Association of Body Mass Index with DNA Methylation and Gene Expression in Blood Cells and Relations to Cardiometabolic Disease: A Mendelian Randomization Approach. by Michael M Mendelson, Riccardo E Marioni, Roby Joehanes, Chunyu Liu, Åsa K Hedman, Stella Aslibekyan, Ellen W Demerath, Weihua Guan, Degui Zhi, Chen Yao, Tianxiao Huan, Christine Willinger, Brian Chen, Paul Courchesne, Michael Multhaup, Marguerite R Irvin, Ariella Cohain, Eric E Schadt, Megan L Grove, Jan Bressler, Kari North, Johan Sundström, Stefan Gustafsson, Sonia Shah, Allan F McRae, Sarah E Harris, Jude Gibson, Paul Redmond, Janie Corley, Lee Murphy, John M Starr, Erica Kleinbrink, Leonard Lipovich, Peter M Visscher, Naomi R Wray, Ronald M Krauss, Daniele Fallin, Andrew Feinberg, Devin M Absher, Myriam Fornage, James S Pankow, Lars Lind, Caroline Fox, Erik Ingelsson, Donna K Arnett, Eric Boerwinkle, Liming Liang, Daniel Levy, Ian J Deary

“…<h4>Methods and findings</h4>We conducted an association study of body mass index (BMI) and differential methylation for over 400,000 CpGs assayed by microarray in whole-blood-derived DNA from 3,743 participants in the Framingham Heart Study and the Lothian Birth Cohorts, with independent replication in three external cohorts of 4,055 participants. …”
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Prenatal Diagnosis of Fetal Visceral Situs Abnormalities: A Retrospective Study by Xiaoping Gong, Mingli Lv, Guanjie Wang, Yunyun Cao, Ping Chen, Hui Wang

“…Amniocentesis was performed in 21 (48.84%, 21/43) cases, with both chromosomal karyotyping and chromosomal microarray analyses yielding negative results. Among these cases, 15 underwent whole-exome sequencing (WES), which identified 5 with suspected pathogenic gene variants related to primary ciliary dyskinesia (PCD) and 1 with Holt–Oram syndrome (HOS). …”
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Identification of Hub Biomarkers and Immune and Inflammation Pathways Contributing to Kawasaki Disease Progression with RT-qPCR Verification by Hongjun Ba, Lili Zhang, Huimin Peng, Xiufang He, Yuese Lin, Xuandi Li, Shujuan Li, Ling Zhu, Youzhen Qin, Xing Zhang, Yao Wang

“…Patients and Methods. Gene microarray data were collected from the Gene Expression Omnibus database. …”
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SVseq discloses the genomic complexity of different prenatal, de novo, apparently balanced chromosome rearrangements detected by CMA and karyotype by Shengfang Qin, Xueyan Wang, Chun Chen, Jin Wang, Zhuo Zhang, Yan Yin, Xiangyou Leng

“…Methods Five children with BCRs detected through karyotyping and chromosome microarray analysis (CMA) during prenatal diagnoses were analyzed using SVseq technology. …”
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The genetic spectrum features of 2261 Chinese children with epilepsy and intellectual disability by Nan Pang, Chen Chen, Lifen Yang, Ciliu Zhang, Xiaolu Deng, Li Yang, Leilei Mao, Fangyun Liu, Guoli Wang, Haolin Duan, Xiaole Wang, Fei Yin, Fang He, Jing Peng

“…Methods We provide a clinical and genetic landscape of 2261 Chinese patients performed chromosome microarray analysis (CMA) or next-generation sequencing to uncover causal copy number variants (CNVs) or single-nucleotide variants (SNVs). …”
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Identification of genes and pathways related to lymphovascular invasion in breast cancer patients: A bioinformatics analysis of gene expression profiles by Sukhontip Klahan, Henry Sung-Ching Wong, Shih-Hsin Tu, Wan-Hsuan Chou, Yan-Feng Zhang, Thien-Fiew Ho, Chih-Yi Liu, Shih-Ying Yih, Hsing Fang Lu, Sean Chun-Chang Chen, Chi-Cheng Huang, Wei-Chiao Chang

