Ping Wu, Huatao Quan, Jing Kang, Jian He, Shi Luo, Chubo Xie, Jing Xu, Yaoyun Tang, Suping Zhao

Oncology Research, Vol.25, No.9, pp. 1479-1488, 2017, DOI:10.3727/096504017X14886420642823

Abstract Hypopharyngeal cancer (HPC) frequently presents at an advanced stage and displays early submucosal spread, resulting in a poor prognosis. It is among the worst of all cancers in the head and neck subsites. Therefore, detection of HPC at an earlier stage would be beneficial to patients. In this study, we used differential in-gel electrophoresis (DIGE) and two-dimensional polyacrylamide gel electrophoresis (2-DE) proteomics analysis to identify the potential biomarkers for HPC. Among the differential proteins identified, calcium-binding protein S100A9 was overexpressed in HPC tissues compared with normal adjacent tissues, and S100A9 expression in metastatic tissues and… More >

Bairu Li¹, Jingyu Jia¹, Hemin Wang¹, Jiaju Sun¹, Enyan Chen¹, Xin Li^1,2,3,*

Phyton-International Journal of Experimental Botany, Vol.93, No.5, pp. 885-900, 2024, DOI:10.32604/phyton.2024.050450

Abstract Trypsin, a novel superoxide scavenger, significantly enhances the storage quality of Hylocereus undatus (H. undatus). To elucidate the preservation mechanism of trypsin on H. undatus, a widely targeted metabolomic analysis, and transcriptomics analysis were conducted. Firstly, a total of 453 metabolites were identified, with organic acids and their derivatives constituting the largest proportion (25%). Amino acids and their metabolites, prominent among organic acids, were further analyzed. Among them, 73 metabolites were associated with amino acids, and 37 exhibited significant differences. The most enriched Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway was arginine biosynthesis (map00220), with polyamine metabolites… More >

Zhigao Zeng^1,2, Aoting Tang^1,2, Shengqiu Yi^1,2, Xinpan Yuan^1,2, Yanhui Zhu^1,2,*

CMC-Computers, Materials & Continua, Vol.79, No.2, pp. 2277-2293, 2024, DOI:10.32604/cmc.2024.047989

Abstract Radiomics is a non-invasive method for extracting quantitative and higher-dimensional features from medical images for diagnosis. It has received great attention due to its huge application prospects in recent years. We can know that the number of features selected by the existing radiomics feature selection methods is basically about ten. In this paper, a heuristic feature selection method based on frequency iteration and multiple supervised training mode is proposed. Based on the combination between features, it decomposes all features layer by layer to select the optimal features for each layer, then fuses the optimal features More >

Di Hu¹, Shouli Yi^1,*, Di Lin², Suping Gao³, Ting Lei³, Wenji Li⁴, Tingdan Xu¹, Songlin Jiang¹

Phyton-International Journal of Experimental Botany, Vol.93, No.4, pp. 681-697, 2024, DOI:10.32604/phyton.2024.049166

Abstract In plants, heteromorphic self-incompatibility (HetSI) is a strategy for avoiding self-pollination and promoting outcrossing, and during this process, numerous protein-protein interaction events occur between the pistil and pollen. Previous studies in Primula and Fagopyrum that focused on HetSI systems have provided interesting insights; however, the molecular mechanism underlying HetSI remains largely unknown. In this study, we profiled the proteome of Plumbago auriculata stigmas before and after self-incompatible (SI) and self-compatible (SC) pollination. Comparative analyses were conducted by 4D-DIA (Four-dimensional data independent acquisition), a promising technology that increases the sensitivity and reduces the spectral complexity of proteomic analysis… More >

Jingtao Hu¹, Wenjing Chen¹, Yanyan Duan¹, Yingjing Ru¹, Wenqing Cao¹, Pingwei Xiang², Chengzhi Huang², Li Zhang², Jingsheng Chen¹, Liping Gan^1,*

Phyton-International Journal of Experimental Botany, Vol.93, No.2, pp. 227-245, 2024, DOI:10.32604/phyton.2024.046521

Abstract Abiotic stress, including flooding, seriously affects the normal growth and development of plants. Mulberry (Morus alba), a species known for its flood resistance, is cultivated worldwide for economic purposes. The transcriptomic analysis has identified numerous differentially expressed genes (DEGs) involved in submergence tolerance in mulberry plants. However, a comprehensive analyses of metabolite types and changes under flooding stress in mulberry remain unreported. A non-targeted metabolomic analysis utilizing liquid chromatography-tandem mass spectrometry (LC-MS/MS) was conducted to further investigate the effects of flooding stress on mulberry. A total of 1,169 metabolites were identified, with 331 differentially accumulated metabolites… More >

