Maternal plasma cell-free DNA nucleosome footprints can reveal changes in gene expression profiles during pregnancy and pre-eclampsia by Kun Li, Zhiwei Guo, Fenxia Li, Shijing Lu, Min Zhang, Xingyu Wei, Chao Sheng, Wenbo Hao, Xuexi Yang

“…These results are consistent with prior microarray and RNA-sequencing data. Conclusions The depth of the cfDNA nucleosome footprint in maternal plasma can be used to reflect changes in the gene expression profile during pregnancy and pre-eclampsia. …”
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Identification of Novel circRNA-Based ceRNA Network Involved in the Pathogenesis of Gastric Cancer by Dengfa Peng, Li Feng, Huqing Li

“…Methods. circRNA expression profiles were downloaded from two Gene Expression Omnibus (GEO) microarray datasets, GSE152309 and GSE121445. Expression profiles of miRNAs and mRNAs were collected from The Cancer Genome Atlas (TCGA) database. …”
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Patterns of Human Respiratory Viruses and Lack of MERS-Coronavirus in Patients with Acute Upper Respiratory Tract Infections in Southwestern Province of Saudi Arabia by Ahmed A. Abdulhaq, Vinod Kumar Basode, Anwar M. Hashem, Ahmed S. Alshrari, Nassrin A. Badroon, Ahmed M. Hassan, Tagreed L. Alsubhi, Yahia Solan, Saleh Ejeeli, Esam I. Azhar

“…Nasal swabs were collected from 182 patients and screened for MERS-CoV as well as other respiratory viruses using RT-PCR and multiplex microarray. A total of 75 (41.2%) of these patients had positive viral infection. …”
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Metabolism effector links in diet-induced and genetically-based obesity: A full-transcriptome study of liver tissue in experimental models in rodents by S. A. Apryatin, N. V. Trusov, I. V. Gmoshinski, V. A. Tutelyan

“…Data of full-transcriptome profiling using DNA microarray technology have been presented previously in 8 publications.Results. …”
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Clinicopathologic implications of Myb and Beta-catenin expression in adenoid cystic carcinoma by Susan Park, Manali Vora, Annemieke van Zante, Joseph Humtsoe, Hyun-Su Kim, Sue Yom, Shweta Agarwal, Patrick Ha

“…In this study, we aim to analyze the impact of Myb and β-catenin expression on prognosis in ACC. Methods A tissue microarray constructed from archival tissue from 64 patients with ACC was stained for Myb and β-catenin; both localization and intensity were evaluated. …”
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Involvement of Urokinase-Type Plasminogen Activator Receptor in the Formation of a Profibrotic Microenvironment in the Epicardial Region by K. V. Dergilev, Z. I. Tsokolayeva, I. B. Beloglazova, Yu. D. Vasilets, D. O. Traktuyev, B. N. Kulbitsky, E. V. Parfenova

“…We used histological and immunofluorescent staining, microarray analysis of proinflammatory cytokine levels, and a method for assessing the migratory properties of epicardial cells.Results. …”
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KRT6A, KRT6B, PKP1, and PKP3 as key hub genes in esophageal cancer: A combined bioinformatics and experimental study by Shayan Marhamati, Morvarid Hamrahjoo, Zeinab Seyedkhan, Mahdi Bahmani, Nasrin Ziamajidi, Iraj Khodadadi, Mohadese Pouryani, Roghayeh Abbasalipourkabir

“…In this study, we downloaded the microarray datasets GSE157808 and GSE92396 from the Gene Expression Omnibus (GEO). …”
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CCNY-mediated phosphorylation and TET2-BACH1-driven DNA demethylation activate PRC1 to augment NSCLC progression by Dayu Huang, Xianglin Chu, Chunxiao Wu, Xuan Wang, Mengkun Shi, Xiaofeng Chen, Yubao Lyu, Dapeng Li, Xuyu Gu

“…Subcutaneous xenograft and orthotopic isograft tumor models were generated for in vivo verification. Tissue microarray (TMA) and bioinformatics analyses were employed to evaluate the clinical prognostic value of CCNY, TET2, and PRC1 in NSCLC. …”
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Identification and characterization of the anti-viral interferon lambda 3 as direct target of the Epstein-Barr virus microRNA-BART7-3p by Juliane Blümke, Marcus Bauer, Christoforos Vaxevanis, Andreas Wilfer, Ofer Mandelboim, Claudia Wickenhauser, Barbara Seliger, Simon Jasinski-Bergner

“…To determine novel targets of EBV-miRs involved in immune surveillance, ebv-miR-BART7-3p, an EBV-encoded miR with high expression levels during the different lytic and latent EBV life cycle phases, was overexpressed in human HEK293T cells. Using a cDNA microarray-based comparative analysis, 234 (229 downregulated and 5 upregulated) deregulated human transcripts were identified in ebv-miR-BART7-3p transfectants, which were mainly involved in cellular processes and molecular binding. …”
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Identification of Biomarkers Co-Associated with Lactylation and Acetylation in Systemic Lupus Erythematosus by Zhanyan Gao, Yang Feng, Chenghui Zheng, Fei Li, Zhan Sun, Mengmeng Xiang, Junrong Zhu, Mingyu Chu, Jinhua Xu, Jun Liang

“…This study aimed to identify biomarker genes co-associated with both lactylation and acetylation and to explore their potential mechanisms in SLE pathogenesis. <b>Methods:</b> Microarray data from peripheral blood mononuclear cells (PBMCs) of SLE patients and healthy controls were obtained from the Gene Expression Omnibus (GEO) database. …”
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Exosomal lncRNA profiles in patients with HFrEF: Evidence for KLF3-AS1 as a novel diagnostic biomarker by Lei Wang, Yanan Zhang, Jiapu Wang, Xiao Jiang, Gang Wang, Haixiong Wang, Yan Shu, Han Huiyuan