“…In total, 108 breast cancer samples were collected during surgery and microarray analysis was performed. Significance analysis of the microarrays and limma package for R were used to examine differentially expressed genes between lymphovascular invasion–positive and lymphovascular invasion–negative cases. …”
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Construction of a novel gene signature linked to ferroptosis in pediatric sepsis by Mingyuan Fan, Meiting Chen, Yongqi Gao, Huilin Jiang, Yanling Li, Gongxu Zhu, Shengkuan Chen, Yiming Xu, Xiaohui Chen

“…However, the specific mechanisms of ferroptosis in pediatric sepsis remain unclear.MethodsIn this study, we analyzed microarray datasets from pediatric sepsis and healthy blood samples to identify ferroptosis-associated genes. …”
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Genomic and algorithm-based predictive risk assessment models for benzene exposure by Minyun Jiang, Minyun Jiang, Na Cai, Na Cai, Juan Hu, Lei Han, Lei Han, Fanwei Xu, Baoli Zhu, Baoli Zhu, Baoli Zhu, Baoli Zhu, Boshen Wang

“…AimIn this research, we leveraged bioinformatics and machine learning to pinpoint key risk genes associated with occupational benzene exposure and to construct genomic and algorithm-based predictive risk assessment models.Subject and methodsWe sourced GSE9569 and GSE21862 microarray data from the Gene Expression Omnibus. Utilizing R software, we performed an initial screen for differentially expressed genes (DEGs), which was followed by the enrichment analyses to elucidate the affected functions and pathways. …”
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HDAC1 Mediates Immunosuppression of the Tumor Microenvironment in Non-Small Cell Lung Cancer by Fan Y, Ji X, Yuan K, Wu Q, Lou M

“…However, there are no studies on the immunological aspects of HDAC1 in non-small cell lung cancer (NSCLC).Methods: In this research, we used the Cancer Genome Atlas (TCGA) public database combined with tissue microarray (TMA) to investigate HDAC1 expression and prognosis in NSCLC. …”
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Bayesian inference towards the resolution of molecular evolution: application to the “Trichoderma harzianum sensu lato” clade by Druzhinina I S, Kubicek C P

“…The clade containing the ex-neotype strain of T. harzianum included exclusively clonally propagating isolates from temperate climates, and was clearly distinguished from all other “H. lixii/T. harzianum” lineages by multivariate analysis of phenotype microarray data. We propose that only this lineage should be regarded as T. harzianum sensu stricto, and that the other lineages be regarded as T. harzianum sensu lato until phenetic characters have been defined which allow their description as separate taxa.…”
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Biomarker discovery for non-invasive diagnosis of inflammatory bowel disease using blood transcriptomics by Mohammad Hossein Derakhshan Nazari, Mahsa Ghorbaninejad, Shabnam Shahrokh, Anna Meyfour

“…To enable non-invasive diagnosis, we aimed to identify blood-based transcriptomic biomarkers that specifically distinguish IBD from healthy and inflammatory controls.MethodsPublic microarray and RNA-seq datasets from whole blood of IBD, rheumatoid arthritis (RA), and control subjects were analyzed. …”
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Prognostic effect of immunohistochemically determined molecular subtypes in gastric cancer by Jefim Brodkin, Tuomas Kaprio, Jaana Hagström, Alli Leppä, Arto Kokkola, Caj Haglund, Camilla Böckelman

“…We constructed a tumour tissue microarray immunostained for the following markers: microsatellite instability (MSI) markers MSH2, MSH6, MLH1, and PMS2; p53; E-cadherin; and EBERISH. …”
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Epigenetic regulation of TNNT1 in gastrointestinal cancers prognostic implications and clinical significance by Jin Xie, Xin-Yang Qu, Rui-Min Wu, Jie Liu, Fan Cheng, Yu Zhang, Xu-Sheng Liu

