjing Shang

International Journal of Molecular Sciences, Vol 24, Iss 21, p

2023 Volume 15579

Abstract: The copper transporter ( COPT / Ctr ) gene family plays a critical part in maintaining the balance of the metal, and many diverse species depend on COPT to move copper (Cu) across the cell membrane. In Arabidopsis thaliana , Oryza sativa , Medicago ... ...

Abstract	The copper transporter ( COPT / Ctr ) gene family plays a critical part in maintaining the balance of the metal, and many diverse species depend on COPT to move copper (Cu) across the cell membrane. In Arabidopsis thaliana , Oryza sativa , Medicago sativa , Zea mays , Populus trichocarpa , Vitis vinifera , and Solanum lycopersicum, a genome-wide study of the COPT protein family was performed. To understand the major roles of the COPT gene family in Kandelia obovata ( Ko ), a genome-wide study identified four COPT genes in the Kandelia obovata genome for the first time. The domain and 3D structural variation, phylogenetic tree, chromosomal distributions, gene structure, motif analysis, subcellular localization, cis-regulatory elements, synteny and duplication analysis, and expression profiles in leaves and Cu were all investigated in this research. Structural and sequence investigations show that most KoCOPTs have three transmembrane domains (TMDs). According to phylogenetic research, these KoCOPTs might be divided into two subgroups, just like Populus trichocarpa . KoCOPT gene segmental duplications and positive selection pressure were discovered by universal analysis. According to gene structure and motif analysis, most KoCOPT genes showed consistent exon–intron and motif organization within the same group. In addition, we found five hormones and four stress- and seven light-responsive cis-elements in the KoCOPTs promoters. The expression studies revealed that all four genes changed their expression levels in response to copper (CuCl 2 ) treatments. In summary, our study offers a thorough overview of the Kandelia obovata COPT gene family’s expression pattern and functional diversity, making it easier to characterize each KoCOPT gene’s function in the future.
Keywords	copper stress ; copper transporter ; Kandelia obovata ; qRT-PCR ; 3D structures ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
Subject code	572
Language	English
Publishing date	2023-10-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Identification of methylated differentially expressed hub genes in systemic lupus erythematosus patients by WGCNA-based epigenome-wide and transcriptome-wide analysis

Qiao Zhou / Li Long / Xixi Chen / Xiaobo Huang / Shaoping Deng / Yi Wang

Genes and Diseases, Vol 10, Iss 5, Pp 1771-

2023 Volume 1774

Keywords	Medicine (General) ; R5-920 ; Genetics ; QH426-470
Language	English
Publishing date	2023-09-01T00:00:00Z
Publisher	KeAi Communications Co., Ltd.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Analysis of the effectiveness of Renewable Portfolio Standards: A perspective of shared mental model

Xin-gang, Zhao / Yu-qiao, Zhou

Journal of cleaner production. 2021 Jan. 01, v. 278

2021

Abstract: To promote energy production and consumption revolution, China introduced Renewable Portfolio Standards (RPS) in 2018. The investigation on power producers’ behaviors and the evaluation of the effectiveness of RPS could lay the foundation for the design ... ...

Abstract	To promote energy production and consumption revolution, China introduced Renewable Portfolio Standards (RPS) in 2018. The investigation on power producers’ behaviors and the evaluation of the effectiveness of RPS could lay the foundation for the design of RPS, and scientific institution design is the key to promote the development of renewable energy. In this paper, the evolution process of power producers’ behaviors has been simulated based on subjective game model, and the performance of RPS has been evaluated based on power producers’ shared mental model. The results show that: 1) After the implementation of RPS, the uncertainties of power producers’ behaviors decrease gradually, and the game equilibrium has been established, broken, and then rebuilt. 2) When choosing a certain strategy could obtain higher payoff, power producers tend to choose this strategy more frequently in future games. 3) When the fine is two times the price of Tradable Green Certificate (TGC), it becomes the shared mental among power producers to trade TGCs, and RPS becomes effective.
Keywords	energy ; game theory ; models ; prices ; renewable energy sources ; trade ; uncertainty ; China
Language	English
Dates of publication	2021-0101
Publishing place	Elsevier Ltd
Document type	Article
ISSN	0959-6526
DOI	10.1016/j.jclepro.2020.124276
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Design and structural characterization of autoinhibition-compromised full-length Ran

