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Article ; Online: TSNAD and TSNAdb: The Useful Toolkit for Clinical Application of Tumor-Specific Neoantigens.

Wu, Jingcheng / Zhou, Zhan

Methods in molecular biology (Clifton, N.J.)

2023 Volume 2673, Page(s) 167–174

Abstract: Tumor-specific neoantigens play important roles in tumor immunotherapy. How to predict neoantigens accurately and efficiently has attracted much attention. TSNAD is the first one-stop neoantigen prediction tool from next-generation sequencing data, and ... ...

Abstract	Tumor-specific neoantigens play important roles in tumor immunotherapy. How to predict neoantigens accurately and efficiently has attracted much attention. TSNAD is the first one-stop neoantigen prediction tool from next-generation sequencing data, and TSNAdb provides both predicted and validated neoantigens based on pan-cancer immunogenomics analyses. In this chapter, we describe the usage of TSNAD and TSNAdb for the clinical application of neoantigens. The latest version of TSNAD is available at https://pgx.zju.edu.cn/tsnad , and the latest version of TSNAdb is available at https://pgx.zju.edu.cn/tsnadb .
MeSH term(s)	Humans ; Antigens, Neoplasm ; Neoplasms/genetics ; Neoplasms/therapy ; High-Throughput Nucleotide Sequencing ; Immunotherapy
Chemical Substances	Antigens, Neoplasm
Language	English
Publishing date	2023-05-31
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-0716-3239-0_11
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: In Situ Formation of Hydrogel Wound Dressing Based on Carboxymethyl Chitin/Tannic Acid for Promoting Skin Wound Healing.

Lin, Jinhui / Li, Siyaqi / Ying, Yunfei / Zheng, Weilin / Wu, Jingcheng / Wang, Peiyuan / Liu, Xiaolong

ACS omega

2024 Volume 9, Issue 4, Page(s) 4386–4394

Abstract: Triggering the healing process of drug-resistant bacteria-infected wounds has attracted great attention due to global morbidity that may induce gangrene, amputation, and even death. Here, a chitin derivative, carboxymethyl chitosan (CMC), tannic acid (TA) ...

Abstract	Triggering the healing process of drug-resistant bacteria-infected wounds has attracted great attention due to global morbidity that may induce gangrene, amputation, and even death. Here, a chitin derivative, carboxymethyl chitosan (CMC), tannic acid (TA), and Cu
Language	English
Publishing date	2024-01-16
Publishing country	United States
Document type	Journal Article
ISSN	2470-1343
ISSN (online)	2470-1343
DOI	10.1021/acsomega.3c06683
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Photonic Pigments of Polystyrene-

Xu, Jingcheng / Wu, Yulun / Xia, Yu / Fatima, Rida / Li, Yuesheng / Song, Dong-Po

ACS macro letters

2024 , Page(s) 495–501

Abstract: Prior studies on photonic pigments of amphiphilic bottlebrush block copolymers (BBCPs) through an organized spontaneous emulsification (OSE) mechanism have been limited to using polyethylene glycol (PEG) as the hydrophilic side chains and toluene as the ... ...

Abstract	Prior studies on photonic pigments of amphiphilic bottlebrush block copolymers (BBCPs) through an organized spontaneous emulsification (OSE) mechanism have been limited to using polyethylene glycol (PEG) as the hydrophilic side chains and toluene as the organic phase. Herein, a family of polystyrene-
Language	English
Publishing date	2024-04-12
Publishing country	United States
Document type	Journal Article
ISSN	2161-1653
ISSN (online)	2161-1653
DOI	10.1021/acsmacrolett.4c00070
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Article ; Online: Liquid Crystal Electrolyte with Lamellar Ionic Channels for All-In-One Gel Flexible Supercapacitor.

Wu, Wenna / Chu, Yiran / Zhang, Tao / He, Tao / Hao, Jingcheng

Small (Weinheim an der Bergstrasse, Germany)

2023 Volume 20, Issue 11, Page(s) e2305463

Abstract: Liquid crystalline hydrogels with nanoscale order are an attractive soft material to transport ions or electrons with high efficiency. By employing noncovalent interactions between amphiphiles and solvents, defined anisotropic ordered structures can ... ...

Abstract	Liquid crystalline hydrogels with nanoscale order are an attractive soft material to transport ions or electrons with high efficiency. By employing noncovalent interactions between amphiphiles and solvents, defined anisotropic ordered structures can assemble that serve as interior transmissible channels. Herein, the phase behaviors of a polymerizable amphiphile of 1-vinyl-3-alkylimidazolium bromide (VC
Language	English
Publishing date	2023-11-08
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2168935-0
ISSN	1613-6829 ; 1613-6810
ISSN (online)	1613-6829
ISSN	1613-6810
DOI	10.1002/smll.202305463
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Article ; Online: Hydrochemistry, chemical weathering and their significance on carbon cycle in the Heilong (Amur) River Basin, Northeast China.

