Article
Geriatrics & Gerontology
Xiaolan Lian, Mingyi Zhao, Ji Xia, Yulei He, Lina Zhang
Summary: The study found that both well-known mRNA splicing genes and rarely reported mRNA splicing relevant genes were significantly down-regulated during the aging process of HSPCs. This research enhanced our understanding of the role of mRNA splicing in HSPC aging.
AGING CLINICAL AND EXPERIMENTAL RESEARCH
(2021)
Review
Genetics & Heredity
Xiulan Chen, Yaping Sun, Tingting Zhang, Lian Shu, Peter Roepstorff, Fuquan Yang
Summary: Isobaric labeling technology has become a key tool for comparing protein expression in biological samples, although challenges remain in terms of quantitative accuracy and precision. The different types of isobaric mass tags and advantages and disadvantages of the labeling method are detailed, along with precautions needed at each step of the workflow for reliable quantification results. The broad applications of isobaric labeling technology in biological and clinical studies, with a focus on thermal proteome profiling and proteogenomics, are also discussed.
GENOMICS PROTEOMICS & BIOINFORMATICS
(2021)
Article
Oncology
Runhong Yu, Linna Cheng, Shiwei Yang, Yufeng Liu, Zunmin Zhu
Summary: This study utilized iTRAQ-based proteomic analysis to screen and verify potential serum biomarkers of pediatric NHL. S100A8 and LRG1 were identified as promising candidate biomarkers for pediatric NHL, and these differential proteins indicate a novel pathogenesis.
FRONTIERS IN ONCOLOGY
(2022)
Article
Neurosciences
Zhifeng Qi, Shuhua Yuan, Xixi Zhou, Xunming Ji, Ke Jian Liu
Summary: This study identified potential serum biomarkers for predicting hemorrhagic transformation (HT) after ischemic stroke by analyzing differences in protein levels in 37 acute ischemic stroke patients. Further analysis indicated that these differentially expressed proteins may interact to contribute to the development of HT.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2021)
Article
Immunology
Jiangtao Ou, Huizi Dong, Xiaoqi Luan, Xiang Wang, Qiao Liu, Hao Chen, Miao Cao, Zheqi Xu, Yang Liu, Weihong Zhao
Summary: In this study, iTRAQ technology was used to analyze the differential proteome of high- and low-virulence strains of Spiroplasma eriocheiris. A total of 868 differentially expressed proteins were identified, and 68 virulence proteins of Spiroplasma eriocheiris were found to be involved in various metabolic pathways. These findings provide a basis for further research on the virulence mechanism and physiological differences between high- and low-virulence strains of Spiroplasma eriocheiris.
MICROBIAL PATHOGENESIS
(2023)
Article
Microbiology
Xiangyu Wang, Kaina Yan, Muqing Fu, Song Liang, Haiyi Zhao, Changzhu Fu, Lan Yang, Zhihong Song, Dayong Sun, Chengsong Wan
Summary: Using iTRAQ technique, we investigated the pathogenic characteristics of EHEC's EspF in host cells. The study revealed that EspF induced ER stress and apoptosis in intestinal epithelial cells, providing insights into the virulence mechanism of EspF.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Plant Sciences
Salvador Gonzalez-Gordo, Jose M. Palma, Francisco J. Corpas
Summary: The proteomic composition of peroxisomes in sweet pepper fruits was analyzed, revealing significant differences in peroxisomal proteins involved in antioxidant metabolism and beta-oxidation pathway. These findings provide new insights into the metabolic functions of peroxisomes during fruit ripening.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Toxicology
Wei Zhang, Ruiguo Wang, John P. Giesy, Su Zhang, Shulin Wei, Peilong Wang
Summary: In this study, the effects of TDCIPP on immune cells were investigated using iTRAQ-based proteomic techniques. A total of 180 differentially expressed proteins were identified, with some found to be involved in pathways related to apoptosis, DNA damage, cell cycle arrest, immune-toxicity, and signaling pathways. The study also suggested that the collapse of MMP may play a role in TDCIPP induced apoptosis.
JOURNAL OF APPLIED TOXICOLOGY
(2022)
Article
Plant Sciences
Jialiang Li, Rui Yang, Yonglei Jiang, Shubin Sun, Junying Li, Hao Gu, Ying Lin, Xianxue Luo, Chenggang He, Yi Chen
Summary: This study provides insights into the responses of tobacco roots to different soil types, showing that red soil promotes the coordination of chemical composition of tobacco leaves and the growth and activity of the root system, while limestone soil and paddy soil have relatively weaker effects.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemical Research Methods
Darien Yeung, Geoffrey Anderson, Vic Spicer, Oleg Krokhin
Summary: This study investigated the reversed-phase HPLC separation of peptides labeled with amine-reacting tags for relative protein quantitation. The study found that the hydrophobicity of these labeled peptides varies under different pH conditions, and the hydrophobicity is influenced by the length of the labeling group.
