The Prognostic Significance of Tumor-Infiltrating Lymphocytes, PD-L1, BRCA Mutation Status and Tumor Mutational Burden in Early-Stage High-Grade Serous Ovarian Carcinoma—A Study by... by David Pizarro, Ignacio Romero, Belén Pérez-Mies, Andrés Redondo, Tamara Caniego-Casas, Irene Carretero-Barrio, Eva Cristóbal, Ana Gutiérrez-Pecharromán, Ana Santaballa, Emanuela D’Angelo, David Hardisson, Begoña Vieites, Xavier Matías-Guiu, Purificación Estévez, Eva Guerra, Jaime Prat, Andrés Poveda, José Antonio López-Guerrero, José Palacios

“…Intraepithelial (i) and stromal (s) CD8+ and CD4+ T cells and PD-L1 were evaluated on tissue microarrays by immunohistochemistry. <i>BRCA1</i> and <i>BRCA2</i> mutation status and TMB were analyzed in tumor DNA using next-generation sequencing. …”
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Flow-dependent shear stress affects the biological properties of pericyte-like cells isolated from human dental pulp by Giulia Bertani, Rosanna Di Tinco, Laura Bertoni, Giulia Orlandi, Alessandra Pisciotta, Roberto Rosa, Luca Rigamonti, Michele Signore, Jessika Bertacchini, Paola Sena, Sara De Biasi, Erica Villa, Gianluca Carnevale

“…The angiogenic potential and inflammatory properties of hDPSCs were evaluated through reverse phase protein microarrays (RPPA), confocal immunofluorescence and western blot analyses. …”
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A phase IIb randomized placebo-controlled trial testing the effect of MAG-EPA long-chain omega-3 fatty acid dietary supplement on prostate cancer proliferation by Karine Robitaille, Marie-Hélène Guertin, Afshin Jamshidi, Hui Wen Xu, Hélène Hovington, Jean-François Pelletier, Lisanne Beaudoin, Nikunj Gevariya, Louis Lacombe, Rabi Tiguert, Yves Caumartin, Thierry Dujardin, Paul Toren, Michele Lodde, Étienne Racine, Dominique Trudel, Martine Perigny, Thierry Duchesne, Josée Savard, Pierre Julien, Yves Fradet, Vincent Fradet

“…The primary outcome was the cancer proliferation index quantified by automated image analysis of tumor nuclear Ki-67 expression using standardized prostatectomy tissue microarrays. Additional planned outcomes at surgery are reported including plasma levels of 27 inflammatory cytokines and fatty acid profiles in circulating red blood cells membranes and prostate tissue. …”
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Panomics reveals patient individuality as the major driver of colorectal cancer progression by Friederike Praus, Axel Künstner, Thorben Sauer, Michael Kohl, Katharina Kern, Steffen Deichmann, Ákos Végvári, Tobias Keck, Hauke Busch, Jens K. Habermann, Timo Gemoll

“…Somatic mutations of known cancer-related genes were analysed using Illumina's TruSeq Amplicon Cancer Panel; the transcriptome was assessed comprehensively using Clariom D microarrays. The global proteome was evaluated by liquid chromatography-coupled mass spectrometry (LC‒MS/MS) and validated by two-dimensional difference in-gel electrophoresis. …”
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MARCKSL1 interacted with F‐actin to promote esophageal squamous cell carcinoma mobility by modulating the formation of invadopodia by Yue Zhao, Xiufeng Xie, Lusong Tian, Fang Liu, Yulin Sun, Haizhen Lu, Xiaohang Zhao, Yousheng Mao

“…Finally, the correlation between MARCKSL1 and the clinicopathological features of ESCC patients was assessed based on TCGA database analysis and immunohistochemistry staining of tissue microarrays. Results Knockdown of MARCKSL1 markedly attenuated the cell motility capacity of ESCC cells in vitro, while MARCKSL1 overexpression had the opposite effect. …”
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Autoimmune PaneLs as PrEdictors of Toxicity in Patients TReated with Immune Checkpoint InhibiTors (ALERT) by Sofia Genta, Katherine Lajkosz, Noelle R. Yee, Pavlina Spiliopoulou, Alya Heirali, Aaron R. Hansen, Lillian L. Siu, Sam Saibil, Lee-Anne Stayner, Maryia Yanekina, Maxwell B. Sauder, Sareh Keshavarzi, Abdulazeez Salawu, Olga Vornicova, Marcus O. Butler, Philippe L. Bedard, Albiruni R. Abdul Razak, Robert Rottapel, Andrzej Chruscinski, Bryan Coburn, Anna Spreafico

