Effect of Storage Temperature on Key Functions of Cultured Retinal Pigment Epithelial Cells by Lara Pasovic, Jon Roger Eidet, Berit S. Brusletto, Torstein Lyberg, Tor P. Utheim

“…Total RNA was isolated and the gene expression profile was determined using DNA microarrays. Comparison of the microarray expression values with qRT-PCR analysis of selected genes validated the results. …”
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Bioinformatics analysis and preliminary validation of autophagy-related genes in asthma disease by Bo Sun, Huiman Huang, Ran An, Bing Wei, Xiaozhe Yue

“…WB and qRT-PCR results showed that the expression levels of TP53, SQSTM1/p62 and ATG5 in the asthma group and healthy control group were consistent with the bioinformatics analysis of the mRNA microarrays, and the dexamethasone (Dex) treatment group was able to inhibit autophagy of cells and affect the expression levels of TP53, SQSTM1/p62 and ATG5 in the lung tissue of asthmatic mice. …”
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SUMOYLATION AS AN EARLY ADAPTIVE MECHANISM IN THE PROTEOMIC RESPONSE OF HUMAN GERM CELLS TO SIMULATED MICROGRAVITY

“…This study analyses the effects of simulated microgravity (SμG) and hypogravity (ShG) on different pathways including SUMOylation (Small Ubiquitin-like Modifier) in human male germ cell line TCam-2, combining Reverse-Phase Protein microArrays (RPPA) and immunofluorescence. SUMO isoforms 1–4 are members of ubiquitin-related protein family that regulate transcription factors, DNA repair, cytoskeleton dynamics, stress, proliferation, and apoptosis responses[1-2. …”
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Gene signature based on degradome-related genes can predict distal metastasis in cervical cancer patients by Jorge Fernandez-Retana, Horacio Zamudio-Meza, Miguel Rodriguez-Morales, Abraham Pedroza-Torres, David Isla-Ortiz, Luis Herrera, Nadia Jacobo-Herrera, Oscar Peralta-Zaragoza, César López-Camarillo, Fermin Morales-Gonzalez, David Cantu de Leon, Carlos Pérez-Plasencia

“…In this study, we used high-density microarrays and quantitative reverse transcriptase polymerase chain reaction to evaluate the degradome profile and their inhibitors in 112 samples of patients diagnosed with locally advanced cervical cancer. …”
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Comparison of substrate specificity of the ubiquitin ligases Nedd4 and Nedd4‐2 using proteome arrays by Avinash Persaud, Philipp Alberts, Eva M Amsen, Xuejian Xiong, James Wasmuth, Zachary Saadon, Chris Fladd, John Parkinson, Daniela Rotin

“…We performed in vitro ubiquitylation and binding assays of human Nedd4‐1 and Nedd4‐2, and rat‐Nedd4‐1, using protein microarrays spotted with ∼8200 human proteins. Top hits (substrates) for the ubiquitylation and binding assays mostly contain PY motifs. …”
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Infiltration of CD3+ and CD8+ lymphocytes in association with inflammation and survival in pancreatic cancer. by Gerik W Tushoski-Alemán, Kelly M Herremans, Patrick W Underwood, Ashwin Akki, Andrea N Riner, Jose G Trevino, Song Han, Steven J Hughes

“…<h4>Methods</h4>Tissue microarrays were immunohistochemically stained for CD3+ and CD8+ lymphocytes and quantitatively assessed using QuPath. …”
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Functional characteristics of fresh antitumor immune interferer GDF-15 in multiple cancers by Min Fang, Ziyu Wang, Yuxin Zhou, Fengrui Yang, Zhu Wu, Jian Xiao

“…Besides, immunohistochemistry (IHC)-based tissue microarray analysis of LUAD validated GDF-15 protein expression and its correlation with survival prognosis. …”
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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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Expression and prognostic value of EGF-like domain multiple 6 in uterine corpus endometrial carcinoma and its correlation with immune cell infiltration by Qiannan Li, Nuerbiya Muheteer, Gulibositan Ayoufu, Xieerwaniguli Abulimiti, Ayimuguli Aini, Bingjie Han, Reyila Fulati, Mieradilijiang Ainiwaer, Ainiwaerjiang Abudourousuli

“…Immunohistochemistry was performed using UCEC tissue microarrays to assess EGFL6 expression. The Kaplan-Meier method and Cox regression analyses were used to evaluate the prognostic significance of EGFL6. …”
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Multi-platform integration of histopathological images and omics data predicts molecular features and prognosis of hepatocellular carcinoma by Linyan Chen, Yang Li, Zhiyuan Zhang, Tongshu Yang, Hao Zeng

“…Areas under receiver operating characteristic curves (AUCs) were assessed for 1-year, 3-year, and 5-year overall survival (OS).ResultsHistopathological image features were able to predict somatic mutations: TERT promoter (AUC = 0.926), TP53 (AUC = 0.893), CTNNB1 (AUC = 0.885), ALB (AUC = 0.879), molecular subtypes (AUCs from 0.905 to 0.932), and OS (5-year AUC = 0.819) in the testing set, which also had good performances for OS in the external validation sets of tissue microarrays from 263 patients (5-year AUCs from 0.682 to 0.761). …”
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Pan-cancer landscape of ITGAV and its potential role in gastric cancer by Bin Ke, Peng Jin, Xue-Jun Wang, Ru-peng Zhang, Ning Liu, Gang Ma

