Contribution of genetic variants to congenital heart defects in both singleton and twin fetuses: a Chinese cohort study by Shaobin Lin, Shanshan Shi, Jian Lu, Zhiming He, Danlun Li, Linhuan Huang, Xuan Huang, Yi Zhou, Yanmin Luo

“…We performed chromosomal microarray analysis on all cases to detect numerical chromosomal abnormalities (NCAs) and pathogenic/likely pathogenic CNVs (P/LP CNVs) and employed whole-exome sequencing for some cases without NCAs and P/LP CNVs to detect P/LP sequence variants (P/LP SVs). …”
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Establishment of a 12-gene expression signature to predict colon cancer prognosis by Dalong Sun, Jing Chen, Longzi Liu, Guangxi Zhao, Pingping Dong, Bingrui Wu, Jun Wang, Ling Dong

“…The predictive performance of the 12-gene signature was validated with two independent gene expression microarray datasets: GSE39582 includes 566 COAD cases for the development of six molecular subtypes with distinct clinical, molecular and survival characteristics; GSE17538 is a dataset containing 232 colon cancer patients for the generation of a metastasis gene expression profile to predict recurrence and death in COAD patients. …”
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Accounting for intensity variation in image analysis of large‐scale multiplexed clinical trial datasets by Anja L Frei, Anthony McGuigan, Ritik RAK Sinha, Mark A Glaire, Faiz Jabbar, Luciana Gneo, Tijana Tomasevic, Andrea Harkin, Tim J Iveson, Mark Saunders, Karin Oein, Noori Maka, Francesco Pezella, Leticia Campo, Jennifer Hay, Joanne Edwards, Owen J Sansom, Caroline Kelly, Ian Tomlinson, Wanja Kildal, Rachel S Kerr, David J Kerr, Håvard E Danielsen, Enric Domingo, TransSCOT Consortium, David N Church, Viktor H Koelzer

“…We analysed 12,592 tissue microarray (TMA) spots from 3,545 colorectal cancers sourced from more than 240 institutions in two clinical trials (QUASAR 2 and SCOT) stained for CD4, CD8, CD20, CD68, FoxP3, pan‐cytokeratin, and DAPI by mIF. …”
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Downregulation of the enhancer of zeste homolog 1 transcriptional factor predicts poor prognosis of triple-negative breast cancer patients by Wei Peng, Wei Tang, Jian-Di Li, Rong-Quan He, Jia-Yuan Luo, Zu-Xuan Chen, Jiang-Hui Zeng, Xiao-Hua Hu, Jin-Cai Zhong, Yang Li, Fu-Chao Ma, Tian-Yi Xie, Su-Ning Huang, Lian-Ying Ge

“…Methods To determine the expression status of EZH1/EZH2 in TNBC tissue samples, microarray analysis and immunohistochemistry were performed on in house breast cancer tissue samples. …”
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mRNA, lncRNA, and circRNA expression profiles in a new aortic dissection murine model induced by hypoxia and Ang II by Yuanyuan Li, Yuanyuan Li, Xiaozhu Ma, Shuai Mei, Yueping Ji, Dong Wang, Liqun He, Dating Sun, Dating Sun, Jiangtao Yan

“…The SBC mouse ceRNA microarray was used to identify significantly differentially expressed (DE) mRNAs, DE long-non-coding RNAs (DElncRNAs), and DE circular RNAs (DEcircRNAs) in OSA-AD tissues. …”
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Identification of a Favorable Prognostic Subgroup in Oral Squamous Cell Carcinoma: Characterization of ITGB4/PD-L1^high with CD8/PD-1^high by Si-Rui Ma, Jian-Feng Liu, Rong Jia, Wei-Wei Deng, Jun Jia

“…A Multiplex immunohistochemistry (OPAL™, mIHC) assay was employed to stain ITGB4, ALDH1, PD-L1, cytokeratin (CK), CD8 and PD-1 in a human OSCC tissue microarray, containing 26 normal oral epithelium samples, 21 oral epithelium dysplasia samples and 76 OSCC samples. …”
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The integrative multi-omics approach identifies the novel competing endogenous RNA (ceRNA) network in colorectal cancer by Ghanbar Mahmoodi Chalbatani, Elahe Gharagouzloo, Mohammad Amin Malekraeisi, Paniz Azizi, Amirabbas Ebrahimi, Michael R. Hamblin, Habibollah Mahmoodzadeh, Eyad Elkord, Seyed Rohollah Miri, Mohammad Hossein Sanati, Bahman Panahi

“…Topological analysis of candidate genes using a network approach identified the most critical hub genes and subnetworks related to CRC disease. Microarray and bulk RNA sequencing analyses were utilized to comprehensively evaluate the expression levels of both miRNA and mRNA in CRC. …”
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CDKN2A-p16 Deletion and Activated KRASG12D Drive Barrett’s-Like Gland Hyperplasia-Metaplasia and Synergize in the Development of Dysplasia Precancer LesionsSummary by Jing Sun, Jorge L. Sepulveda, Elena V. Komissarova, Caitlin Hills, Tyler D. Seckar, Narine M. LeFevre, Hayk Simonyan, Colin Young, Gloria Su, Armando Del Portillo, Timothy C. Wang, Antonia R. Sepulveda