“…Methods We used custom autoantigen (AutoAg) microarrays to profile AutoAb related to irAEs in patients receiving ICI. …”
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Low Tumor-to-Stroma Ratio Reflects Protective Role of Stroma against Prostate Cancer Progression by Paulina Nastały, Julia Smentoch, Marta Popęda, Emanuele Martini, Paolo Maiuri, Anna J. Żaczek, Marek Sowa, Marcin Matuszewski, Jolanta Szade, Leszek Kalinowski, Magdalena Niemira, Burkhard Brandt, Elke Eltze, Axel Semjonow, Natalia Bednarz-Knoll

“…The feasibility of automated quantification was tested in digital scans of tissue microarrays containing 128 primary tumors from 72 PCa patients stained immunohistochemically for epithelial cell adhesion molecule (EpCAM), followed by validation in a cohort of 310 primary tumors from 209 PCa patients. …”
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Low nuclear expression of HIF‐hydroxylases PHD2/EGLN1 and PHD3/EGLN3 are associated with poor recurrence‐free survival in clear cell renal cell carcinoma by Lassi Luomala, Kalle Mattila, Paula Vainio, Harry Nisén, Teijo Pellinen, Jouni Lohi, Teemu D. Laajala, Petrus Järvinen, Anna‐Riina Koskenniemi, Panu Jaakkola, Tuomas Mirtti

“…An external validation cohort of 191 patients was obtained from Turku University Hospital (TUH), Finland. Tissue‐microarrays (TMA) were constructed using the primary tumor samples. …”
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Exploring the metabolic and molecular benefits of methyl donor supplementation in a model of metabolic and fatty liver disease by Angel Vazquez-Esqueda, Rebeca Rosas-Campos, Rebeca Escutia-Gutiérrez, Ricardo de la Rosa-Bibiano, Samael Rodríguez-Sanabria, Marina Galicia-Moreno, Juan Armendáriz-Borunda, Ana Sandoval-Rodríguez

“…In the liver, global DNA methylation was quantified and the transcriptome was analyzed using dual-channel microarrays. Proteomic analysis was carried out by immunoblotting. …”
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Influence of tumor-infiltrating immune cells on local control rate, distant metastasis, and survival in patients with soft tissue sarcoma by Maria A Smolle, Laurin Herbsthofer, Mark Goda, Barbara Granegger, Iva Brcic, Marko Bergovec, Susanne Scheipl, Barbara Prietl, Amin El-Heliebi, Martin Pichler, Armin Gerger, Florian Posch, Martina Tomberger, Pablo López-García, Julia Feichtinger, Claudia Baumgartner, Andreas Leithner, Bernadette Liegl-Atzwanger, Joanna Szkandera

“…One-hundred-eighty-eight STS-patients (87 females [46.3%]; median age: 62.5 years) were retrospectively analyzed. Tissue microarrays (in total 1266 cores) were stained with multiplex immunohistochemistry and analyzed with multispectral imaging. …”
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Interplay between Caveolin-1 and body and tumor size affects clinical outcomes in breast cancer by Christopher Godina, Vineesh Indira Chandran, Magdalena Barbachowska, Helga Tryggvadottir, Björn Nodin, Edward Visse, Signe Borgquist, Karin Jirström, Karolin Isaksson, Ana Bosch, Mattias Belting, Helena Jernström

“…Methods: CAV1 levels were evaluated with immunohistochemistry in cytoplasm of invasive tumor cells and stromal cells in tumor tissue microarrays from a cohort of 1018 breast cancer patients (inclusion 2002–2012, Sweden). …”
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B7-H3 Expression in Breast Cancer and Brain Metastasis by Vaibhavi Joshi, Kate Beecher, Malcolm Lim, Andrew Stacey, Yufan Feng, Parmjit S. Jat, Pascal H. G. Duijf, Peter T. Simpson, Sunil R. Lakhani, Amy E. McCart Reed

“…B7-H3 expression was investigated using immunohistochemistry on tissue microarrays of three clinical cohorts: (i) unselected primary breast cancers (n = 347); (ii) brain metastatic breast cancers (n = 61) and breast cancer brain metastases (n = 80, including a subset of 53 patient-matched breast and brain metastasis cases); and (iii) mixed brain metastases from a range of primary tumours (n = 137). …”
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Predicting rectal cancer prognosis from histopathological images and clinical information using multi-modal deep learning by Yixin Xu, Jiedong Guo, Na Yang, Can Zhu, Tianlei Zheng, Weiguo Zhao, Jia Liu, Jun Song, Jun Song