“…Gene enrichment analysis was performed to explore potential functions of ITGAV in gastric cancer (GC). GC tissue microarrays and in vitro cell experiments were used to verify the prediction results in GC. …”
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Clinical value of miR-145-5p in NSCLC and potential molecular mechanism exploration: A retrospective study based on GEO, qRT-PCR, and TCGA data by Ting-qing Gan, Zu-cheng Xie, Rui-xue Tang, Tong-tong Zhang, Dong-yao Li, Zu-yun Li, Gang Chen

“…First, a meta-analysis was performed with eligible literature, followed by microRNA microarrays in the Gene Expression Omnibus database, to verify the diagnostic and prognostic values of miR-145-5p. …”
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LncRNA MBNL1‐AS1 represses cell proliferation and enhances cell apoptosis via targeting miR‐135a‐5p/PHLPP2/FOXO1 axis in bladder cancer by Xiaosong Wei, Xiaoming Yang, Beibei Wang, Yang Yang, Zhiwei Fang, Chengzhi Yi, Lei Shi, Dongkui Song

“…Abstract LncRNAs have been shown to play essential roles in bladder cancer (BC) progress. Our microarrays of clinical samples firstly screened that lncRNA muscleblind‐like 1 antisense RNA 1 (MBNL1‐AS1) was poorly expressed in BC tissues. …”
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Adrenocortical carcinoma survival gene HMMR was identified as being targeted by fluorouracil and epirubicin using a gene coexpression network-based drug repositioning strategy by Zahra Jafari, Seyed-Morteza Javadirad, Seyede Elmira Yazdi Rouholamini

“…Hub genes were identified using weighted correlation network analysis (WGCNA), and their differential expression was confirmed by microarrays and RNA sequencing. Hub genes were analyzed in more depth for enrichment, coexpression, and protein–protein interaction. …”
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Schlafen 11 Expression in Patients With Small Cell Lung Cancer and Its Association With Clinical Outcomes by Ken Masuda, Tatsuya Yoshida, Noriko Motoi, Yuki Shinno, Yuji Matsumoto, Yusuke Okuma, Yasushi Goto, Hidehito Horinouchi, Noboru Yamamoto, Shun‐ichi Watanabe, Tomoaki Hoshino, Yasushi Yatabe, Yuichiro Ohe

“…SLFN‐11 expression was assessed using immunohistochemistry in tissue microarrays and scored using a histology (H)‐score (range: 0–300). …”
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Constitutional Chromosome 21 Abnormality in B-ALL with iAMP21 in a Patient Developing Treatment-Related Myelodysplastic Syndrome by Inhwa Kim, Su Hyun Yoon, Sunghan Kang, Kyung-Nam Koh, Mi Young Kim, Young-Uk Cho, Sang-Hyun Hwang, Seongsoo Jang, Eul-Ju Seo, Beom Hee Lee, Sunghee Min, Hyunwoo Bae, Ho Joon Im, Hyery Kim

“…However, abnormal karyotype was sustained in bone marrow. Microarrays with her buccal swab raised the possibility that the abnormal karyotype was not from the leukemic blasts but rather from the germline. …”
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Highly expressed of SERPINA3 indicated poor prognosis and involved in immune suppression in glioma by Qing Yuan, Song‐Quan Wang, Guang‐Tao Zhang, Jie He, Zhi‐Dan Liu, Ming‐Rong Wang, Hong‐Qing Cai, Jing‐Hai Wan

“…Further, we validated the expression and the survival prediction role of SERPINA3 by using tissue microarrays and RNAscope in situ hybridization in 321 gliomas. …”
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Spatially resolved proteomics surveys the chemo‐refractory proteins related to high‐grade serous ovarian cancer by Linyuan Fan, Yi Liu, Haichao Zhou, Yang Feng, Guangyi Jiang, Guixue Hou, Zhihan Cao, Zhiguo Zheng, Lu Sun, Hao Chen, Yuefei Zhang, Weiran Chen, Yun Xi, Benliang Cheng, Qinghai Yang, Yan Ren, Jianqing Zhu, Siqi Liu

“…Immunohistochemical validation of HGSC tissue microarrays confirmed the spatial proteomic localization of TFRC and PDLIM3, which are linked to tumour progression, while establishing their novel role as chemotherapy resistance biomarkers through this study, with broader predictive potential observed across additional targets in the discovery cohort. …”
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Clinicopathological characterization of Switch/Sucrose-non-fermentable (Swi/Snf) complex (ARID1A, SMARCA2, SMARCA4)-deficient endocervical adenocarcinoma by Chao Cao, Zi-Yun Wu, Wei Liao, Li-Jun Wei, Hao-Yu Liang, Xia Yang, Rong-Zhen Luo, Li-Li Liu

“…Methods We evaluated 604 ECA using representative tissue microarrays, collected clinicopathologic data, reviewed histological features, and performed immunohistochemical staining for several Swi/Snf complex subunits, mismatch repair (MMR), immune cell markers, and immune checkpoint ligands proteins. …”
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Non-viral HCC miRNA profiling reveals miR-1972 as a potential positive prognostic marker by Venkata Ramana Mallela, Marie Rajtmajerová, Esraa Ali, Lenka Červenková, Andriy Trailin, Petr Hošek, Richard Pálek, Ondřej Daum, Václav Liška, Kari Hemminki, Filip Ambrozkiewicz

“…Methods: We conducted microRNA profiling by microarrays in 45 paired (tumor and non-tumor adjacent tissue) samples from non-viral HCC patients. …”
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