Research on the diagnosis model of osteoarthritis based on methylation-related genes using machine learning algorithms by Xu Cui, Houlin Ji, Shengyang Guo, Ju Liu, Linyuan Zhang, Yongwei Jia, Yin Cui, Xiaoxiao Zhou

“…ObjectiveTo construct a diagnostic model of osteoarthritis related to methylation genes using machine learning algorithms, and analyze its prognostic value and biological functions.MethodsThe GSE 63695 and GSE162484 datasets including human osteoarthritis (OA) and normal samples were downloaded from the GEO datasets. The microarray chip data of chondrocytes were analyzed using R software to obtain differentially methylated genes. …”
Get full text

Emerging Target Discovery Strategies Drive the Decoding of Therapeutic Power of Natural Products and Further Drug Development: A Case Study of Celastrol by Yanbei Tu, Guiyu Dai, Yanyan Chen, Lihua Tan, Hanqing Liu, Meiwan Chen

“…Herein, diverse target discovery strategies are overviewed for the pharmacological and toxicological studies of CEL, including chemical proteomics, protein microarray, degradation‐based protein profiling, proteome‐wide label‐free approaches, network pharmacology, target‐based drug screening, multi‐omics analysis, and hypothesis‐driven target confirmation. …”
Get full text

Specific binding of human P[28] rotavirus VP8* protein to blood group ABH antigens on type 1 chains. by Yi Zheng, Xiaoman Sun, Yuting Li, Beibei Huang, Yang Chen, Han Zhou, Cuiyan Cao, Wengang Chai, Zhaojun Duan, Dandi Li, Jingyu Yan, Xinmiao Liang

“…In the present study, using a multiphasic approach, including X-ray crystallography, glycan microarray with a dedicated probe library, bio-layer interferometry, site-specific mutagenesis, and molecular docking and dynamics simulations, we found that P[28]-VP8* can bind to all blood group A, B and H(O) antigens but on type 1 chain only, without the capability to bind to any Lewis epitopes or mucin O-glycan cores. …”
Get full text

Construction of a macrophage-related prognostic signature and assessment of immune checkpoint inhibitor efficacy of HCC by Shouge Zang, Hongwei Chen, Yuqian Han, Di Cui, Jiangtao Yu

“…Functional assays were conducted to assess the effect of PLAUR knockdown on macrophage polarization, tumor cell behavior, and PI3K/AKT/mTOR pathway activity. Tissue microarray immunofluorescence validated PLAUR expression in situ. …”
Get full text

Association of lipoprotein(a) and LPA gene with calcific aortic valve disease by Xinyi Yu, Zean Fu, Minghuan Yu, Yibo Shi

“…Meta-analysis was performed using RevMan and Stata. AVC-related gene microarray data were obtained from the GEO database. …”
Get full text

ALDOB is a prognostic biomarker and a potential immunotherapy target for clear cell renal cell carcinoma by Wu Xu, Dali Wu, Cuilian Li, Lingfei Yan, Bo Peng, Yang Luo, Dawei Liu, Qing Li, Tao Wang

“…Immunohistochemistry (IHC) was applied to identify the ALDOB level in a tissue microarray. Results The expression of ALDOB demonstrated a strong association with pathologic T stage, pathologic N stage, pathologic M stage, histologic grade, and gender. …”
Get full text

Cuproptosis-related signature and immune infiltration in age-related macular degeneration by Chen Li, Yi-Cheng Lu, Ming-Xuan Chen

“…METHODS: The expression profiles of cuproptosis-related genes and immune signature in AMD based on the microarray dataset GSE29801 were analyzed. A total of 142 AMD samples were used to identify the cuproptosis-related differentially expressed genes (Cu-DEGs), together with the immune cell infiltration. …”
Get full text

Association of serum biomarkers with early neurologic improvement after intravenous thrombolysis in ischemic stroke. by Yu Cui, Xin-Hong Wang, Yong Zhao, Shao-Yuan Chen, Bao-Ying Sheng, Li-Hua Wang, Hui-Sheng Chen

“…Preset 49 biomarkers were measured through microarray analysis. Enrichment of gene ontology and pathway, and protein-protein interaction network were analyzed in the identified biomarkers.…”
Get full text

Dengue virus modulates critical cell cycle regulatory proteins in human megakaryocyte cells by Swarnendu Basak, Shovan Dutta, Supreet Khanal, Girish Neelakanta, Hameeda Sultana

“…Our protein profile microarray data showed significant upregulation of several cell cycle regulatory proteins including CDK4, CDK1, Cyclin B1 and others or downregulation of Chk1, GSK3-beta, CUL-3, and E2F-3. …”
Get full text

Cold-inducible RNA-binding protein is associated with subtype-specific breast cancer patient outcomes by Matthew Dankner, Veronique Ouellet, Jakob Lafon, Rima Ezzeddine, Matthew G. Annis, Afnan Abu-Thuraia, Quebec Breast Cancer Foundation Tissue Microarray Consortium, Peter M. Siegel

Get full text

Multi-Omics analysis and in vitro validation reveal diagnostic and therapeutic roles of novel hub genes in ovarian cancer by Jianmin Wang, Guanghui Song, Lili Xing

“…We integrated four GEO microarray datasets (GSE54388, GSE40595, GSE18521, and GSE12470) to identify differentially expressed genes (DEGs) between OC and healthy tissues using the limma package. …”
Get full text

