A Novel Ensemble Feature Selection Technique for Cancer Classification Using Logarithmic Rank Aggregation Method by Hüseyin Öztoprak, Hüseyin Güney

“…Recent studies have shown that ensemble feature selection (EFS) has achieved outstanding performance in microarray data classification. However, some issues remain partially resolved, such as suboptimal aggregation methods and non-optimised underlying FS techniques. …”
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Pre-diagnostic Demographic, Lifestyle, and Health History Factors in Association with Secreted Protein Acidic and Rich in Cysteine (SPARC) Expression in Colorectal Cancer Tissue by Umaimah Zanif, Jaclyn Parks, Isabella Tai, Stephen Yip, Sindy Babinszky, Katy Milne, Peter Watson, Rachel A. Murphy, Parveen Bhatti

“…Methods: Tumor and normal tissue cores were taken from formalin-fixed paraffin-embedded (FFPE) blocks of incident CRC cases and were used to create tissue microarrays (TMAs). …”
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Phosphoribosyl transferase domain containing 1: A prognostic biomarker in testicular germ cell tumors by Peisheng Huang, Yihao Chen, Yongcheng Shi, Chuanfan Zhong, Huawei Lin, Xiaoxue Yu, Kai Chen, Zhuoya Huang, Le Zhang, Shumin Fang, Jianming Lu, Jiahong Chen

“…Immunohistochemistry on tissue microarrays validated PRTFDC1’s predictive value in clinical samples. …”
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Coordinate Transcriptomic and Metabolomic Effects of the Insulin Sensitizer Rosiglitazone on Fundamental Metabolic Pathways in Liver, Soleus Muscle, and Adipose Tissue in Diabetic... by Sabrina Le Bouter, Marianne Rodriguez, Nolwen Guigal-Stephan, Sophie Courtade-Gaïani, Laura Xuereb, Catherine de Montrion, Vincent Croixmarie, Thierry Umbdenstock, Claire Boursier-Neyret, Michel Lonchampt, Manuel Brun, Catherine Dacquet, Alain Ktorza, Brian-Paul Lockhart, Jean-Pierre Galizzi

“…For this aim, transcriptional changes were measured in liver, inguinal adipose tissue (IAT) and soleus muscle using microarrays and real-time PCR. …”
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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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Ubiquitin Specific Protease 26 (USP26) expression analysis in human testicular and extragonadal tissues indicates diverse action of USP26 in cell differentiation and tumorigenesis. by Matthew S Wosnitzer, Anna Mielnik, Ali Dabaja, Brian Robinson, Peter N Schlegel, Darius A Paduch

“…Human microarray dot blots were used to identify protein expression in extra-gonadal tissues. …”
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Therapeutic effects of adipose tissue-derived mesenchymal stem cells on ER stress in a murine model of metabolic dysfunction-associated steatohepatitis: an in vivo and in vitro stu... by Norihiko Ogawa, Akihiro Seki, Alessandro Nasti, Ho Yagi, Masatoshi Yamato, Hiiro Inui, Hiroki Nomura, Takuya Komura, Hidetoshi Nakagawa, Kouki Nio, Hajime Takatori, Tetsuro Shimakami, Masao Honda, Shuichi Kaneko, Yoshio Sakai, Taro Yamashita

“…Methods C57BL/6J mice were fed either an atherogenic high-fat diet (AT + HF) or a high-fat diet (HFD-60) to induce MASH and simple steatosis (SS), respectively. Liver tissues were analyzed for gene expression, protein levels, and apoptotic markers using DNA microarray, quantitative PCR, western blotting, histological staining, and caspase activity assays. …”
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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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Expression of Cancer‐Testis Antigens MAGE‐A1, MAGE‐A4, NY‐ESO‐1 and PRAME in Bone and Soft Tissue Sarcomas: The Experience From a Single Center in China by Anni Chen, Yuling Qiu, Ying‐Tzu Yen, Chun Wang, Xiaolu Wang, Chunhua Li, Zijian Wei, Lin Li, Lixia Yu, Fangcen Liu, Rutian Li

“…Conclusions CTA expression in bone and soft tissue sarcomas was correlated with both CTA type and sarcoma subtype, showing relatively high levels of expression in undifferentiated pleomorphic sarcoma (UPS) and osteosarcoma (OS). …”
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Evaluating the potential of anti-dsRNA antibodies as an alternative viral sensing tool in encephalitides of different species by Madeleine de le Roi, Hannah Gerhards, Adnan Fayyad, Adnan Fayyad, Mathias Boelke, Stefanie Christine Becker, Asisa Volz, Ingo Gerhauser, Wolfgang Baumgärtner, Christina Puff

