BNIP3 as a progression marker in primary human breast cancer; opposing functions in in situ versus invasive cancer. by Tan, E, Campo, L, Han, C, Turley, H, Pezzella, F, Gatter, K, Harris, A, Fox, S

“…EXPERIMENTAL DESIGN: Whole sections from 11 normal breast and microarrayed tissue cores from 81 DCIS and 251 invasive carcinomas were stained for BNIP3 and hypoxia-inducible factor-1alpha. …”

Host iron binding proteins acting as niche indicators for Neisseria meningitidis by Jordan, P, Saunders, N

“…This study compared the transcriptional responses of <em>N. meningitidis</em>, when grown in the presence of these iron donors and ferrin iron, using microarrays.</p><p>Specific transcriptional responses to the different iron sources were observed, including genes that are not part of the response to iron restriction. …”

MRE11 as a predictive biomarker of outcome following radiotherapy in bladder cancer by Walker, AK, Karaszi, K, Valentine, H, Strauss, VY, Choudhury, A, McGill, S, Wen, K, Brown, MD, Ramani, V, Bhattarai, S, Teo, MTW, Yang, L, Myers, KA, Deshmukh, N, Denley, H, Browning, L, Love, SB, Iyer, G, Clarke, NW, Hall, E, Huddart, R, James, ND, Hoskin, PJ, West, CML, Kiltie, AE

“…Reoptimized staining improved agreement between scores from BCON tissue microarrays (n = 116), but MRE11 expression was not prognostic for cause-specific survival.…”

Expression of the forkhead transcription factor FOXP1 is associated with estrogen receptor alpha and improved survival in primary human breast carcinomas. by Fox, S, Brown, P, Han, C, Ashe, S, Leek, R, Harris, A, Banham, A

“…EXPERIMENTAL DESIGN: We have therefore investigated the pattern of FOXP1 expression in whole sections from normal (n = 16) and neoplastic (n = 90) breast tissues and correlated the level of expression in 283 invasive breast carcinomas on tissue microarrays with clinicopathological factors and survival. …”

Necrosis predicts benefit from hypoxia-modifying therapy in patients with high risk bladder cancer enrolled in a phase III randomised trial. by Eustace, A, Irlam, J, Taylor, J, Denley, H, Agrawal, S, Choudhury, A, Ryder, D, Ord, J, Harris, A, Rojas, A, Hoskin, P, West, C

“…Hypoxia markers carbonic anhydrase-IX and glucose transporter-1 were examined using tissue microarrays. RESULTS: Necrosis was the only independent prognostic indicator (P=0.04). …”

Transcriptional analysis of micro-dissected articular cartilage in post-traumatic murine osteoarthritis. by Gardiner, MD, Vincent, T, Driscoll, C, Burleigh, A, Bou-Gharios, G, Saklatvala, J, Nagase, H, Chanalaris, A

“…Design: RNA was extracted from the ipsilateral and contralateral MTP cartilage, amplified, labelled and hybridized on Illumina WGv2 microarrays. Results were confirmed by real-time PCR for selected genes. …”

Hypermethylation of CpG islands and shores around specific microRNAs and mirtrons is associated with the phenotype and presence of bladder cancer. by Dudziec, E, Miah, S, Choudhry, H, Owen, H, Blizard, S, Glover, M, Hamdy, F, Catto, J

“…EXPERIMENTAL DESIGN: The methylation status of 865 small RNAs was evaluated in normal and malignant cell lines by using 5-azacytidine and microarrays. Bisulfite sequencing was used for CpG regions around selected RNAs. …”

Small deletion variants have stable breakpoints commonly associated with alu elements by De Smith, A, Walters, R, Coin, L, Steinfeld, I, Yakhini, Z, Sladek, R, Froguel, P, Blakemore, A

“…We investigated the breakpoints of 20 small, common deletions, representing a subset of those originally identified by array CGH, using Agilent microarrays, in 50 healthy French Caucasian subjects. …”