Yuping Tan / Yuqing Zhang / Qiao Zhou / Da Jia / Qingxiang Sun

Signal Transduction and Targeted Therapy, Vol 6, Iss 1, Pp 1-

2021 Volume 3

Keywords	Medicine ; R ; Biology (General) ; QH301-705.5
Language	English
Publishing date	2021-02-01T00:00:00Z
Publisher	Nature Publishing Group
Document type	Article ; Online
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Article ; Online: Effect of Electrical Stimulation on Disuse Muscular Atrophy Induced by Immobilization: Correlation With Upregulation of PERK Signal and Parkin-Mediated Mitophagy.

Zhang, Quan-Bing / Liu, A-Ying / Fang, Qiao-Zhou / Wang, Feng / Wang, Hua / Zhou, Yun

American journal of physical medicine & rehabilitation

2023 Volume 102, Issue 8, Page(s) 692–700

Abstract: Objectives: The aims of the study are to investigate the effect of electrical stimulation on disuse muscular atrophy induced by immobilization (IM) and to explore the role of PERK signal and Parkin-dependent mitophagy in this process.: Design: In the ...

Abstract	Objectives: The aims of the study are to investigate the effect of electrical stimulation on disuse muscular atrophy induced by immobilization (IM) and to explore the role of PERK signal and Parkin-dependent mitophagy in this process. Design: In the first subexperiment, 24 rabbits were divided into four groups, which underwent different periods of IM. In the second subexperiment, 24 rabbits were divided into four groups on average in accordance with different kinds of interventions. To test the time-dependent changes of rectus femoris after IM, and to evaluate the effect of electrical stimulation, the wet weights, cross-sectional area and fat deposition of rectus femoris were assessed in this study, along with the protein levels of atrogin-1, p-PERK, Parkin, and COXIV. Results: The wet weights and cross-sectional area decreased, and the fat deposition increased in rectus femoris after IM, along with the elevated protein levels of atrogin-1, p-PERK, Parkin, and decreased protein levels of COXIV. The above histomorphological and molecular changes can be partially ameliorated by electrical stimulation. Conclusions: Immobilization of unilateral lower limb could induce rectus femoris atrophy, which can be partially rectified by electrical stimulation. PERK signal and Parkin-mediated mitophagy may be the mechanisms by which electrical stimulation can play a significant role.
MeSH term(s)	Animals ; Rabbits ; Muscular Atrophy/etiology ; Mitophagy ; Up-Regulation ; Ubiquitin-Protein Ligases/metabolism ; Quadriceps Muscle/pathology
Chemical Substances	Ubiquitin-Protein Ligases (EC 2.3.2.27)
Language	English
Publishing date	2023-01-08
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	219390-5
ISSN	1537-7385 ; 0002-9491 ; 0894-9115
ISSN (online)	1537-7385
ISSN	0002-9491 ; 0894-9115
DOI	10.1097/PHM.0000000000002182
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Article: Formation process of extension knee joint contracture following external immobilization in rats.

Zhou, Chen-Xu / Wang, Feng / Zhou, Yun / Fang, Qiao-Zhou / Zhang, Quan-Bing

World journal of orthopedics

2023 Volume 14, Issue 9, Page(s) 669–681

Abstract: Background: Current research lacks a model of knee extension contracture in rats.: Aim: To elucidate the formation process of knee extension contracture.: Methods: We developed a rat model using an aluminum external fixator. Sixty male Sprague- ... ...

Abstract	Background: Current research lacks a model of knee extension contracture in rats. Aim: To elucidate the formation process of knee extension contracture. Methods: We developed a rat model using an aluminum external fixator. Sixty male Sprague-Dawley rats with mature bones were divided into the control group ( Results: Myogenic contracture progressed very quickly during the initial 2 wk of immobilization. After 2 wk, the contracture gradually changed from myogenic to arthrogenic. The arthrogenic contracture progressed slowly during the 1 Conclusion: This rat model may be a useful tool to study the etiology of joint contracture and establish therapeutic approaches.
Language	English
Publishing date	2023-09-18
Publishing country	United States
Document type	Journal Article
ZDB-ID	2649712-8
ISSN	2218-5836
ISSN	2218-5836
DOI	10.5312/wjo.v14.i9.669
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