A practical distribution pattern of α-SMA-positive carcinoma associated fibroblasts indicates poor prognosis of patients with pancreatic ductal adenocarcinoma by Bo Li, Meilong Shi, Yang Wang, Penghao Li, Xiaoyi Yin, Guoxiao Zhang, Xiaochao Kang, Huan Wang, Suizhi Gao, Kailian Zheng, Xiaohan Shi, Xiongfei Xu, Yukun Zhou, Hui Jiang, Wei Jing, Shiwei Guo, Gang Jin

“…We utilized a tissue microarray to assess the spatial intensity of α-SMA expression within the tumor microenvironment. …”
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SVseq discloses the genomic complexity of different prenatal, de novo, apparently balanced chromosome rearrangements detected by CMA and karyotype by Shengfang Qin, Xueyan Wang, Chun Chen, Jin Wang, Zhuo Zhang, Yan Yin, Xiangyou Leng

“…Methods Five children with BCRs detected through karyotyping and chromosome microarray analysis (CMA) during prenatal diagnoses were analyzed using SVseq technology. …”
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Identification of Tumor‐Specific Surface Proteins Enables Quantification of Extracellular Vesicle Subtypes for Early Detection of Pancreatic Ductal Adenocarcinoma by Chen Zhao, Zhili Wang, Hyoyong Kim, Hui Kong, Junseok Lee, Jacqueline Ziqian Yang, Anmin Wang, Ryan Y. Zhang, Yong Ju, Jina Kim, Bing Feng, Dejun Liu, Yating Zhang, Zhenfang Wang, Yandong Zhang, Shujing Guo, Dekang Gao, James S. Tomlinson, Renjun Pei, Jipeng Wan, Stephen J. Pandol, Myung‐Shin Sim, Sungyong You, Ding Ma, Shaohua Lu, Na Sun, Hsian‐Rong Tseng, Yazhen Zhu

“…Abstract Pancreatic ductal adenocarcinoma (PDAC) is a leading cause of cancer‐related mortality, largely due to late‐stage diagnosis. Reliable early detection methods are critically needed. PDAC‐derived extracellular vesicles (EVs) carry molecules that reflect their parental tumor cells and are detectable in early disease stages, offering a promising noninvasive diagnostic approach. …”
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Tumour extracellular vesicle surface Protein-mRNA integration assay for early detection of epithelial ovarian cancerResearch in context by Ying-Tzu Yen, Chen Zhao, Tian Gao, Jacqueline Ziqian Yang, Ning Kang, Jiahui Pu, Lei Qiu, Qixin Hu, Hyoyong Kim, Anmin Wang, Junseok Lee, Ryan Y. Zhang, Na Liu, Yue Ma, You-Ren Ji, Yong Ju, Lynn L. Zheng, James Lee-South, Vivian X. Zuo, Audrey Qian, Aaron Kwan, Yating Zhang, Shenghua Zhang, Zhili Wang, Jing Ren, Huaichao Liu, Zihan Wang, Yang Yue, Jina Kim, Jennifer Sun, Gabriella A. DiBernardo, Laura B. James-Allan, Ying Chen, Weipei Zhu, Guoyun Wang, Renjun Pei, Sanaz Memarzadeh, Sungyong You, Bobbie J. Rimel, Kate Lawrenson, Beth Y. Karlan, Myung Shin Sim, Shaohua Lu, Jipeng Wan, Na Sun, Hsian-Rong Tseng, Yazhen Zhu

“…Three EOC EV surface protein markers (i.e., FRα, MSLN, and TROP2) were selected through a bioinformatic framework using multi-omics data and underwent rigorous validation using EOC cell lines and EOC tissue microarrays. …”
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Rapid Detection of Panton–Valentine Leukocidin Production in Clinical Isolates of <i>Staphylococcus aureus</i> from Saxony and Brandenburg and Their Molecular Characterisation by Elke Müller, Stefan Monecke, Marc Armengol Porta, Marco Vinicio Narvaez Encalada, Annett Reissig, Lukas Rüttiger, Percy Schröttner, Ilona Schwede, Hans-Herman Söffing, Alexander Thürmer, Ralf Ehricht

“…They were also characterized using DNA microarrays, facilitating the detection of virulence and resistance markers as well as the assignment to clonal complexes and epidemic/pandemic strains. …”
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Exposing Optimal Feature Sets for Enhancing Machine Learning Performance by Hiba Mohammed Al-Marwai, Ghaleb H. Al-Gaphari, Mohammed Mohammed Zayed

“…To evaluate the effectiveness of our approach, we conduct experiments on benchmark microarray datasets from the ADNI database. Comparative analysis is performed against six traditional single objective methods and five other existing multiobjective methods. …”
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Successful strategy of comprehensive pre-implantation genetic testing for Duchenne muscular dystrophy and chromosome balance using karyomapping and fluorescent PCR by Suchada Mongkolchaipak, Sirivipa Piyamongkol, Chutithep Teekaput, Rungthiwa Sirapat, Wanwisa Suriya, Tawiwan Pantasri, Theera Tongsong, Wirawit Piyamongkol

