Serum extracellular vesicles 3’tRF-ThrCGTand 3’tRF-mtlleGAT combined with tumor markers can serve as minimally invasive diagnostic predictors for colorectal cancer by Jiefei Peng, Jiefei Peng, Fan Bu, Fan Bu, Lei Duan, Lei Duan, Anna Song, Guojun Wang, Zhijun Zhang, Zhijun Zhang

“…The particle size was detected by particle size assay, and protein expression on the surface of EV was verified by Western blot. Gene microarrays were screened for differentially expressed tRF-RNA. …”
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A stable combination of non-stable genes outperforms standard reference genes for RT-qPCR data normalization by Anis Djari, Guillaume Madignier, Christian Chervin, Benoît van der Rest, James J. Giovannoni, Mondher Bouzayen, Julien Pirrello, Elie Maza

“…Despite the emergence of microarrays and high-throughput sequencing, qPCR remains a standard method for gene expression analyses, with its data normalization step being crucial for ensuring accuracy. …”
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Gene Expression Profiling in Wild-Type and PPAR𝛼-Null Mice Exposed to Perfluorooctane Sulfonate Reveals PPAR𝛼-Independent Effects by Mitchell B. Rosen, Judith R. Schmid, J. Christopher Corton, Robert D. Zehr, Kaberi P. Das, Barbara D. Abbott, Christopher Lau

“…Gene profiling was conducted using Affymetrix 430_2 microarrays. In WT mice, PFOS induced changes that were characteristic of PPAR𝛼 transactivation including regulation of genes associated with lipid metabolism, peroxisome biogenesis, proteasome activation, and inflammation. …”
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Malate initiates a proton-sensing pathway essential for pH regulation of inflammation by Yu-jia-nan Chen, Rong-chen Shi, Yuan-cai Xiang, Li Fan, Hong Tang, Gang He, Mei Zhou, Xin-zhe Feng, Jin-dong Tan, Pan Huang, Xiao Ye, Kun Zhao, Wen-yu Fu, Liu-li Li, Xu-ting Bian, Huan Chen, Feng Wang, Teng Wang, Chen-ke Zhang, Bing-hua Zhou, Wan Chen, Tao-tao Liang, Jing-tong Lv, Xia Kang, You-xing Shi, Ellen Kim, Yin-hua Qin, Aubryanna Hettinghouse, Kai-di Wang, Xiang-li Zhao, Ming-yu Yang, Yu-zhen Tang, Hai-long Piao, Lin Guo, Chuan-ju Liu, Hong-ming Miao, Kang-lai Tang

“…Further screening through protein‒protein interaction microarrays identified a L-malate-restrained coupling of BiP with IRF2BP2, a known anti-inflammatory protein. …”
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Associations of circulating insulin-like growth factor-1 and insulin-like growth factor binding protein-3 with the expression of stem cell markers in benign breast tissue by Lusine Yaghjyan, Yujing J. Heng, Brian R. Sardella, Divya Murthy, Matt B. Mahoney, Bernard Rosner, Kornelia Polyak, Maisey Ratcliff, Rulla M. Tamimi

“…Immunohistochemistry (IHC) was done on tissue microarrays. For each core, the IHC expression was assessed using QuPath, and expressed as % of cells that stain positively for a specific marker out of the total cell count. …”
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Paediatric autoimmune uveitis is associated with intraocular antibodies against Epstein–Barr virus Nuclear Antigen 1 (EBNA-1)Research in context by Jytte Hendrikse, Louis J. Bont, Peter A.W.J.F. Schellekens, Jolanda D.F. de Groot-Mijnes, Joke H. de Boer, Jonas J.W. Kuiper

“…Methods: We used peptide microarrays containing 3760 linear B-cell epitopes from 196 human pathogens to profile IgG levels in eye fluid biopsies and paired serum samples from 18 Dutch paediatric patients and 6 age-matched controls. …”
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Associations Between Follicular Fluid Biomarkers and IVF/ICSI Outcomes in Normo-Ovulatory Women—A Systematic Review by Soha Albeitawi, Saif-Ulislam Bani-Mousa, Baraa Jarrar, Ibrahim Aloqaily, Nour Al-Shlool, Ghaida Alsheyab, Ahmad Kassab, Baha’a Qawasmi, Abdalrahman Awaisheh