Zheng, Xu / Nel, Werner / Peng, Jingcheng / Wu, Weihua

Chemosphere

2023 Volume 327, Page(s) 138542

Abstract: Chemical weathering is regarded as a "geological thermostat", affecting the global carbon cycle and long-term climate stability, and hydrochemistry of river is the important way to study weathering. The Heilong River (Amur River), as one of the largest ... ...

Abstract	Chemical weathering is regarded as a "geological thermostat", affecting the global carbon cycle and long-term climate stability, and hydrochemistry of river is the important way to study weathering. The Heilong River (Amur River), as one of the largest rivers in the temperate/cool temperate zone, has received few studies on the chemical weathering rate and its contribution to the global carbon cycle in the entire Chinese section. This paper presents the hydrochemistry of river water, lake water, and groundwater from the arid upper reaches, the Greater Hinggan Mountains in the middle reaches, and the fluvial plain in the lower reaches of the Heilong River. TDS values range from 26.8 mg/l to 1141 mg/l with an average of 189 mg/l. The arid upper reaches are affected by strong evaporation and/or evaporite minerals dissolution, and the ion contents of some surface water and underground water exceed the quality standard for drinking water. Although the downstream flood plain area is highly industrial and agricultural, water chemistry shows that anthropogenic activities have not significantly deteriorated water quality. The chemical weathering rate of the small granitic and basaltic watersheds in the Heilong River Basin is within the lowest range in the world, which further demonstrates the control of climate factors on chemical weathering. The calculated CO
MeSH term(s)	Environmental Monitoring ; Weather ; Rivers/chemistry ; China ; Carbon Cycle ; Groundwater ; Water Pollutants, Chemical/analysis
Chemical Substances	Water Pollutants, Chemical
Language	English
Publishing date	2023-03-28
Publishing country	England
Document type	Journal Article
ZDB-ID	120089-6
ISSN	1879-1298 ; 0045-6535 ; 0366-7111
ISSN (online)	1879-1298
ISSN	0045-6535 ; 0366-7111
DOI	10.1016/j.chemosphere.2023.138542
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Article ; Online: Network pharmacology prediction and molecular docking analysis reveal the mechanism of modified Bushen Yiqi formulas on chronic obstructive pulmonary disease.

Choi, Wenglam / Wu, Yueren / Li, Yifan / Dong, Jingcheng

The journal of gene medicine

2023 Volume 26, Issue 1, Page(s) e3607

Abstract: Background: The present study aimed to explore the mechanism of the modified Bushen Yiqi formula (MBYF) in the treatment of chronic obstructive pulmonary disease (COPD) based on network pharmacology and molecular docking.: Methods: First, the active ... ...

Abstract	Background: The present study aimed to explore the mechanism of the modified Bushen Yiqi formula (MBYF) in the treatment of chronic obstructive pulmonary disease (COPD) based on network pharmacology and molecular docking. Methods: First, the active ingredients and corresponding targets in MBYF were mined through the Traditional Chinese Medicine Systems Pharmacology database. Subsequently, Online Mendelian Inheritance in Man, DrugBank, and GeneCard were used to screen COPD-related targets. Cytoscape was used to construct a network of candidate components of MBYF in COPD treatment. The overlapping targets of COPD and MBYF were used to treat COPD, and then CytoHubba and CytoNAC plug-ins in Cytoscape were used for topology analysis to build the core network. In addition, core targets were used for Gene Ontology analysis and enrichment analysis of the Kyoto Encyclopedia of Genes and Genomes. Finally, AutoDock Vina software was used to conduct a molecular docking study on the core active ingredients and core targets to verify the above network pharmacological analysis. Results: Seventy-nine active components of MBYF were screened and 261 corresponding targets were found. At the same time, 1307 related targets corresponding to COPD were screened and 111 overlapping targets were matched. By bioinformatics analysis, 10 core targets were identified, and subsequently, enrichment analysis revealed 385 BP, two CC, eight MF and 78 related signaling pathways. The binding of the core active components in MBYF to the core target was further verified by molecular docking, and all showed good binding. Conclusions: The active components of MBYF, such as quercetin, kaempferol, luteolin, and baicalein, may be the material basis for the treatment of chronic obstructive pulmonary disease. They affect the expression of inflammatory cells and inflammatory factors, protein phosphorylation, and smooth muscle hyperplasia through tumor necrosis factor, interleukin-17, mitogen-activated protein kinase, nuclear factor-kappa B and other signaling pathways.
MeSH term(s)	Humans ; Molecular Docking Simulation ; Network Pharmacology ; Computational Biology ; Databases, Genetic ; Pulmonary Disease, Chronic Obstructive/drug therapy
Language	English
Publishing date	2023-10-05
Publishing country	England
Document type	Journal Article
ZDB-ID	1458024-x
ISSN	1521-2254 ; 1099-498X
ISSN (online)	1521-2254
ISSN	1099-498X
DOI	10.1002/jgm.3607
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Clinical significance of tumor abnormal protein in patients with type 2 diabetes complicated with lung adenocarcinoma