XIN MENG^*, YAN LIU, SHUJUN XU, LIANRONG YANG, RUI YIN

BIOCELL, Vol.48, No.1, pp. 65-78, 2024, DOI:10.32604/biocell.2023.045986

Abstract Over the past decade, the swift advancement of metabolomics can be credited to significant progress in technologies such as mass spectrometry, nuclear magnetic resonance, and multivariate statistics. Currently, metabolomics garners widespread application across diverse fields including drug research and development, early disease detection, toxicology, food and nutrition science, biology, prescription, and chinmedomics, among others. Metabolomics serves as an effective characterization technique, offering insights into physiological process alterations in vivo. These changes may result from various exogenous factors like environmental conditions, stress, medications, as well as endogenous elements including genetic and protein-based influences. The potential scientific outcomes More > Graphic Abstract

HONGYUAN LIANG^1,#, YANQIU LI^2,#, YONGGANG QU³, LINGYUN ZHANG^4,*

Oncology Research, Vol.32, No.2, pp. 393-407, 2024, DOI:10.32604/or.2023.031134

Abstract Advanced LUAD shows limited response to treatment including immune therapy. With the development of sequencing omics, it is urgent to combine high-throughput multi-omics data to identify new immune checkpoint therapeutic response markers. Using GSE72094 (n = 386) and GSE31210 (n = 226) gene expression profile data in the GEO database, we identified genes associated with lung adenocarcinoma (LUAD) death using tools such as “edgeR” and “maftools” and visualized the characteristics of these genes using the “circlize” R package. We constructed a prognostic model based on death-related genes and optimized the model using LASSO-Cox regression methods.… More >

Khalid Rehman Hakeem^1,2,3,*, Hesham F. Alharby¹, M. Irfan Qureshi⁴

Phyton-International Journal of Experimental Botany, Vol.92, No.12, pp. 3323-3344, 2023, DOI:10.32604/phyton.2023.030212

Abstract

Abiotic stresses, including drought, have been found to affect the growth and medicinal quality of numerous herbs. The proposed study aims to study the effects of different drought regimes on the metabolic profile, growth, ecophysiology, cellular antioxidants, and antioxidant potential of Nigella sativa (Black cumin) leaf. Forty-day-old seedlings of N. sativa were exposed to three regimes of drought (control, moderate and high) for a week. UPLC-MS/MS metabolic profile of the leaf reveals the presence of more than a hundred metabolites belonging to anthocyanins, chalcones, dihydro flavonoids, flavonoids, flavanols, flavones, flavonoid carbonoside, isoflavones, etc. Drought was found to

More >

GERWIN HELLER^1,*, THORSTEN FUEREDER¹, ALEXANDER MICHAEL GRANDITS¹, ROTRAUD WIESER^1,2,*

Oncology Research, Vol.32, No.1, pp. 1-17, 2024, DOI:10.32604/or.2023.044774

Abstract Head and neck squamous cell carcinoma (HNSCC) is one of the most frequent cancers worldwide. The main risk factors are consumption of tobacco products and alcohol, as well as infection with human papilloma virus. Approved therapeutic options comprise surgery, radiation, chemotherapy, targeted therapy through epidermal growth factor receptor inhibition, and immunotherapy, but outcome has remained unsatisfactory due to recurrence rates of ~50% and the frequent occurrence of second primaries. The availability of the human genome sequence at the beginning of the millennium heralded the omics era, in which rapid technological progress has advanced our knowledge… More >

Libo Xie¹, Xue Wang¹, Luxiang Liu^2,*, Chunmei Xu¹, Yongdun Xie², Hongchun Xiong², Xinchun Han³, Mu Guo¹

Phyton-International Journal of Experimental Botany, Vol.92, No.11, pp. 2947-2964, 2023, DOI:10.32604/phyton.2023.042919

Abstract Hot pepper (Capsicum annuum L.) is consumed as one of the oldest domesticated crops all over the world. Although mutation breeding using radiation has been performed in hot peppers, little is known about the comparative analysis of mutagenic effects at the molecular level by ion beam irradiation. To comprehend the response mechanism of hot pepper to the ion beam, we used a mutant with favorable economic characteristics induced by lithium-ion beam irradiation to investigate the biological effects. The results indicated that the lithium-ion beam had a positive effect on important agronomic traits, particularly yield unit, but… More >