JOURNAL OF CHROMATOGRAPHY A
(2022)
Review
Biochemical Research Methods
Michael K. Sivanich, Ting-Jia Gu, Dylan Nicholas Tabang, Lingjun Li
Summary: This article provides an overview of the application of mass spectrometry (MS) in quantitative proteomics. Liquid chromatography-mass spectrometry (LC-MS) is a powerful technique for accurately quantifying proteins and peptides in complex biological samples. Isobaric tagging, a commonly used chemical isotopic labeling technique, allows for quantification based on MS2 peptide analysis. The article also discusses recent developments in isobaric tagging methods and improvements, as well as limitations and approaches to address them. The review highlights the diverse applications of isobaric tags in biomarker discovery, thermal proteome profiling, cross-linking structural investigations, single-cell analysis, top-down proteomics, and analysis of neuropeptides, glycans, metabolites, and lipids. Considerations and evaluations are provided for each application.
Article
Multidisciplinary Sciences
Tzu-Yun Kuo, Jen-Hung Wang, Yung-Wen Huang, Ting-Yi Sung, Ching-Tai Chen
Summary: In this study, a novel quantitation pipeline that combines sequence database searching, spectral library searching, and a feature-based peptide-spectrum-match (PSM) filter is proposed to improve the quantitation accuracy of isobaric labeling-based mass spectrometry. The results demonstrate that this pipeline can enhance the overall quantitation accuracy at both the PSM and protein levels. This is the first study to utilize spectral library searching to improve isobaric labeling-based quantitation.
SCIENTIFIC REPORTS
(2023)
Article
Microbiology
Jiatian Wang, Peiyang Fan, Yong Wei, Jiaqi Wang, Weihao Zou, Guofa Zhou, Daibin Zhong, Xueli Zheng
Summary: This study used iTRAQ-based proteomic analysis to investigate the changes in protein expression in the midgut of Ae. albopictus during DENV infection. The results revealed differential upregulation or downregulation of certain proteins in response to DENV infection, with enrichment in pathways related to ubiquitin ligase complex, cuticle structure, carbohydrate metabolism, and lipid metabolism. Additionally, a putative pupal cuticle (PC) protein and ubiquitin carboxyl-terminal hydrolase (UCH) protein were found to potentially play important roles in the antiviral response.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Genetics & Heredity
Xinzhuan Yao, Yong Qi, Hufang Chen, Baohui Zhang, Zhengwu Chen, Litang Lu
Summary: This study found that the 'QianFu No. 4' variety had significantly higher levels of main nutrients compared to 'QianMei 419'. By combining transcriptome and proteome analysis, the researchers gained new insights into the molecular mechanisms underlying the nutritional quality of these tea varieties. They identified several genes and proteins related to flavonoid biosynthesis, caffeine metabolism, theanine biosynthesis, and amino acid metabolism, which play a role in the nutritional quality of the tea. These findings contribute to our understanding of the molecular mechanisms driving nutrient differences in tea.
Article
Oncology
Dan Lei, Tao Hong, Longxue Li, Lai Chen, Xiaoquan Luo, Qinghua Wu, Zhiyong Liu
Summary: Several environmental chemicals with estrogenic activity can disrupt cell function and endocrine functions, leading to an increased risk of estrogen-related tumors. Ginger has been shown to inhibit estrogen receptor expression and promote apoptosis in breast cancer cells. When MCF-7 cells were treated with ginger essential oil (GEO), bisphenol A (BPA), or a combination of both, significant changes in protein expression were observed, particularly in pathways related to oxidative phosphorylation. This suggests that GEO-BPA treatment may induce oxidative stress and cell death in breast cancer cells, potentially offering a new approach for breast cancer treatment related to environmental estrogen exposure.
Article
Oncology
Ta-Chen Huang, Cher-Wei Liang, Yu- Li, Jhe-Cyuan Guo, Chia-Chi Lin, Ya-Jhen Chen, Ann-Lii Cheng, Chih-Hung Hsu
Summary: The expression of PD-L1 on tumor and immune cells may have different prognostic value for patients with locally advanced esophageal squamous cell carcinoma (ESCC) receiving neoadjuvant chemoradiotherapy (CRT). The combination of IC-high and TC-negative status is associated with optimal overall survival.
JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY
(2022)
Article
Oncology
San-Chi Chen, Yi-Hsiang Huang, Ming-Huang Chen, Yi-Ping Hung, Rheun-Chuan Lee, Yu-Yun Shao, Yee Chao
Summary: This study demonstrates the better efficacy and survival benefits of combination therapy with anti-PD-1 and sorafenib in advanced hepatocellular carcinoma. Further prospective randomized studies are needed to confirm these findings.
Article
Medicine, General & Internal
Hung-Yang Kuo, Jhe-Cyuan Guo, Chih-Hung Hsu
JOURNAL OF THE FORMOSAN MEDICAL ASSOCIATION
(2023)
Article
Oncology
Yu-Yun Shao, Hung-Wei Hsu, Rita Robin Wo, Han-Yu Wang, Ann-Lii Cheng, Chih-Hung Hsu
Summary: CDK9 inhibitors have been found to have potent anti-proliferative and apoptosis-inducing activities against HCC cells, while inhibiting downstream signaling molecules' phosphorylation. Animal experiments have confirmed the inhibitory effects of CDK9 inhibitors on HCC. Overexpression of CDK9 reduced the efficacy of CDK9 inhibitors, while knockdown of CDK9 expression reduced the proliferative activities of HCC cells.
