Ordering of Omics Features Using Beta Distributions on Montecarlo <i>p</i>-Values by Angela L. Riffo-Campos, Guillermo Ayala, Juan Domingo

“…We have also identified a new expression pattern of eighteen genes common to all colorectal cancer microarrays, i.e., 21 datasets. Thus, the proposed method is effective for obtaining biological results using different datasets. …”
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Treg-selective IL-2 starvation synergizes with CD40 activation to sustain durable responses in lymphoma models by Alexandar Tzankov, Nicole Joller, Onur Boyman, Anne Müller, Kristin Stirm, Peter Leary, Daria Wüst, Dominique Stark, Ufuk Karakus

“…Although the presence of ‘effector’ Tregs in particular is associated with an inferior prognosis in patients on standard rituximab plus cyclophosphamide, doxorubicin, vincristine, and prednisone (R-CHOP) immunochemotherapy, the role of this cell type during lymphoma initiation and progression is poorly understood.Methods Here, we use tissue microarrays containing prospectively collected DLBCL patient specimens, as well as data from publicly available cohorts to explore the mutational landscape of Treg-infiltrated DLBCL. …”
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High FAM111B expression predicts aggressive clinicopathologic features and poor prognosis in ovarian cancer by Fang Wei, Guoyu Yu, Chaozeng Si, Tengfei Chao, Huihua Xiong, Lihong Zhang

“…Methods: Immunohistochemistry of tissue microarrays was performed to detect FAM111B expression levels in 141 OC patient tissues. …”
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The Study of the Immune Layer to the Cholera Agent in Individuals Living in the Republic of Guinea by D. V. Utkin, E. V. Naidenova, K. A. Nikiforov, A. V. Boiko, D. A. Agafonov, M. N. Lyapin, A. A. Lopatin, I. Bangoura, T. D. Camara, S. Boumbaly, M. Y. Boiro

“…At the same time, the stated methods have several drawbacks which can be eliminated when using biological microarrays to detect specific antibodies. Object of work. …”
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NDRG1 is a prognostic biomarker in breast cancer and breast cancer brain metastasis by Vaibhavi Joshi, Andrew Stacey, Yufan Feng, Priyakshi Kalita‐de Croft, Pascal HG Duijf, Peter T Simpson, Sunil R Lakhani, Amy E McCart Reed

“…NDRG1 expression was investigated using immunohistochemistry on tissue microarrays of two clinical cohorts: (i) brain metastatic breast cancers (n = 48) and brain metastases (n = 64; including a subset of 39 patient‐matched breast and brain metastasis cases) and (ii) unselected primary breast cancers (n = 336). …”
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Ephrin Receptors (Ephs) Expression in Thymic Epithelial Tumors: Prognostic Implications and Future Therapeutic Approaches by Christos Masaoutis, Natalia Georgantzoglou, Panagiotis Sarantis, Irene Theochari, Nikolaos Tsoukalas, Mattheos Bobos, Paraskevi Alexandrou, Alexandros Pergaris, Dimitra Rontogianni, Stamatios Theocharis

“…Here, immunohistochemical Eph type-A and -B expression in thymic epithelial tumors (TETs) was assessed and correlated with clinicopathological parameters. Tissue microarrays from 98 TETs were stained for EphA1, -A2, -A4 -A6, -B1, -B2, -B4 and -B6. …”
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MiR-539-3p inhibited chondrogenic differentiation in human adipose stem cells by targeting Sox9 by Feng Qin, Fang Wang, Xiao-Ping Wang, Jie Chen, Feng-hua Zeng, Cui-Lan Sun, Jia-Cuo Peng Mao, Chun-Liang Li

“…MiR-539-3p was reported to differentially express during chondrogenic differentiation of adipose stem cells (ASCs) by miRNA microarrays. The aim of the study was to investigate the effects and underlying mechanisms of miR-539-3p on chondrogenic differentiation of ASCs. …”
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Adaptive and innate immune responses in multiple sclerosis with anti-CD20 therapy: Gene expression and protein profiles by Chloe C. Fong, Julian Spencer, Quentin Howlett-Prieto, Xuan Feng, Anthony T. Reder

“…Peripheral blood mononuclear cells (PBMC) were analyzed with sensitive, 135,000-transcript RNA expression microarrays, using stringent criteria. Gene expression was compared to 43 MS-relevant serum immune and neurotrophic proteins, using multiplex protein assays.ResultsAnti-CD20 therapy reduced expression of 413 total genes and 185 B-cell-regulated genes at 2  weeks vs. pre-therapy. …”
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Integrated bioinformatics analysis reveals marker genes and immune infiltration for pulmonary arterial hypertension by Shengxin Tang, Yue Liu, Bin Liu

“…The purpose of this research is to detect the underlying key genes and potential mechanism of PAH using several bioinformatic methods. The microarrays GSE22356, GSE131793 and GSE168905 were acquired from the GEO. …”
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Comparison of Proteomic Technologies for Blood-Based Detection of Colorectal Cancer by Megha Bhardwaj, Tobias Terzer, Petra Schrotz-King, Hermann Brenner