Combined array-comparative genomic hybridization and single-nucleotide polymorphism-loss of heterozygosity analysis reveals complex changes and multiple forms of chromosomal instab... by Gaasenbeek, M, Howarth, K, Rowan, A, Gorman, P, Jones, A, Chaplin, T, Liu, Y, Bicknell, D, Davison, E, Fiegler, H, Carter, N, Roylance, R, Tomlinson, I

“…We investigated colorectal cancer cell lines using array-comparative genomic hybridization (CGH) for copy number changes and single-copy number polymorphism (SNP) microarrays for allelic loss (LOH). Many array-based CGH changes were not found by LOH because they did not cause true reduction-to-homozygosity. …”

IGFBP-2 in cervical cancer development by Kaur, Gurjeet, Balasubramaniam, Shandra Devi, Yung, Jen Lee

“…Design: Immunohistochemical expression of IGFBP-2 protein was semi-quantitatively assessed in tissue microarrays containing 9 normal cervix, 10 low grade cervical intraepithelial neoplasia (LGCIN), 10 high grade cervical intraepithelial neoplasia (HGCIN) and 42 squamous cell carcinoma (SCC) cases. …”
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Expression of the Coxsackie and Adenovirus Receptor (CAR) in pancreatic cancer and normal pancreatic tissue by Verbeke, C. S., Hamdan, S., Booth, J., Pandha, H. S., Blair, G. E.

“…Using the same antibody, immunostaining was performed on tissue microarrays containing 188 pancreatic ductal adenocarcinomas and 68 matched controls. …”
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Triosephosphate isomerase 1 may be a risk predictor in laryngeal squamous cell carcinoma: a multi-centered study integrating bulk RNA, single-cell RNA, and protein immunohistochemi... by Jian-Di Li, Yi Chen, Shu-Wen Jing, Li-Ting Wang, Yu-Hong Zhou, Zhi-Su Liu, Chang Song, Da-Zhi Li, Hai-Quan Wang, Zhi-Guang Huang, Yi-Wu Dang, Gang Chen, Jia-Yuan Luo

“…External LSCC microarrays and bulk RNA sequencing data were integrated to evaluate the expression of TPI1. …”
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Identification of DYNLT1 associated with proliferation, relapse, and metastasis in breast cancer by Sen Miao, Gaoda Ju, Chonghua Jiang, Bing Xue, Lihua Zhao, Rui Zhang, Han Diao, Xingzhou Yu, Linlin Zhang, Xiaozao Pan, Hua Zhang, Lijuan Zang, Lei Wang, Tianhao Zhou

“…However, there is still a lack of study about the correlation between DYNLT1 and BC.MethodsIn this study, we evaluated and validated the expression pattern and prognostic implication of DYNLT1 in BC with multiple public cohorts and BC tumor microarrays (TMAs) of paraffin-embedded tissues collected from the Affiliated Hospital of Jining Medical University. …”
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Application of the Dynamical Network Biomarker Theory to Raman Spectra by Takayuki Haruki, Shota Yonezawa, Keiichi Koizumi, Yasuhiko Yoshida, Tomonobu M. Watanabe, Hideaki Fujita, Yusuke Oshima, Makito Oku, Akinori Taketani, Moe Yamazaki, Taro Ichimura, Makoto Kadowaki, Isao Kitajima, Shigeru Saito

“…Although the DNB theory has been applied to gene expression in several diseases, destructive testing by microarrays is a critical issue. Therefore, other biological information obtained by non-destructive testing is desirable; one such piece of information is Raman spectra measured by Raman spectroscopy. …”
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Comparative Analysis of Serum microRNA in Diagnosed Ocular Sarcoidosis versus Idiopathic Uveitis with Ocular Manifestations of Sarcoidosis by Shoko Saito, Hiroshi Keino, Ichiro Takasaki, Shinya Abe, Hideo Kohno, Kousuke Ichihara, Isami Hayashi, Makiko Nakayama, Yukihiro Tsuboshita, Sawako Miyoshi, Susumu Okamoto, Annabelle A. Okada