“…Widespread adoption of LC-MS and miRNA microarrays can help quantify a representative FF metabolome, and we see great potential for in vitro supplementation (IVS) of some FF biomarkers in improving IVF/ICSI outcomes.…”
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Genome-wide DNA methylation and gene expression in human placentas derived from assisted reproductive technology by Pauliina Auvinen, Jussi Vehviläinen, Karita Rämö, Ida Laukkanen, Heidi Marjonen-Lindblad, Essi Wallén, Viveca Söderström-Anttila, Hanna Kahila, Christel Hydén-Granskog, Timo Tuuri, Aila Tiitinen, Nina Kaminen-Ahola

“…Methods We performed genome-wide DNA methylation (EPIC Illumina microarrays) and gene expression (mRNA sequencing) analyses for a total of 80 ART and 77 control placentas. …”
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GCKIII kinases control hepatocellular lipid homeostasis via shared mode of action by Emmelie Cansby, Mara Caputo, Emma Andersson, Rasool Saghaleyni, Marcus Henricsson, Ying Xia, Bernice Asiedu, Matthias Blüher, L. Thomas Svensson, Andrew J. Hoy, Margit Mahlapuu

“…Finally, using in vitro kinase assays on microfluidic microarrays, we pinpointed various downstream targets that are phosphorylated by the GCKIII kinases, with known functions in lipogenesis, lipolysis, and lipid secretion, as well as glucose uptake, glycolysis, hexosamine synthesis, and ubiquitination. …”
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Overcoming immunotherapy resistance in bladder cancer with a novel antibody-drug conjugate RC48 by Xin Gao, Chunyu Zhang, Jinbo Chen, Zhi Liu, Jiao Hu, Xiongbing Zu, Jiatong Xiao, Jinhui Liu, Zhenyu Nie, Zhenglin Yi, Haisu Liang, Jinliang Huang, Zhiyong Cai, Luzhe Yan, Bingquan Wu, Zefu Liu

“…At the clinical level, bladder cancer immune therapy cohort tissue microarrays were used, and the aforementioned mechanisms were validated using immunohistochemistry and immunofluorescence.Results HER2 expression is associated with an inhibitory tumor immune microenvironment and resistance to immunotherapy. …”
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HLA‐DR⁺ Tumor Cells Show an Association with a Distinct Immune Microenvironment and CD8⁺ T‐Cell Exhaustion in HBV‐Associated Hepatocellular Carcinoma by Jun‐Qing Chang, Yan Guo, Wen‐Jing Yuan, Yu‐Man Chen, Bo‐Wei Liu, Wen‐Tao Li, Xiang‐Ming Ding, Xu‐Dong Fu, Yu‐Han Lou, Zhuo‐Ran Chen, Xiao‐Ying Luo, Song‐Ze Ding, Bing‐Yong Zhang, Xiu‐Ling Li, Yong‐Zhi Hong, Shun‐Dong Cang, Dong‐Xiao Li, Ling Lan

“…By integrating the largest publicly available single‐cell RNA sequencing (scRNA‐seq) dataset of HCC (160 samples from 124 patients) with multi‐scale protein‐level validation using multiplex immunofluorescence and tissue microarrays (198 HCC specimens), HLA‐DR⁺ tumor cells are identified as a distinctive feature of HBV+HCC. …”
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TRPM4 is highly expressed in human colorectal tumor buds and contributes to proliferation, cell cycle, and invasion of colorectal cancer cells by Sven Kappel, Paulina Stokłosa, Barbara Hauert, Daniela Ross‐Kaschitza, Anna Borgström, Roland Baur, José A. Galván, Inti Zlobec, Christine Peinelt

“…Here, we investigated tumor tissue microarrays from 379 CRC patients and analyzed TRPM4 protein expression, tumor characteristics, and clinical outcome. …”
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TMEM115: a promising marker for glioma immunotherapy and prognosis by Hang Yin, Hang Yin, Feng Wang, Feng Wang, Haiyan Xu, Haiyan Xu, Manyu Xu, Manyu Xu, Pengpeng Lu, Pengpeng Lu, Xiaojing Zhang, Lei Yang, Bing Lu, Pingping Sun, Jianfei Huang, Jianfei Huang