“…Method: Exosomes were isolated from patients with HFrEF and healthy individuals. We performed microarray analysis of differentially expressed lncRNAs and genes (DELs and DEGs, respectively) associated with HF. …”
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M2BPgs-HCC: An Automated Multilectin Bead Array Indicating Aberrant Glycosylation Signatures Toward Hepatitis C Virus-Associated Hepatocellular Carcinoma Prognosis by Hiroko Shimazaki, Haruki Uojima, Kazumi Yamasaki, Tomomi Obayashi, Sayaka Fuseya, Takashi Sato, Masashi Mizokami, Atsushi Kuno

“…Among 955 patients with HCV who achieved sustained virological response following direct-acting antiviral treatment, we compared M2BP glycosylation from sera of 42 patients diagnosed with HCC during follow-up and 43 without HCC (control) by the lectin microarray. At the HCC observation point, we found significant differences in 17 lectins. …”
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Multimodal spatial proteomic profiling in acute myeloid leukemia by Christopher P. Ly, Ivo Veletic, Christopher D. Pacheco, Enes Dasdemir, Fatima Z. Jelloul, Sammy Ferri-Borgogno, Akshay V. Basi, Javier A. Gomez, Jessica L. Root, Patrick K. Reville, Sonali Jindal, Sreyashi Basu, Padmanee Sharma, Andres E. Quesada, Carlos Bueso-Ramos, Taghi Manshouri, Branko Cuglievan, Miriam Garcia, Jared K. Burks, Hussein A. Abbas

“…We optimized a high-throughput tissue-microarray-based pipeline for high-plex spatial immunofluorescence and mass cytometry imaging on a single slide, capturing immune, tumor, and structural components. …”
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Early diagnosis of acute myocardial infarction via hub genes identified by integrated weighted gene co-expression network analysis by Kun Huang, Feng Wen, Jingyi Li, Wenhao Niu, Hui Chen, Shilei Wan, Fupeng Yang, Yihong Chen, Chun Liang

“…The specific objective of our study was to discover early diagnostic markers of CECs in circulation using bioinformatics analysis. Methods: Raw microarray data of the GSE66360 dataset were acquired from the Gene Expression Omnibus (GEO) database. …”
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Identification of differentially expressed immune-related genes in patients with systemic lupus erythematosus and the development of a hub gene-based diagnostic model by Quangang Fang, Weili Kong, Huaping Zhou, Yilin Pang, Haiyun Liu

“…Methods This study analyzed gene expression data from three GEO microarray datasets to explore immunity-related differentially expressed genes (DEGs) in SLE. …”
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Multi-omics integration reveals functional signatures of gut microbiome in atherosclerosis by Hongbo Shi, Meitao Wu, Xiaoliang Wu, Zhuoxin Liu, Shuo Jiang, Gen Li, Yetong Yang, Yanghe Fu, Qiuping Wang, Guangde Zhang, Liang Cheng

“…We collected all public AS-related 6 microbiome datasets and 8 peripheral blood host transcriptomic datasets from across the world, comprising 456 metagenomic samples and 111 16S rRNA gene sequencing samples for microbial profiling, alongside 118 RNA-Seq samples and 302 microarray samples. We systematically characterized AS microbial taxa and computationally inferred the metabolic potential for the gut microbiome using metabolomic-related data. …”
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Exploration of common pathogenic genes between cerebral amyloid angiopathy and insomnia based on bioinformatics and experimental validation by Xin-Yu Li, Kun Li, Yi-Han Wei, Wen-Kai Yu, Jing-Hao Wu, Kai Gao, Wen-Jun He, Peng-Peng Niu, Chan Zhang, Yu-Nan Cheng, Yu-Sheng Li

“…Blood samples were collected from 11 CAA patients and 11 healthy controls, followed by RNA sequencing (RNA-seq). Additionally, the microarray dataset GSE208668 for the insomnia cohort was downloaded from the Gene Expression Omnibus (GEO) database. …”
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Inhibition of ATG5-mediated autophagy maintains PMAIP1 stability to promote cell apoptosis and suppress triple-negative breast cancer progression by Fangjian Shang, Hongfeng Nie, Liyan Du, Jin Shang, Xiangquan Song, Ya Chen, Hui Li, Zhuo Wang, Yixin Qi, Liyan Zhao

“…Methods TNBC-related datasets were retrieved from The Cancer Genome Atlas and selected by Prediction Analysis of Microarray 50 analysis to assess the expression of PMAIP1 in the samples. …”
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GTSE1, CDC20, PCNA, and MCM6 Synergistically Affect Regulations in Cell Cycle and Indicate Poor Prognosis in Liver Cancer by Yongchang Zheng, Yue Shi, Si Yu, Yuanyuan Han, Kai Kang, Haifeng Xu, Huajian Gu, Xinting Sang, Yang Chen, Jingyu Wang

“…Between GTSE1 knockdown and wild-type HCC cells, we identified 979 differentially expressed genes (520 downregulated and 459 upregulated genes) in the analysis of microarray-based gene expression profiling. Functional enrichment analysis of DEGs suggested that S phase was dysregulated without GTSE1 expression, which was further verified from flow cytometry analysis. …”
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Noninvasive prediction of fetal growth restriction using maternal plasma cell-free RNA: a case-control study by Yihong Huang, Ruizhi Wang, Lixia Shen, Lingyi Kong, Peisong Chen, Zilian Wang, Zhuyu Li

“…Differentially expressed genes (DEGs) between FGR and controls groups were identified through the analysis of cell-free RNA and placental microarray dataset which downloaded from the Gene Expression Omnibus database. …”
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