“…We used microRNA (miRNA) microarrays to investigate serum miRNA profiles of patients with ocular sarcoidosis as diagnosed by specific criteria (diagnosed ocular sarcoidosis), and patients with idiopathic uveitis characterized by ocular manifestations of sarcoidosis (suspected ocular sarcoidosis). …”
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Profiling of Non-Coding Regulators and Their Targets in Epicardial Fat from Patients with Coronary Artery Disease by Brendin Flinn, Christopher Adams, Nepal Chowdhury, Todd Gress, Nalini Santanam

“…Previous reports have demonstrated that epicardial fat plays key roles in coronary artery disease, but the non-coding RNA and transcriptomic alterations of epicardial fat in coronary artery disease have not been investigated thoroughly. Micro- and lncRNA microarrays followed by GO-KEGG functional enrichment analysis demonstrated sex-dependent unique mi/lncRNAs altered in human epicardial fat in comparison to subcutaneous fat in both patients with and without coronary artery disease (IRB approved). …”
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Dexamethasone impairs the expression of antimicrobial mediators in lipopolysaccharide-activated primary macrophages by inhibiting both expression and function of interferon β by John D. O’Neil, Oliwia O. Bolimowska, Sally A. Clayton, Tina Tang, Kalbinder K. Daley, Samuel Lara-Reyna, Jordan Warner, Claire S. Martin, Rahul Y. Mahida, Rowan S. Hardy, J. Simon C. Arthur, Andrew R. Clark

“…However, they can have several unwanted effects, amongst which immunosuppression is one of the most common. Here we used microarrays and proteomic approaches to characterise the effect of dexamethasone (a synthetic glucocorticoid) on the responses of primary mouse macrophages to a potent pro-inflammatory agonist, lipopolysaccharide (LPS). …”
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Serum Extracellular Vesicle-Derived hsa-miR-2277-3p and hsa-miR-6813-3p Are Potential Biomarkers for Major Depression: A Preliminary Study by Issei Seki, Hiroto Izumi, Naomichi Okamoto, Atsuko Ikenouchi, Yasuo Morimoto, Seichi Horie, Reiji Yoshimura

“…The miRNAs contained in EVs were extracted using a nanofiltration method, and their expression levels were analyzed using miRNA microarrays. Intergroup comparisons were performed to validate the diagnostic performance of miRNAs in EVs. …”
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DDPM: A Dengue Disease Prediction and Diagnosis Model Using Sentiment Analysis and Machine Learning Algorithms by Gaurav Gupta, Shakir Khan, Vandana Guleria, Abrar Almjally, Bayan Ibrahimm Alabduallah, Tamanna Siddiqui, Bader M. Albahlal, Saad Abdullah Alajlan, Mashael AL-subaie

“…In developing dengue predictive models, data from microarrays and RNA-Seq have been used significantly. …”
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Highly Sensitive Circulating MicroRNA Panel for Accurate Detection of Hepatocellular Carcinoma in Patients With Liver Disease by Yusuke Yamamoto, Shunsuke Kondo, Juntaro Matsuzaki, Minoru Esaki, Takuji Okusaka, Kazuaki Shimada, Yoshiki Murakami, Masaru Enomoto, Akihiro Tamori, Ken Kato, Yoshiaki Aoki, Satoko Takizawa, Hiromi Sakamoto, Shumpei Niida, Fumitaka Takeshita, Takahiro Ochiya

“…In this study, to improve patient outcomes, serum samples from 345 patients with HCC, 46 patients with chronic hepatitis (CH), 93 patients with liver cirrhosis (LC), and 1,033 healthy individuals were analyzed with microRNA (miRNA) microarrays. We investigated the diagnostic potential of circulating miRNAs in serum and developed a detection model of HCC, including early stage. …”
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