“…However, the role of TMEM115 in glioma progression is still unclear and, therefore, needs further exploration.MethodsRNA-seq data from The Cancer Genome Atlas and Chinese Glioma Genome Atlas databases of glioma patients and multiplex Immunohistochemistry by glioma tissue microarrays were analyzed to determine the expression and localization of TMEM115. …”
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E3 ligase HERC5-catalyzed UGDH isgylation promotes SNAI1-mediated tumor metastasis and cisplatin resistance in oral squamous cell carcinoma by Xu Zhang, Fayu Liu, Qigen Fang, Changfu Sun, Jie Fan

“…Previous studies have revealed an important function of HECT And RLD Domain Containing E3 Ubiquitin Protein Ligase 5 (HERC5) in cancer. Six GEO gene microarrays identified HERC5 as a significant upregulated gene in OSCC tissues or cells (log2 Fold change > 1 and adj.p < 0.05). …”
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The multi-omics signatures of telomere length in childhood by Congrong Wang, Dries S. Martens, Mariona Bustamante, Rossella Alfano, Michelle Plusquin, Lea Maitre, John Wright, Rosemary R. C. McEachan, Johanna Lepeule, Remy Slama, Marina Vafeiadi, Leda Chatzi, Regina Grazuleviciene, Kristine B. Gutzkow, Hector Keun, Eva Borràs, Eduard Sabidó, Angel Carracedo, Georgia Escarami, Augusto Anguita-Ruiz, Dolors Pelegrí-Sisó, Juan R. Gonzalez, Martine Vrijheid, Tim S. Nawrot

“…Blood DNA methylation, gene expression, miRNA expression, plasma proteins and serum and urinary metabolites were measured through microarrays or (semi-) targeted assays. The association between each individual omics feature and telomere length was assessed in omics-wide association analyses. …”
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Unveiling the impact of C15orf48 on non-small cell lung cancer through NF-kappa B signaling by Wei Wang, Lei Zhang, Ansheng Wang, Xiaohua Wang, Weidong Wu

“…Immunohistochemical staining was used to detect C15orf48 expression in tissue microarrays. Cellular assays, including CCK8, colony formation, wound healing, transwell migration, flow cytometry, and cell adhesion, were conducted to assess cell viability, proliferation, invasion, and apoptosis. …”
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Circular RNA circPHLPP2 promotes tumor growth and anti-PD-1 resistance through binding ILF3 to regulate IL36γ transcription in colorectal cancer by Yan Hu, Ze-Rong Cai, Ren-Ze Huang, De-Shen Wang, Huai-Qiang Ju, Dong-Liang Chen

“…However, there are few studies exploring the role of circRNAs in CRC immune evasion. Methods circRNA microarrays were used to identify circPHLPP2. RT-qPCR was used to examine the associations between the expression level of circPHLPP2 and the clinical characteristics of CRC patients. …”
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A nomogram for predicting 3-year total weight loss percentage following LSG: insights from visceral adipose tissue inflammatory methylation sites by Zhehong Li, Liang Wang, Zheng Wang, Qiqige Wuyun, Buhe Amin, Dongbo Lian, Guangzhong Xu, Nengwei Zhang, Dezhong Wang

“…Comparative analyses of 850K methylation microarrays from VAT samples were performed to identify methylation sites associated with INF-related genes. …”
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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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Immune dysfunction revealed by digital spatial profiling of immuno-oncology markers in progressive stages of renal cell carcinoma and in brain metastases by Wei Wei, Michael Hurwitz, Sabina Signoretti, Lucia Jilaveanu, Toni K Choueiri, David L Rimm, Adebowale Adeniran, Sandra Martínez, Harriet M Kluger, David A Schoenfeld, Myrto Moutafi, Dijana Djureinovic, Ross D Merkin, David A Braun, Fabio Parisi

“…The TME of RCC brain metastases, a major cause of morbidity, also remains largely uncharacterized.Methods We performed digital spatial profiling on the NanoString GeoMx platform using 52 validated immuno-oncology markers on RCC tissue microarrays representing progressive stages of RCC, including brain metastases. …”
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