“…Gene expression was determined by microarray, RNA sequencing, and immunohistochemistry of SCJ tissues and cultured 3-dimensional organoids. …”
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Intercellular adhesion molecule 2 as a novel prospective tumor suppressor induced by ERG promotes ubiquitination-mediated radixin degradation to inhibit gastric cancer tumorigenici... by Xiaocheng Tang, Jintuan Huang, Yingming Jiang, Jun Qiu, Tuoyang Li, Weiyao Li, Zijian Chen, Zhenze Huang, Xihu Yu, Tao Yang, Xiang Ji, Rongchang Tan, Li lv, Zuli Yang, Hao Chen

“…Immunohistochemical analyses were conducted on a GC tissue microarray to quantify ICAM2 expression and explore its implication on the prognosis of GC patients. …”
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The Expression of Anti-Müllerian Hormone Type II Receptor (AMHRII) in Non-Gynecological Solid Tumors Offers Potential for Broad Therapeutic Intervention in Cancer by Jean-Marc Barret, André Nicolas, Anne Jarry, Olivier Dubreuil, Didier Meseure, Tilda Passat, Emeline Perrial, Cécile Deleine, Gabriel Champenois, Solenne Gaillard, Emilie Duchalais, Isabelle Ray-Coquard, Mehdi Lahmar, Charles Dumontet, Jaafar Bennouna, Céline Bossard, Sergio Roman-Roman, Jean-François Prost

“…By performing ISH on tissue microarray of solid tumor samples AMHRII mRNA was unexpectedly detected in several non-gynecological primary cancers including lung, breast, head and neck, and colorectal cancers. …”
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Loss of cytochrome P450 (CYP)1B1 mitigates hyperoxia response in adult mouse lung by reprogramming metabolism and translation by Sandra L. Grimm, Rachel E. Stading, Matthew J. Robertson, Tanmay Gandhi, Chenlian Fu, Weiwu Jiang, Guobin Xia, Krithika Lingappan, Cristian Coarfa, Bhagavatula Moorthy

“…Transcriptomic profiling was conducted using the Illumina microarray platform. Hyperoxia exposure led to robust changes in gene expression and in the same direction in WT, Cyp1a1-, Cyp1a2-, and Cyp1b1-null mice, but to different extents for each mouse genotype. …”
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Phenomics and Genomics Reveal Adaptation of Virgibacillus dokdonensis Strain 21D to Its Origin of Isolation, the Seawater-Brine Interface of the Mediterranean Sea Deep Hypersaline... by Zahraa Zeaiter, Ramona Marasco, Jenny M. Booth, Erica M. Prosdocimi, Francesca Mapelli, Matteo Callegari, Marco Fusi, Grégoire Michoud, Francesco Molinari, Daniele Daffonchio, Sara Borin, Elena Crotti

“…Vegetative cells of strain 21D showed the ability to grow in the presence of high concentrations of MgCl2, such as 14.28% corresponding to 1.5 M. Biolog phenotype MicroArray (PM) was adopted to investigate the strain phenotype, with reference to carbon energy utilization and osmotic tolerance. …”
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miR-155 down-regulation protects the heart from hypoxic damage by activating fructose metabolism in cardiac fibroblasts by Yu Zhang, Hong Zhang, Zhan Yang, Xin-hua Zhang, Qing Miao, Min Li, Tian-ying Zhai, Bin Zheng, Jin-kun Wen

“…Methods: Immunostaining, western blot and quantitative real-time reverse transcription PCR (qRT-PCR) were performed to detect the expression of glucose transporter 5 (GLUT5), ketohexokinase (KHK)-A and KHK-C in miR-155−/− and miR-155wt CFs under normoxia or hypoxia. A microarray analysis of circRNAs was performed to identify circHIF1α. …”
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Copy Number Alteration and Mutational Profile of High-Grade B-Cell Lymphoma with <i>MYC</i> and <i>BCL2</i> and/or <i>BCL6</i> Rearrangements, Diffuse Large B-Cell Lymphoma with <i... by Masashi Miyaoka, Yara Yukie Kikuti, Joaquim Carreras, Atsushi Ito, Haruka Ikoma, Sakura Tomita, Hiroshi Kawada, Giovanna Roncador, Silvia Bea, Elias Campo, Naoya Nakamura

