Personalized risk stratification in colorectal cancer via PIANOS system by Du Cai, Haoning Qi, Qiuxia Yang, Huayu Li, Chenghang Li, Chuling Hu, Baowen Gai, Xu Zhang, Yize Mao, Feng Gao, Xiaojian Wu

“…Developed using gene expression data from 562 patients and employing a rank-based k-Top Scoring Pairs (k-TSP) algorithm alongside resampling, PIANOS was rigorously validated in 15 cohorts comprising 3666 patients with CRC. It effectively differentiates high-risk from low-risk patients, outperforms 105 existing models, and demonstrates robust performance across technologies like microarrays and RNA sequencing. …”
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Wolbachia infections in Anopheles gambiae cells: transcriptomic characterization of a novel host-symbiont interaction. by Grant L Hughes, Xiaoxia Ren, Jose L Ramirez, Joyce M Sakamoto, Jason A Bailey, Anne E Jedlicka, Jason L Rasgon

“…We used Affymetrix GeneChip microarrays to investigate the effect of wAlbB and wRi infection on the transcriptome of cultured Anopheles Sua5B cells, and for a subset of genes used quantitative PCR to validate results in somatically-infected Anopheles mosquitoes. …”
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The transcription factor SOX18 regulates the expression of matrix metalloproteinase 7 and guidance molecules in human endothelial cells. by Martina Hoeth, Heide Niederleithner, Renate Hofer-Warbinek, Martin Bilban, Herbert Mayer, Ulrike Resch, Christof Lemberger, Oswald Wagner, Erhard Hofer, Peter Petzelbauer, Rainer de Martin

“…<h4>Methodology/principal findings</h4>SOX18 was expressed in HUVEC using a recombinant adenoviral vector and the altered gene expression profile was analyzed using microarrays. Expression of several regulated candidate SOX18 target genes was verified by real-time PCR. …”
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Epigenomic modifications predict active promoters and gene structure in Toxoplasma gondii. by Mathieu Gissot, Krystyna A Kelly, James W Ajioka, John M Greally, Kami Kim

“…Initial studies suggest that epigenetic phenomena, including histone modifications and chromatin remodeling, have a profound effect upon gene expression and expression of virulence traits. …”
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Identification and analysis of genetic variations in pri-miRNAs expressed specifically or at a high level in sheep skeletal muscle. by Wei Zhang, Limin Wang, Ping Zhou, Guangchao Song, Min Shen, Shangquan Gan, Guoqing Shi

“…In this study, we used microarrays to detect 261 miRNAs that are expressed in sheep skeletal muscle. …”
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Epithelial and stromal microRNA signatures of columnar cell hyperplasia linking Let-7c to precancerous and cancerous breast cancer cell proliferation. by Sofie Björner, Paul A Fitzpatrick, Yaoyong Li, Craig Allred, Anthony Howell, Anita Ringberg, Håkan Olsson, Crispin J Miller, Håkan Axelson, Göran Landberg

“…Here we have defined novel epithelial as well as stromal miRNA signatures from columnar cell hyperplasia lesions compared to normal terminal duct lobular units by using microdissection and miRNA microarrays. Let-7c were among the identified downregulated epithelial miRNAs and its functions were delineated in unique CCH derived cells and breast cancer cell line MCF-7 suggesting anti-proliferative traits potentially due to effects on Myb and ERα. …”
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Distribution of Recessive Genetic Defect Carriers in Holstein Friesian Cattle: A Polish Perspective by Marta Gozdek, Sebastian Mucha, Adam Prostek, Dariusz Kamola, Tomasz Sadkowski

“…The studies were performed using Illumina Infinium microarrays. Among both bulls and cows, the highest numbers of carriers were detected for HH5 (appropriately 6.7% and 5.4%). …”
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Prognostic Significance of Tissue Inhibitor of Metalloproteinase-1 in Breast Cancer by Arunee Dechaphunkul, Monlika Phukaoloun, Kanet Kanjanapradit, Kathryn Graham, Sunita Ghosh, Cheryl Santos, John R. Mackey

“…Primary breast cancers from women with early stage disease treated with standard adjuvant therapy were analyzed by gene expression microarrays and immunohistochemistry for TIMP-1. Results. …”
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The Impact of Antenatal and Postnatal Factors on the Development of the Pulmonary Microvasculature in Preterm Infants by Raluca Chirculescu, Ruxandra Viorica Stănculescu, Paul Cristian Bălănescu, Gheorghe Peltecu

“…After selecting the cases from the autopsy database, two lung tissue microarrays were created. Histological slides were stained using the hematoxylin and eosin technique to precisely capture the microscopic details. …”
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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