“…These analyses require appropriate tissue preparations and are more difficult to perform on formalin-fixed, paraffin-embedded (FFPE) tissues. …”
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SPP1 mRNA Expression Is Associated with M2 Macrophage Infiltration and Poor Prognosis in Triple-Negative Breast Cancer by Yu-Chia Chen, Chia-Ching Chen, Rong-Fu Chen, Hsin-Hung Chen, Po-Ming Chen

“…Additionally, we examined SPP1 mRNA expression datasets available in the Kaplan–Meier plotter and investigated the SPP1 protein expression patterns in our own tissue microarray cohort via immunohistochemistry. (3): The results revealed that genes associated with the Toll-like receptor signaling pathway showed a significant increase in activity in TNBC tissues when compared to normal breast tissues. …”
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Chronic Exposure of Renal Progenitor Cells (HRTPT) to As (III) Implicates Microfibril Associated Protein 5 (MFAP5) in the Activation of Carcinoembryonic Antigen Related Cell Adhesi... by Md Ehsanul Haque, Donald A. Sens, Scott H. Garrett

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Neurotransmission Sex Dichotomy in the Rat Hypothalamic Paraventricular Nucleus in Healthy and Infantile Spasm Model by Dumitru Andrei Iacobas, Jana Veliskova, Tamar Chachua, Chian-Ru Chern, Kayla Vieira, Sanda Iacobas, Libor Velíšek

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The Construction of ceRNA Regulatory Network Unraveled Prognostic Biomarkers and Repositioned Drug Candidates for the Management of Pancreatic Ductal Adenocarcinoma by Busra Aydin, Keziban Okutan, Ozge Onluturk Aydogan, Raghu Sinha, Beste Turanli

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Reconstructing Dynamic Gene Regulatory Networks Using f-Divergence from Time-Series scRNA-Seq Data by Yunge Wang, Lingling Zhang, Tong Si, Sarah Roberts, Yuqi Wang, Haijun Gong

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A new method for analyzing gene expression data by PAN Hai-yan, ZHU Jun, HAN Dan-fu

“…Microarray technique provides a systematic genome-wide approach to solve a wide range of problems such as gene functions, gene regulations, and the disease diagnoses and treatments. …”
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Stromal transcriptional profiles reveal hierarchies of anatomical site, serum response and disease and identify disease specific pathways. by Andrew Filer, Philipp Antczak, Greg N Parsonage, Holly M Legault, Margot O'Toole, Mark J Pearson, Andrew M Thomas, Dagmar Scheel-Toellner, Karim Raza, Christopher D Buckley, Francesco Falciani

“…To test our hypothesis we utilized a bioinformatics approach to explore a publicly available microarray dataset including rheumatoid arthritis (RA), osteoarthritis (OA) and normal synovial tissue, then extended those findings in a new microarray dataset representing matched synovial, bone marrow and skin fibroblasts cultured from RA and OA patients undergoing arthroplasty. …”
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Transcript analysis reveals a specific HOX signature associated with positional identity of human endothelial cells. by Mark Toshner, Benjamin J Dunmore, Eoin F McKinney, Mark Southwood, Paola Caruso, Paul D Upton, John P Waters, Mark L Ormiston, Jeremy N Skepper, Gerard Nash, Amer A Rana, Nicholas W Morrell

“…Subsequently, we analysed publically available microarrays from a variety of adult cell and tissue types using the whole "HOX transcriptome" of all 39 HOX genes. …”
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Prediction of gene expression in embryonic structures of Drosophila melanogaster. by Anastasia A Samsonova, Mahesan Niranjan, Steven Russell, Alvis Brazma

“…Here, we present a widely applicable computational approach, integrating developmental time-course microarray data with annotated in situ hybridisation studies, that facilitates the de novo prediction of tissue-specific expression for genes that have no in vivo gene expression localisation data available. …”
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Ubiquitin-Specific Protease 43 Impacts Pancreatic Ductal Adenocarcinoma Prognosis by Altering Its Proliferation and Infiltration of Surrounding Immune Cells by Ziqi Zhao, Zhikun Lin, Xin Guo, Abdullah Al-danakh, Hui He, Henan Qin, Chi Ma, Ningning Zhang, Guang Tan

“…Based on TCGA database and tissue microarray staining, the expression of USP43 in PDAC was evaluated. …”
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