Chen, Ke / Zheng, Xiang / Hu, Jingcheng / Wu, Mengjiao / Zhou, Yingyi

Annals of medicine

2023 Volume 55, Issue 2, Page(s) 2293243

Abstract: Background: To investigate the application value of tumor abnormal protein in patients with type 2 diabetes mellitus complicated with lung adenocarcinoma : Materials and methods: A total of 140 patients having type 2 diabetes mellitus complicated ... ...

Abstract	Background: To investigate the application value of tumor abnormal protein in patients with type 2 diabetes mellitus complicated with lung adenocarcinoma Materials and methods: A total of 140 patients having type 2 diabetes mellitus complicated with lung adenocarcinoma Results: The total cholesterol level was higher in Group A than in Group B ( Conclusion: Therefore, detecting tumor abnormal protein levels may help diagnose lung adenocarcinoma
MeSH term(s)	Humans ; Diabetes Mellitus, Type 2/complications ; Blood Glucose/metabolism ; Glycated Hemoglobin ; Clinical Relevance ; Adenocarcinoma in Situ/complications ; Cholesterol, LDL ; Cholesterol, HDL ; Neoplasms ; Lung
Chemical Substances	Blood Glucose ; Glycated Hemoglobin ; Cholesterol, LDL ; Cholesterol, HDL
Language	English
Publishing date	2023-12-14
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1004226-x
ISSN	1365-2060 ; 1651-2219 ; 0785-3890 ; 1743-1387
ISSN (online)	1365-2060 ; 1651-2219
ISSN	0785-3890 ; 1743-1387
DOI	10.1080/07853890.2023.2293243
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Ligand reaction-based fluorescent peptide probes for the detection of Cu

Zhou, Jiang / Hao, Junlei / Wang, Dajiang / Wu, Jiang / Wang, Zhongchang / Lin, Pengcheng / Hou, Jingcheng

Luminescence : the journal of biological and chemical luminescence

2024 Volume 39, Issue 1, Page(s) e4671

Abstract: Copper is a critical element in both human and animal metabolic processes. Its role includes supporting connective tissue cross-linking, as well as iron and lipid metabolism; at the same time, copper is also a toxic heavy metal that can cause harm to ... ...

Abstract	Copper is a critical element in both human and animal metabolic processes. Its role includes supporting connective tissue cross-linking, as well as iron and lipid metabolism; at the same time, copper is also a toxic heavy metal that can cause harm to both the environment and human health. Glutathione (GSH) is a tripeptide composed of glutamic acid, cysteine, and glycine combined with sulfhydryl groups. Its properties include acting as an antioxidant and facilitating integrative detoxification. GSH is present in both plant and animal cells and has a fundamental role in maintaining living organisms. GSH is the most abundant thiol antioxidant in the human body. It exists in reduced and oxidized forms within cells and provides significant biochemical functions, such as regulating vitamins such as vitamins D, E, and C, and facilitating detoxification. A fluorescent probe has been developed to detect copper ions selectively, sensitively, and rapidly. This report outlines the successful work on creating a peptide probe, TGN (TPE-Trp-Pro-Gly-Cln-His-NH
MeSH term(s)	Animals ; Humans ; Copper/chemistry ; Antioxidants ; Ligands ; Glutathione ; Peptides/chemistry ; Fluorescent Dyes/chemistry ; Spectrometry, Fluorescence/methods ; Vitamins
Chemical Substances	Copper (789U1901C5) ; Antioxidants ; Ligands ; Glutathione (GAN16C9B8O) ; Peptides ; Fluorescent Dyes ; Vitamins
Language	English
Publishing date	2024-01-29
Publishing country	England
Document type	Journal Article
ZDB-ID	1470995-8
ISSN	1522-7243 ; 1522-7235 ; 1099-1271
ISSN (online)	1522-7243
ISSN	1522-7235 ; 1099-1271
DOI	10.1002/bio.4671
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Article ; Online: Clinical significance of tumor abnormal protein in patients with type 2 diabetes complicated with lung adenocarcinoma in situ

Ke Chen / Xiang Zheng / Jingcheng Hu / Mengjiao Wu / Yingyi Zhou

Annals of Medicine, Vol 55, Iss

2023 Volume 2

Abstract: AbstractBackground To investigate the application value of tumor abnormal protein in patients with type 2 diabetes mellitus complicated with lung adenocarcinoma in situ.Materials and Methods A total of 140 patients having type 2 diabetes mellitus ... ...