“…The analysis used whole-genome copy number microarray analysis (OncoScan) and a custom-made next-generation sequencing (NGS) panel of 115 genes associated with aggressive B-cell lymphomas. …”
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DNA methylation profiles differ in responders versus non-responders to anti-PD-1 immune checkpoint inhibitors in patients with advanced and metastatic head and neck squamous cell c... by Matthias Preusser, Anna Sophie Berghoff, Thorsten Fuereder, Leonhard Müllauer, Gerwin Heller, Angelika Martina Starzer, Katharina Feldmann, Erwin Tomasich, Teresa Hatziioannou, Stefan Traint, Thomas Melchardt, Christoph Minichsdorfer, Ursula Schwarz-Nemec, Maja Nackenhorst

“…Median progression-free survival and median overall survival times were 3.7 months (range 0–22.9) and 9.0 months (range 0–38.8), respectively. Microarray analyses revealed a methylation signature including both hypomethylation and hypermethylation which was predictive for response to ICI and included several genes involved in cancer-related molecular pathways. …”
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Targeting <i>PSEN1</i> by lnc-CYP3A43-2/miR-29b-2-5p to Reduce β Amyloid Plaque Formation and Improve Cognition Function by Wei Wuli, Shinn-Zong Lin, Shee-Ping Chen, Bakhos A. Tannous, Wen-Sheng Huang, Peng Yeong Woon, Yang-Chang Wu, Hsueh-Hui Yang, Yi-Cheng Chen, Renata Lopes Fleming, Jack T. Rogers, Catherine M. Cahill, Tsung-Jung Ho, Tzyy-Wen Chiou, Horng-Jyh Harn

“…This article aims to investigate the possible mechanisms through which BP ameliorates the development of Alzheimer’s disease (AD) and verify the effectiveness of BP through animal experiments. Results from RNA microarray analysis showed that BP treatment in Ts21 iPSC-derived neuronal cells reduced long noncoding RNA (lncRNA) CYP3A43-2 levels and increased microRNA (miR)-29b-2-5p levels. …”
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Untargeted metabolomics yields insight into extramammary Paget’s disease mechanisms by Long Jiang, Long Jiang, Xiaoxiang Xu, Xiaoxiang Xu, Guorong Yan, Guorong Yan, Guorong Yan, Yuhao Wu, Yuhao Wu, Yuhao Wu, Ningyuan Xi, Ningyuan Xi, Yongxian Lai, Yongxian Lai, Guolong Zhang, Guolong Zhang, Guolong Zhang, Yeqiang Liu, Yeqiang Liu

“…In order to further investigate the potential relationship between metabolites and gene expression, we re-analyzed the gene expression microarray data (GSE117285) using differential expression analysis and functional enrichment analyses.ResultsResults showed that a total of 896 metabolites were identified and 87 metabolites including 37 upregulated and 50 downregulated significantly in EMPD were sought out. …”
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Calycosin induces autophagy and apoptosis via Sestrin2/AMPK/mTOR in human papillary thyroid cancer cells by Na Qu, Na Qu, Na Qu, Junsheng Qu, Na Huang, Na Huang, Kexin Zhang, Kexin Zhang, Tongtong Ye, Tongtong Ye, Junfeng Shi, Junfeng Shi, Bing Chen, Chengxia Kan, Chengxia Kan, Jingwen Zhang, Jingwen Zhang, Fang Han, Fang Han, Fang Han, Ningning Hou, Xiaodong Sun, Xiaodong Sun, Ruiyan Pan

“…The cells were also performed by whole transcriptome microarray bioinformatics analysis. Apoptosis and autophagy-related markers or proteins were measured by qRT-PCR or western blot. …”
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YY1 complex in M2 macrophage promotes prostate cancer progression by upregulating IL-6 by Lihua Zhang, Ming Chen, Shenghong Ju, Kai Lu, Bin Xu, Wenchao Li, Saisai Chen, Jianping Wu, Yue Hou, Zonghao You, Chuanjun Shu, Xiaoying Wei, Tiange Wu, Naipeng Shi, Guangyuan Zhang, Shuqiu Chen, Dingxiao Zhang

“…Background Tumor-associated macrophages are mainly polarized into the M2 phenotype, remodeling the tumor microenvironment and promoting tumor progression by secreting various cytokines.Methods Tissue microarray consisting of prostate cancer (PCa), normal prostate, and lymph node metastatic samples from patients with PCa were stained with Yin Yang 1 (YY1) and CD163. …”
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Genomic selection analysis of morphological and adaptation traits in Chinese indigenous dog breeds by Yangfeng Li, Min Huang, Zhenjie Wang, Xueyuan Liu, Shan He, Shan He, Tao Wang, Baicheng Ma, Jianyun Liu, Jianyun Liu, Xingnuan Li, Jianjun Xiong, Jianjun Xiong, Jinlian Hua, Junhua Ye, Anmin Lei, Qianyong Yang, Qianyong Yang, Qianyong Yang

“…In this study, the run of homozygosity (ROH) and proportion of the autosomal genome covered by ROHs (FROH) were calculated for 10 dog breeds that are the most representative Chinese indigenous dogs based on 170K SNP microarray. The results of FROH showed that the Chuandong hound dogs (HCSSC) have the highest level of inbreeding among the tested breeds. …”
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