Ectopic overexpression of CD133 in HNSCC makes it resistant to commonly used chemotherapeutics by Junyoung Lee, Mineon Park, Youngjong Ko, Bora Kim, Okjoon Kim, Hoon Hyun, DongHwi Kim, HongMoon Sohn, Young Lae Moon, Wonbong Lim

“…To investigate the role of CD133 in chemoresistance, cell death was analyzed using 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT), Diff-Quick, flow cytometry, and western blot of apoptosis-related protein expression in fluorouracil (5-FU)- or cisplatin-treated cells. In addition, microarray and related protein expression assessments were performed to investigate the mechanism of chemoresistance against 5-FU and cisplatin in KB cells. …”
Get full text

Identification of Novel Biomarkers in Huntington’s Disease Based on Differential Gene Expression Meta-Analysis and Machine Learning Approach by Nayan Dash, Md Abul Bashar, Jeonghan Lee, Raju Dash

“…We performed a meta-analysis to identify DEGs using three Gene Expression Omnibus (GEO) microarray datasets from different platforms related to HD-affected brain tissue, applying both relaxed and strict criteria to identify differentially expressed genes. …”
Get full text

The use of whole genome amplification for genomic evaluation of bovine embryos by K. S. Pantiukh, I. V. Rukin, S. V. Portnov, A. Khatib, S. L. Panteleev, A. M. Mazur

“…The main purpose of this work is to assess the possibility of using embryo biopsy specimens (bsp) for embryo genotyping using microarray chips and predicting the carrier status of lethal haplotypes at the embryo stage. …”
Get full text

MiR-136 inhibits gastric cancer–specific peritoneal metastasis by targeting HOXC10 by Jianyong Zheng, Peng Ge, Xiaonan Liu, Jiangpeng Wei, Guosheng Wu, Xiaohua Li

“…Functions of microRNAs have been characterized in the embryologic, physiologic, and oncogenic processes, but the role of microRNAs in mediating tumor-specific organ metastasis was addressed only recently and still absent in gastric cancer peritoneal metastasis. Here, we used the microarray analysis to define the gastric cancer peritoneal metastasis–related microRNAs from highly peritoneal metastatic derivatives (GC-9811P cells) and the parental GC-9811 human gastric cancer cells. …”
Get full text

Integrated analysis of genomic and transcriptomic profiles identified a prognostic immunohistochemistry panel for esophageal squamous cell cancer by Yue Yu, Zhihua Li, Chenjun Huang, Haisheng Fang, Fei Zhao, Yue Zhou, Xianglong Pan, Qifan Li, Yu Zhuang, Liang Chen, Jing Xu, Wei Wang

“…Methods An integrated analysis was performed to screen and establish a prognostic panel using exome sequencing profile from 81 pairs of ESCC samples and RNA expression microarray data from 119 ESCC subjects. Two independent ESCC cohorts were recruited as training and validation groups to test the prognostic value. …”
Get full text

Potential role of SLC6A3 in neurodevelopmental impairments associated with corpus callosum abnormalities: insights from CNV analysis and clinical phenotyping by Shan-yu Liu, Wei Huang, Hui-lin Ou, Li Wang, Dan-dan Wang, Wei-he Tan, Qin She

“…Methods From January 2021 to July 2023, 13 children with MRI-confirmed CCAs underwent chromosomal microarray analysis (CMA) for CNV detection. We performed bioinformatic analyses (Gene Ontology, STRING network) to identify neurodevelopmental genes within pathogenic CNVs, and clinical follow up assessed neurobehavioral outcomes. …”
Get full text

Molecular docking and MD simulation approach to identify potential phytochemical lead molecule against triple negative breast cancer [version 2; peer review: 1 approved, 2 approved... by Arabinda Ghosh, M Manikandan, Abhinand PA, Dicky John Davis G, Pranaya Sankaranarayanan

“…Methods In this study, we retrieved TNBC samples from NGS and microarray datasets in the Gene Expression Omnibus database. …”
Get full text

Molecular mechanism and biological pathway of high-expressed RAD51 in regulating cell adhesion and potentially affecting oral squamous cell carcinoma by Yu-Xing Tang, Yu-Yan Pang, Yan Cui, Guo-Jiao Wu, Lin-Qing Huang, Chang-Zhan Zhou, Bin Li, Qi Li, Bang-Teng Chi, Rong-Quan He, Di-Yuan Qin, Jian-Di Li, Gang Chen, Dong-Ming Li, Yi-Wu Dang

“…Methods Bulk RNA (RNA-seq and microarray), immunohistochemistry (IHC), and single-cell sequencing (scRNA-seq) were used to assess RAD51 expression and its clinical relevance in OSCC. …”
Get full text

USP7 promotes temozolomide resistance by stabilizing MGMT in glioblastoma by Jiabing Li, Xiaorong Feng, Zhaohui Liu, Yunfang Deng, Zhiming Sun, Bei Chen, Lihui Wu, Xiaolong Wang, Lin Miao, Liyuan Zeng, Lei Hu, Yuming He, Ying Sheng, Yue Liu, Yu Zhao

“…Clinically, tissue microarray analyses reveal that USP7 and MGMT co-overexpression in GBM correlates with poor patient survival. …”
Get full text