“…TNNT1 protein levels were analyzed through immunohistochemistry (IHC) on tissue microarray (TMA) sections. Results Our findings demonstrate that TNNT1 is significantly overexpressed in tumor tissues compared to normal tissues, with elevated expression levels correlating with poor prognosis specifically in colon adenocarcinoma (COAD), liver hepatocellular carcinoma and pancreatic adenocarcinoma. …”
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Gene Expression Profile Reveals Abnormalities of Multiple Signaling Pathways in Mesenchymal Stem Cell Derived from Patients with Systemic Lupus Erythematosus by Yu Tang, Xiaolei Ma, Huayong Zhang, Zhifeng Gu, Yayi Hou, Gary S. Gilkeson, Liwei Lu, Xiaofeng Zeng, Lingyun Sun

“…We aimed to compare bone-marrow-derived mesenchymal stem cells (BMMSCs) between systemic lupus erythematosus (SLE) and normal controls by means of cDNA microarray, immunohistochemistry, immunofluorescence, and immunoblotting. …”
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Transcriptomic Analysis of the Liver Redox Response During Food-Anticipatory Activity Under a Time-Restricted Feeding Protocol in Rats by Adrián Báez-Ruiz, Andy Hernández-Abrego, Mauricio Díaz-Muñoz, Isabel Méndez

“…FAA encompasses not only behaviors related to meal expectations but also includes diurnal fluctuations in liver metabolic responses, including distinct redox handling. Hepatic microarray profiles of genes associated with redox response processes were analyzed at three crucial time points: at the beginning of the light period or before FAA (08:00 h), during the expression of FAA (11:00 h), and after feeding (14:00 h). …”
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Activation of PTGS2/NF‐κB signaling pathway enhances radiation resistance of glioma by Cheng Tan, Liang Liu, Xiaoyang Liu, Ling Qi, Weiyao Wang, Guifang Zhao, Libo Wang, Yimeng Dai

“…Methods We downloaded the microarray data from the Gene Expression Omnibus (GEO) database. …”
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The preoperative neutrophil‐to‐lymphocyte ratio is not a marker of prostate cancer characteristics but is an independent predictor of biochemical recurrence in patients receiving r... by Zhi Cao, Jin Ji, Chao Zhang, Fubo Wang, Huan Xu, Yongwei Yu, Yinghao Sun

“…A total of 994 subjects were retrospectively enrolled, and the histological specimens of 210 patients were retrieved for constructing a tissue microarray. Immunohistochemistry was then performed to assess the expression of AR, ERG, PTEN, p‐AKT, Bcl‐2, Beclin‐1, Ki‐67, CD3, CD4, CD8, IFN‐γ and TNF‐α. …”
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Elucidating the immune infiltration in acne and its comparison with rosacea by integrated bioinformatics analysis. by Lu Yang, Yan-Hong Shou, Yong-Sheng Yang, Jin-Hua Xu

“…<h4>Methods</h4>Five microarray data-sets (GSE108110, GSE53795, GSE65914, GSE14905 and GSE78097) were downloaded from Gene Expression Omnibus. …”
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MicroRNAs targeting oncogenes are down-regulated in pancreatic malignant transformation from benign tumors. by Long R Jiao, Adam E Frampton, Jimmy Jacob, Loredana Pellegrino, Jonathan Krell, Georgios Giamas, Nicole Tsim, Panagiotis Vlavianos, Patrizia Cohen, Raida Ahmad, Andreas Keller, Nagy A Habib, Justin Stebbing, Leandro Castellano

“…MiRNA profiling was performed using a custom microarray and results were validated using RT-qPCR prior to evaluation of miRNA targets.…”
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Prognostic and immunotherapeutic potential of disulfidptosis-associated signature in pancreatic cancer by Ran Cui, Gaoming Wang, Renhao Hu, Yongkun Wang, Huiling Mu, Yanxiang Song, Bo Chen, Xiaohua Jiang

“…Our investigation aims to elucidate the significance of disulfidptosis in pancreatic ductal adenocarcinoma by integrating diverse datasets, including bulk RNA sequencing data, microarray profiles, single-cell transcriptome profiles, spatial transcriptome data, and biospecimens. …”
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