“…Patients were allocated to training and testing sets in a randomized manner, with a ratio of 4:1. The tissue microarrays (TMAs) and clinical indicators were obtained. …”
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The prominent role of the S100A8/S100A9-CD147 axis in the progression of penile cancer by Tobias Mohr, Anabel Zwick, Muriel Charlotte Hans, Isabelle Ariane Bley, Felix Leon Braun, Oybek Khalmurzaev, Oybek Khalmurzaev, Vsevolod Borisovich Matveev, Philine Loertzer, Alexey Pryalukhin, Alexey Pryalukhin, Arndt Hartmann, Carol-Immanuel Geppert, Hagen Loertzer, Heiko Wunderlich, Carsten Maik Naumann, Holger Kalthoff, Kerstin Junker, Sigrun Smola, Stefan Lohse

“…We thus examined their expression using immunohistochemistry staining of PeCa specimens from 74 patients on tissue microarrays of the tumor center, the invasion front, and lymph node metastases. …”
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CDX2 in colorectal cancer is an independent prognostic factor and regulated by promoter methylation and histone deacetylation in tumors of the serrated pathway by Janina Graule, Kristin Uth, Elia Fischer, Irene Centeno, José A. Galván, Micha Eichmann, Tilman T. Rau, Rupert Langer, Heather Dawson, Ulrich Nitsche, Peter Traeger, Martin D. Berger, Beat Schnüriger, Marion Hädrich, Peter Studer, Daniel Inderbitzin, Alessandro Lugli, Mario P. Tschan, Inti Zlobec

“…Methods CDX2 immunohistochemistry was performed on multi-punch tissue microarrays (n = 637 patients). Promoter methylation and protein expression investigated on 11 colorectal cancer cell lines identified two CDX2 low expressors (SW620, COLO205) for treatment with decitabine (DNA methyltransferase inhibitor), trichostatin A (TSA) (general HDAC inhibitor), and LMK-235 (specific HDAC4 and HDAC5 inhibitor). …”
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Exosomal FMR1-AS1 facilitates maintaining cancer stem-like cell dynamic equilibrium via TLR7/NFκB/c-Myc signaling in female esophageal carcinoma by Wei Li, Liyuan Zhang, Binbin Guo, Jieqiong Deng, Siqi Wu, Fang Li, Yirong Wang, Jiachun Lu, Yifeng Zhou

“…Methods We re-annotated a large cohort of microarrays on 179 ESCC patients and identified female-specific differently expressed lncRNAs. …”
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Protective Vaccination Reshapes Hepatic Response to Blood-Stage Malaria of Genes Preferentially Expressed by NK Cells by Marcos J. Araúzo-Bravo, Denis Delic, Daniela Gerovska, Frank Wunderlich

“…Genes preferentially expressed by NK cells were investigated in livers of vaccination-protected and non-protected mice on days 0, 1, 4, 8, and 11 <i>p.i.</i> using microarrays, qRT-PCR, and chromosome landscape analysis. …”
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Identifying effective diagnostic biomarkers and immune infiltration features in chronic kidney disease by bioinformatics and validation by Tao Liu, Tao Liu, Xing Xing Zhuang, Xiu Juan Qin, Liang Bing Wei, Jia Rong Gao, Jia Rong Gao

“…However, there is still a lack of effective and reliable diagnostic markers and therapeutic targets for CKD.Methods: First, we merged data from GEO microarrays (GSE104948 and GSE116626) to identify differentially expressed genes (DEGs) in CKD and healthy patient samples. …”
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Tumor Microenvironment in Male Breast Carcinoma with Emphasis on Tumor Infiltrating Lymphocytes and PD-L1 Expression by Iva Brcic, Andrea Maria Kluba, Theresa Marie Godschachner, Christoph Suppan, Peter Regitnig, Nadia Dandachi, Sigurd Friedwald Lax, Marija Balić

“…We performed immunohistochemistry for PD-L1 (clone SP142) and pan-TRK (clone EPR17341) on tissue microarrays. Pan-TRK positive cases were further analyzed by next-generation sequencing. …”
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Functional status and spatial architecture of tumor-infiltrating CD8+ T cells are associated with lymph node metastases in non-small cell lung cancer by Guanqun Yang, Siqi Cai, Mengyu Hu, Chaozhuo Li, Liying Yang, Wei Zhang, Jujie Sun, Fenghao Sun, Ligang Xing, Xiaorong Sun

“…However, the exact functional feature and spatial architecture of tumor-infiltrating CD8 + T cells remain unclear in these patients. Methods Tissue microarrays (TMAs) from 279 IA-IIIB NSCLC samples were stained by multiplex immunofluorescence (mIF) for 11 markers (CD8, CD103, PD-1, Tim3, GZMB, CD4, Foxp3, CD31, αSMA, Hif-1α, pan-CK). …”
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