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AssayBLAST: A Bioinformatic Tool for <i>In Silico</i> Analysis of Molecular Multiparameter Assays by Maximilian Collatz, Sascha D. Braun, Martin Reinicke, Elke Müller, Stefan Monecke, Ralf Ehricht

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B7-H3 and B7-H4 expression in phyllodes tumors of the breast detected by RNA in situ hybridization and immunohistochemistry: Association with clinicopathological features and T-cel... by Ga-Eon Kim, Nah Ihm Kim, Min Ho Park, Ji Shin Lee

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The Use of Multiplex Phosphorescence Analysis (PHOSPHAN^TM) and Polymerase Chain Reaction for Laboratory Diagnosis of Ixodid Tick-borne Borrelioses by T. I. Kuznetsova, V. G. Pomelova, E. I. Korenberg, N. S. Osin

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Implementation of Valid HPV Diagnostics for the Early Detection of Cervical Cancer in Molecular Pathology: HPV 3.5 LCD-Array (Chipron GmbH) vs. PapilloCheck^® (Greiner Bi... by Jan Jeroch, Melanie Winter, Anna Bieber, Agnes Boger, Christina Schmitt, Silvana Ebner, Morva Tahmasbi Rad, Henning Reis, Peter. J. Wild

“…This study compares the two hybridisation-based DNA-microarray systems “HPV 3.5 LCD-Array” (Chipron GmbH) and “PapilloCheck^®” (Greiner Bio-One GmbH), based on their ability to detect and differentiate HPV infections in 42 different cervical smears. …”
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The Features of a Humoral Immune Response Development during the Acute Phase of ixodes Tick-Borne Borreliosis (Based on Multiplex Analysis with the Immunochip) by V. G. Pomelova, E. I. Korenberg, T. I. Kuznetsova, N. S. Osin

“…Therefore, additional detection of IgM to recombinant proteins did not improve significantly the overall sensitivity of the latter PHOSPHAN variant. …”
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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

“…Molecular methods like multiplex PCR and microarrays are considered to be often less sensitive than Next Generation Sequencing, whereas the latter is time-consuming and costly. …”
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Using rule-based machine learning for candidate disease gene prioritization and sample classification of cancer gene expression data. by Enrico Glaab, Jaume Bacardit, Jonathan M Garibaldi, Natalio Krasnogor

“…A comparison with other benchmark microarray sample classifiers based on three diverse feature selection algorithms suggests that these evolutionary learning techniques can compete with state-of-the-art methods like support vector machines. …”
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Evaluation of gene expression classification studies: factors associated with classification performance. by Putri W Novianti, Kit C B Roes, Marinus J C Eijkemans

“…The MAQC II study on cancer classification problems has found that performance was affected by factors such as the classification algorithm, cross validation method, number of genes, and gene selection method. In this paper, we study the hypothesis that the disease under study significantly determines which method is optimal, and that additionally sample size, class imbalance, type of medical question (diagnostic, prognostic or treatment response), and microarray platform are potentially influential. …”
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Ultrasensitive Bead-Based Immunoassay for Real-Time Continuous Sample Flow Analysis by Yuri M. Shlyapnikov, Elena A. Shlyapnikova

“…The flow cell is integrated with a microarray-based signal detection module, where beads with bound analyte scan the microarray surface and are retained on it by single specific interactions, assuring ultra-high sensitivity of the method. …”
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Bioinformatics meets machine learning: identifying circulating biomarkers for vitiligo across blood and tissues by Qiyu Wang, Jingwei Yuan, Jingwei Yuan, Mengdi Zhang, Haiyan Jia, Hongjie Lu, Yan Wu

“…The merged microarray data were then used for WGCNA to identify modules of features genes. …”
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An Ensemble Classification Method for High-Dimensional Data Using Neighborhood Rough Set by Jing Zhang, Guang Lu, Jiaquan Li, Chuanwen Li

“…Efficient and effective sample classification and feature selection are challenging tasks due to high dimensionality and small sample size of microarray data. …”
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Examination of the functions and mechanism of KCP in mediating paclitaxel resistance in cervical squamous carcinoma cells by Yue He, Jian-Qing Xu, Jing-Jing Zhang, Zhen-You Liu, Chen Ji, Yang Liu, Yun-Fan Wang, Ming Wang, Yu-Mei Wu, Yan Wang

“…Key cell functions were assessed by colony formation assay, measurement of cell proliferation by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay, and FACS-based detection of apoptosis. The downstream mechanism of KCP-mediated resistance to paclitaxel was then examined using human gene chip detection and IPA bioinformatics analysis, and qPCR analysis was used to validate its downstream genes.Results①Functional studies of SiHa cells showed that KCP knockout (sgRNA) inhibited colony formation and proliferation of SiHa cells in the presence of paclitaxel (p&lt;0.05). ②Using a whole human genome microarray, a total of 491 differentially expressed genes were identified in KCP knockout versus the NC SiHa cells. …”
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The impact of the nucleosome code on protein-coding sequence evolution in yeast. by Tobias Warnecke, Nizar N Batada, Laurence D Hurst

“…We identify nucleosome positioning as a likely candidate to set up such a DNA-level selective regime and use high-resolution microarray data in yeast to compare the evolution of coding sequence bound to or free from nucleosomes. …”
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