“…The concentrations of protein biomarkers were measured using proximity extension assays (PEAs), liquid chromatography/multiple reaction monitoring–mass spectrometry (LC/MRM-MS) and quantibody microarrays (QMAs) in plasma samples of 56 CRC patients and 99 participants free of neoplasms. …”
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Application of Immunoprofiling Using Multiplexed Immunofluorescence Staining Identifies the Prognosis of Patients with High-Grade Serous Ovarian Cancer by Shin-Wha Lee, Ha-Young Lee, Sung Wan Kang, Min Je Kim, Young-Jae Lee, Chang Ohk Sung, Yong-Man Kim

“…This study is to investigate immunoprofiling which could be a prognostic factor in HGSOC. We produced tumor microarrays of 187 patients diagnosed with HGSOC. We performed a multiplexed immunofluorescence staining using Opal Multiplex IHC kit and quantitative analysis with Vectra-Inform system. …”
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Integrated Weighted Gene Co-expression Network Analysis Identified That TLR2 and CD14 Are Related to Coronary Artery Disease by Bin Qi, Jian-Hong Chen, Lin Tao, Chuan-Meng Zhu, Yong Wang, Guo-Xiong Deng, Liu Miao

“…Then, further functional validation of hub genes in other microarrays and population samples was performed, and survival analysis was performed to investigate the prognosis. …”
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N6-methyladenosine regulator-mediated methylation modification patterns and immune infiltration characterization in Polycystic Ovary Syndrome (PCOS) by Sihan Zhou, Rui Hua, Song Quan

“…Materials and methods Four mRNA expression profiling microarrays were obtained from the Gene Expression Omnibus (GEO) database. …”
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Generation, annotation, analysis and database integration of 16,500 white spruce EST clusters by Siddiqui Asim, Kirkpatrick Robert, Stott Jeff, Liu Jerry, Yang George, Barber Sarah, Butterfield Yaron, Guillet-Claude Carine, Noumen Etienne, Johnson James E, Cooke Janice, Morency Marie-Josee, Crow John A, Parsons Lee, Paule Charles, Pavy Nathalie, Holt Robert, Marra Marco, Seguin Armand, Retzel Ernest, Bousquet Jean, MacKay John

“…Our objective was to produce extensive collections of ESTs and cDNA clones to support manufacture of cDNA microarrays and gene discovery in white spruce (<it>Picea glauca </it>[Moench] Voss).…”
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Immunohistochemical based molecular subtypes of muscle-invasive bladder cancer: association with HER2 and EGFR alterations, neoadjuvant chemotherapy response and survival by Duaa S. Helal, Sara A. Darwish, Radwa A. Awad, Dina A. Ali, Dina M. El-Guindy

“…HER2/EGFR status of MIBC subtypes has not been investigated. Tissue microarrays (TMAs) were constructed from transurethral resection of the bladder tumor (TURB) specimens and stained with GATA3,CK5/6,p53 and HER2 in addition to Quantitative Reverse Transcription PCR for detection of EGFR gene. …”
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Global transcriptome analysis of two <it>ameiotic1 </it>alleles in maize anthers: defining steps in meiotic entry and progression through prophase I by Fernandes John F, Wang Rachel C, Ronceret Arnaud, Nan Guo-Ling, Cande W Zacheus, Walbot Virginia

“…</p> <p>Results</p> <p>1.0 mm and 1.5 mm anthers of <it>am1-489 </it>and <it>am1-praI </it>were profiled in comparison to fertile siblings on Agilent^®4 × 44 K microarrays. Both <it>am1-489 </it>and <it>am1-praI </it>anthers are cytologically normal at 1.0 mm and show moderate transcriptome alterations. …”
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Down‐regulation of miR‐146a‐5p and its potential targets in hepatocellular carcinoma validated by a TCGA‐ and GEO‐based study by Xin Zhang, Zhi‐hua Ye, Hai‐wei Liang, Fang‐hui Ren, Ping Li, Yi‐wu Dang, Gang Chen

“…A meta‐analysis of the GEO‐based microarrays, TCGA‐based RNA‐seq data, and additional qRT‐PCR data validated the down‐regulation of miR‐146a‐5p in HCC and no publication bias was observed. …”
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Reactivity Graph Yields Interpretable IgM Repertoire Signatures as Potential Tumor Biomarkers by Dilyan Ferdinandov, Viktor Kostov, Maya Hadzhieva, Velizar Shivarov, Peter Petrov, Assen Bussarsky, Anastas Dimitrov Pashov

“…The probes were designed as oriented planar microarrays of 4526 peptide sequences (as overlapping 15-mers) derived from 24 tumor-associated antigens and 209 cancer-related B cell epitopes from 30 viral antigens. …”
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Identification of the Key Genes Involved in Proline-Mediated Modification of Cell Wall Components in Rice Seedlings under Trivalent Chromium Exposure by Abid Ullah, Yu-Juan Lin, Hua Zhang, Xiao-Zhang Yu

“…Based on the expression abundance of microarrays, the number of differentially expressed genes, and the expression level of genes, the lignin pathway was a crucial pathway in response to Cr treatments, followed by the cellulose pathway. …”
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A comprehensive meta-analysis of transcriptome data to identify signature genes associated with pancreatic ductal adenocarcinoma. by Shirin Omidvar Kordshouli, Ahmad Tahmasebi, Ali Moghadam, Amin Ramezani, Ali Niazi

“…<h4>Methods</h4>Several transcriptomic datasets comprising of 11 microarrays were retrieved from the GEO database. After pre-processing, a meta-analysis was applied to identify differentially expressed genes (DEGs) between tumor and nontumor samples for datasets. …”
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