Editorial Material
Gastroenterology & Hepatology
Satoru Matsuda, Takahiro Tsushima, Ken Kato, Chih-Hung Hsu, Jang Ming Lee, Ian Yu-Hong Wong, Hu-Lin Christina Wang, Chang Hyun Kang, Xufeng Guo, Shun Yamamoto, Takayuki Tsuji, Hirofumi Kawakubo, Hiroya Takeuchi, Simon Law, Yuko Kitagawa
Summary: A multimodality treatment conference was held with experts from East Asia to establish a consensus on conversion therapy. It was agreed that conversion therapy refers to surgery or chemoradiotherapy aimed at curing initially unresectable tumors.
ANNALS OF GASTROENTEROLOGICAL SURGERY
(2023)
Article
Medicine, General & Internal
Jan-Mou Lee, Yi-Ping Hung, Kai-Yuan Chou, Cheng-Yun Lee, Shian-Ren Lin, Ya-Han Tsai, Wan-Yu Lai, Yu-Yun Shao, Chiun Hsu, Chih-Hung Hsu, Yee Chao
Summary: This study aimed to evaluate whether analyzing peripheral immune cell subsets using Mann-Whitney U test and artificial intelligence (AI) algorithms can predict the response to nivolumab treatment in advanced hepatocellular carcinoma (aHCC) patients. The results showed that this method could successfully separate disease control group from disease progression group, and PD-L1(+) monocytes and PD-L1(+) CD8 T cells played a significant role in this discrimination.
FRONTIERS IN MEDICINE
(2022)
Editorial Material
Gastroenterology & Hepatology
Yu-Yun Shao
HEPATOLOGY INTERNATIONAL
(2023)
Article
Oncology
Jhe-Cyuan Guo, Chia-Lang Hsu, Min-Shu Hsieh, Chia-Chi Lin, Ta-Chen Huang, Hung-Yang Kuo, Yu-Yun Shao, Chih-Hung Hsu
Summary: This study describes a patient with advanced esophageal squamous cell carcinoma who exhibited a response to durvalumab plus tremelimumab for more than 6 months, except for primary resistant esophageal tumor. The esophageal tumor showed higher levels of regulatory T cells, neutrophils, and mast cells compared to the hepatic tumor. Immunohistochemistry confirmed higher expression levels of Foxp3 and myeloperoxidase (MPO) in the esophageal tumor. The heterogeneous responses to ICI combination may be related to the different immune contextures in this ESCC patient.
Article
Oncology
Yi-Hsin Liang, Kuo-Hsing Chen, Yu-Yun Shao
Summary: Adding anti-EGFR mAb to first-line chemotherapy for KRAS wild-type mCRC is associated with significantly longer overall survival and time to treatment failure, especially in left-sided primary tumors.
Review
Cardiac & Cardiovascular Systems
Yu-Yun Shao, Ching-Liang Ho, Cheng-Shyong Chang, Chia-Lun Chang, Jen-Kuang Lee, Hung-Ju Lin, Hui-Hua Hsiao, Ta-Chung Chao, Ching-Yeh Lin, Chuang -Chi Liaw
Summary: Cancer-associated thrombosis is a common complication of malignancies. Taiwanese patients may have a lower incidence of CAT, leading to false reassurance. Oncologists and cardiologists from multiple medical institutions in Taiwan have collaborated to provide clinical consensus guidelines on the management of CAT, based on local clinical practices and international guidelines.
ACTA CARDIOLOGICA SINICA
(2023)
Article
Radiology, Nuclear Medicine & Medical Imaging
Bang-Bin Chen, Po-Chin Liang, Tiffany Ting-Fang Shih, Tsung-Hao Liu, Ying-Chun Shen, Li-Chun Lu, Zhong-Zhe Lin, Chiun Hsu, Chih-Hung Hsu, Ann-Lii Cheng, Yu-Yun Shao
Summary: Sarcopenia and myosteatosis are independent prognostic factors in patients who received immunotherapy for advanced HCC.
EUROPEAN RADIOLOGY
(2023)
Article
Oncology
Li-Chun Lu, Cecilia Deantonio, Cintia C. Palu, Yi-Hsuan Lee, Laura S. Mitchell, Marianne Cowan, Matthew Corser, Lorcan Sherry, Ann-Lii Cheng, Sonia Quaratino, Yu-Yun Shao, Richard C. A. Sainson, Chih-Hung Hsu
Summary: This study revealed the clinical significance of ICOS-expressing Tregs in hepatocellular carcinoma (HCC). The presence of high-density ICOS+ Tregs in the tumor center and their close proximity to other ICOS+ cells suggested a strong immunosuppressive tumor microenvironment. Furthermore, a high proportion of ICOS+Foxp(3+) cells and shorter distances between ICOS+ Tregs and other ICOS+ cells were associated with poor overall survival, highlighting the potential clinical benefit of depleting ICOS+ Tregs in HCC patients.