Abstract	AbstractBackground To investigate the application value of tumor abnormal protein in patients with type 2 diabetes mellitus complicated with lung adenocarcinoma in situ.Materials and Methods A total of 140 patients having type 2 diabetes mellitus complicated with lung adenocarcinoma in situ (Group A), 160 patients with type 2 diabetes mellitus (Group B), and 120 healthy controls (Group C) were enrolled in the Department of Thoracic Surgery of the First Affiliated Hospital of Soochow University from November 2021 to December 2022.Results The total cholesterol level was higher in Group A than in Group B (p < 0.05) and Group C (p < 0.01), and it was higher in Group B than in Group C (p < 0.01). The comparison results of cholesterol level were similar to those of tumor abnormal protein, low-density lipoprotein cholesterol, and glycosylated hemoglobin among the three groups. The triglyceride level was higher in Group A than in Group B and Group C (both p < 0.01). Group A had a higher level of high-density lipoprotein cholesterol than Group C (p < 0.01). The fasting plasma glucose level was higher in Group A than in Group B and Group C (both, p < 0.01). These findings indicated that tumor abnormal protein, glycosylated hemoglobin, high-density lipoprotein cholesterol, and fasting plasma glucose were independent factors for patients having type 2 diabetes mellitus complicated with lung adenocarcinoma in situ.Conclusion Therefore, detecting tumor abnormal protein levels may help diagnose lung adenocarcinoma in situ in patients with type 2 diabetes mellitus.
Keywords	Tumor abnormal protein ; type 2 diabetes mellitus ; lung adenocarcinoma in situ ; diagnosis ; Medicine ; R
Subject code	610
Language	English
Publishing date	2023-12-01T00:00:00Z
Publisher	Taylor & Francis Group
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Hydrochemistry, chemical weathering and their significance on carbon cycle in the Heilong (Amur) River Basin, Northeast China

Zheng, Xu / Nel, Werner / Peng, Jingcheng / Wu, Weihua

Chemosphere. 2023 June, v. 327 p.138542-

2023

Abstract: Chemical weathering is regarded as a “geological thermostat”, affecting the global carbon cycle and long-term climate stability, and hydrochemistry of river is the important way to study weathering. The Heilong River (Amur River), as one of the largest ... ...

Abstract	Chemical weathering is regarded as a “geological thermostat”, affecting the global carbon cycle and long-term climate stability, and hydrochemistry of river is the important way to study weathering. The Heilong River (Amur River), as one of the largest rivers in the temperate/cool temperate zone, has received few studies on the chemical weathering rate and its contribution to the global carbon cycle in the entire Chinese section. This paper presents the hydrochemistry of river water, lake water, and groundwater from the arid upper reaches, the Greater Hinggan Mountains in the middle reaches, and the fluvial plain in the lower reaches of the Heilong River. TDS values range from 26.8 mg/l to 1141 mg/l with an average of 189 mg/l. The arid upper reaches are affected by strong evaporation and/or evaporite minerals dissolution, and the ion contents of some surface water and underground water exceed the quality standard for drinking water. Although the downstream flood plain area is highly industrial and agricultural, water chemistry shows that anthropogenic activities have not significantly deteriorated water quality. The chemical weathering rate of the small granitic and basaltic watersheds in the Heilong River Basin is within the lowest range in the world, which further demonstrates the control of climate factors on chemical weathering. The calculated CO₂ consumption flux from silicate weathering in the Heilong River Basin is from 82.3 × 10⁹ to 196 × 10⁹ mol/y, accounting for 0.95%–2.25% of the global consumption values with a proportion of area of ∼1.2%. Compared with other temperate/cool temperate rivers worldwide, it is comparable to the Yenisei River in Siberia, but much higher than the Ob River and Lena River in Siberia, Mackenzie River and Yukon River in North America.
Keywords	Siberia ; carbon cycle ; carbon dioxide ; evaporation ; floodplains ; global carbon budget ; groundwater ; hydrochemistry ; lakes ; river water ; rivers ; silicates ; surface water ; temperate zones ; water quality ; watersheds ; China ; North America ; The Heilong River ; Chemical weathering ; CO2 consumption
Language	English
Dates of publication	2023-06
Publishing place	Elsevier Ltd
Document type	Article ; Online
ZDB-ID	120089-6
ISSN	1879-1298 ; 0045-6535 ; 0366-7111
ISSN (online)	1879-1298
ISSN	0045-6535 ; 0366-7111
DOI	10.1016/j.chemosphere.2023.138542
Database	NAL-Catalogue (AGRICOLA)

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