“…We parsed PubMed, Scopus, and Google Scholar for research on the effects of different FF biomarkers on IVF/ICSI outcomes in normo-ovulatory women. …”
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Lactobacilli-host interactions inhibit Staphylococcus aureus and Escherichia coli-induced cell death and invasion in a cellular model of infection by Despoina Eugenia Kiousi, Maria Panopoulou, Aglaia Pappa, Alex Galanis

“…Dual RNA-seq and protein microarrays were used to determine expression changes in L125 and host cells during co-incubation. …”
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Excavating regulated cell death signatures to predict prognosis, tumor microenvironment and therapeutic response in HR+/HER2- breast cancer by Shuangshuang Mao, Yuanyuan Zhao, Huihua Xiong, Chen Gong

“…Our results underlined the potential effects and importance of RCD in HR+/HER2- breast cancer and provided novel biomarkers and therapeutic targets for HR+/HER2- breast cancer patients.…”
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A cross-tissue transcriptomic approach decodes glucocorticoid receptor-dependent links to human metabolic phenotypes by Marcin Piechota, Mateusz Zieba, Małgorzata Borczyk, Slawomir Golda, Jacek Hajto, Urszula Skupio, Michal Slezak, Jan Rodriguez Parkitna, Michal Korostynski

“…Here, we examine cross-tissue effects of GR activation on gene expression. We assessed changes induced by stimulation with GR agonist, dexamethasone in nine tissues (adrenal cortex, perigonadal adipose tissue, hypothalamus, liver, kidney, anterior thigh muscle, pituitary gland, spleen, and lungs) in adult male C57BL/6 mice, using whole-genome microarrays. …”
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Quantifying intratumoral biomarker heterogeneity in tubo-ovarian high-grade serous carcinoma to optimize clinical translation by Aline Talhouk, Derek S. Chiu, Liliane Meunier, Kurosh Rahimi, Cécile Le Page, Monique Bernard, Diane Provencher, David G. Huntsman, Anne Marie Mes Masson, Martin Köbel

“…Markers were stained on tissue microarrays and scored using a continuous or categorical interpretation of staining patterns. …”
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PPY‐Induced iCAFs Cultivate an Immunosuppressive Microenvironment in Pancreatic Cancer by Mengdie Cao, Wang Peng, Bin Cheng, Ronghua Wang, Wei Chen, Luyao Liu, Hai Huang, Shiru Chen, Haochen Cui, JingWen Liang, Qiaodan Zhou, Si Xiong, Shuya Bai, Luoxia Liu, Yuchong Zhao

“…Unlike previously reported iCAF inducers, PPY is a gastrointestinal hormone predominantly expressed in the pancreas, suggesting that targeting it may have minimal systemic effects. Multiplex immunohistochemistry (mIHC) on human PDAC tissue microarrays, orthotopic allograft mouse models, and co‐culture experiments are utilized to validate the crucial role of PPY in iCAF induction. …”
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TPX2 promotes papillary renal cell carcinoma progression by forming a ceRNA with LINC00894 by Zhenshan Ding, Wenwei Ying, Ye Yan, Ying Zhao, Cheng Liu, Lulin Ma

“…Immunohistochemical analysis of tissue microarrays was performed to evaluate the associations between TPX2 expression and clinicopathological characteristics in type 2 pRCC patients. …”
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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

“…Here, we found that L-malate exerts anti-inflammatory effect via BiP-IRF2BP2 signaling, which is a sensor of cytosolic pH in macrophages. …”
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Advanced strategies for screening and identifying RNA-targeted small molecules: Bridging therapeutic potential and innovation by Zukela Ruzi, Daxiong Han, Kailibinuer Aierken

“…In recent years, significant advancements in screening methodologies, such as high-throughput screening (HTS), small molecule microarrays (SMMs), and DNA-encoded libraries (DELs), have facilitated the identification of RNA-binding small molecules with enhanced specificity. …”
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Thrombospondin-1 induces CD8+ T cell exhaustion and immune suppression within the tumor microenvironment of ovarian cancer by Haiyan Liang, Suwei Zhang

“…Methods We analyzed THBS1 expression and its clinical significance using publicly available datasets (TCGA-OV, GSE14407) and tissue microarrays containing OC and adjacent normal tissues. …”
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Increased COX-2 Immunostaining in Urothelial Carcinoma of the Urinary Bladder Is Associated with Invasiveness and Poor Prognosis by Basim Al-Maghrabi, Wafaey Gomaa, Mohammed Abdelwahed, Jaudah Al-Maghrabi

“…UCB samples were collected before any local or systemic therapy. Tissue microarrays were designed and constructed, and TMA blocks were sliced for further immunohistochemical staining. …”
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