Reconstruction and functional analysis of altered molecular pathways in human atherosclerotic arteries by Iafrancesco Mauro, Faggian Giuseppe, Laveder Paolo, Pasquali Alessandra, Trabetti Elisabetta, Patuzzo Cristina, Biscuola Michele, Cagnin Stefano, Mazzucco Alessandro, Pignatti Pier Franco, Lanfranchi Gerolamo

“…</p> <p>Results</p> <p>We used DNA microarrays and meta-analysis to study how the presence of calcified plaque modifies human coronary and carotid gene expression. …”
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Podocalyxin Is a Marker of Poor Prognosis in Pancreatic Ductal Adenocarcinoma. by Kapo Saukkonen, Jaana Hagström, Harri Mustonen, Anne Juuti, Stig Nordling, Christian Fermér, Olle Nilsson, Hanna Seppänen, Caj Haglund

“…The aim of this study was to investigate podocalyxin expression in PDAC by a novel monoclonal antibody and a commercially available polyclonal antibody.With tissue microarrays and immuno-histochemistry, podocalyxin expression evaluation involved 168 PDAC patients. …”
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Plasma miR-122 and miR-3149 Potentially Novel Biomarkers for Acute Coronary Syndrome. by Xiangdong Li, Yuejin Yang, Laiyuan Wang, Shubin Qiao, Xiangfeng Lu, Yongjian Wu, Bo Xu, Hongfan Li, Dongfeng Gu

“…We evaluated the potentiality of plasma microRNAs (miRNAs, or miRs) that were considered as novel biomarkers for acute coronary syndrome (ACS), including acute myocardial infarction (AMI) and unstable angina (UA).We initially identified plasma miR-122, -140-3p, -144, -720, -1225-3p, -2861, and -3149 as candidate miRNAs associated with AMI (≥2 fold and P < 0.05) by comparing expression differences of miRNAs among AMI, non-coronary heart disease (non-CHD) and stable angina (SA) groups, using miRNA microarrays (n = 8 independent arrays in each group). …”
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Expression of chemokine CXCL5 and programme death ligand 1 in colorectal cancer tissues are associated with prognosis of patients by LIU Shiguang, ZHAO Jingkun, LU Aiguo, MAO Zhihai

“…The clinical data were gotten and follow-up were done for prognosis. Tissue microarrays were made from all specimens and immunohistochemical staining was performed. …”
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Clinicopathologic Characteristics of Breast Cancer According to the Infiltrating Immune Cell Subtypes by Hye Min Kim, Ja Seung Koo

“…To identify tumor-infiltrating immune cell subtypes in breast cancer and investigate their implications, tissue microarrays were constructed using 334 cases of invasive ductal carcinoma (luminal A type: 162 (48.5%), luminal B type: 96 (28.7%), HER-2 type: 21 (6.3%), and triple negative breast cancer: 55 (16.5%)). …”
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Gene set enrichment in eQTL data identifies novel annotations and pathway regulators. by Chunlei Wu, David L Delano, Nico Mitro, Stephen V Su, Jeff Janes, Phillip McClurg, Serge Batalov, Genevieve L Welch, Jie Zhang, Anthony P Orth, John R Walker, Richard J Glynne, Michael P Cooke, Joseph S Takahashi, Kazuhiro Shimomura, Akira Kohsaka, Joseph Bass, Enrique Saez, Tim Wiltshire, Andrew I Su

“…Recently, many studies have used microarrays to measure gene expression levels across genetic mapping populations. …”
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Expression levels of cleaved caspase-3 and caspase-3 in tumorigenesis and prognosis of oral tongue squamous cell carcinoma. by Pei-Feng Liu, Yu-Chang Hu, Bor-Hwang Kang, Yu-Kai Tseng, Pi-Chuang Wu, Chi-Chuang Liang, Yu-Yi Hou, Ting-Ying Fu, Huei-Han Liou, I-Chien Hsieh, Luo-Ping Ger, Chih-Wen Shu

“…In this study, we examined the protein levels of cleaved caspase-3, caspase-3, caspase-8, and caspase-9 on tissue microarrays consisting of samples from 246 OTSCC patients by immunohistochemistry. …”
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DNA methylation alterations at RE1-silencing transcription factor binding sites and their flanking regions in cancer by Ana Florencia Vega-Benedetti, Eleonora Loi, Loredana Moi, Patrizia Zavattari

“…Results Differential methylation analyses focused on REST binding sites and their flanking regions were conducted between tumour and normal samples from our experimental datasets analysed by Illumina microarrays and the identified alterations were validated using publicly available datasets. …”
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Quantitative methods for linking transcriptional profiles to physiology by Misra, Jatin, 1976-

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Expression of vascular notch ligand delta-like 4 and inflammatory markers in breast cancer. by Jubb, A, Soilleux, E, Turley, H, Steers, G, Parker, A, Low, I, Blades, J, Li, J, Allen, P, Leek, R, Noguera-Troise, I, Gatter, K, Thurston, G, Harris, A

“…We examined 296 breast adenocarcinomas and 38 ductal carcinoma in situ tissues that were represented in tissue microarrays. Additional whole sections representing 10 breast adenocarcinomas, 10 normal breast tissues, and 16 angiosarcomas were included. …”

Overexpression of the oxygen sensors PHD-1, PHD-2, PHD-3, and FIH Is associated with tumor aggressiveness in pancreatic endocrine tumors. by Couvelard, A, Deschamps, L, Rebours, V, Sauvanet, A, Gatter, K, Pezzella, F, Ruszniewski, P, Bedossa, P

“…EXPERIMENTAL DESIGN: Immunohistochemical expression of these markers was examined in 109 PET included in tissue microarrays and representing various stages of tumorigenesis. …”

Cytoplasmic location of factor-inhibiting hypoxia-inducible factor is associated with an enhanced hypoxic response and a shorter survival in invasive breast cancer. by Tan, E, Campo, L, Han, C, Turley, H, Pezzella, F, Gatter, K, Harris, A, Fox, S

“…The present study investigates the role of FIH-1 in invasive breast carcinoma and its correlation with hypoxia. METHODS: Microarrayed tissue cores from 295 invasive carcinomas were stained for FIH-1, for HIF-1alpha and for carbonic anhydrase 9. …”

Immunohistochemical detection of cysteine-rich secretory protein 3 in tissue and in serum from men with cancer or benign enlargement of the prostate gland. by Bjartell, A, Johansson, R, Björk, T, Gadaleanu, V, Lundwall, A, Lilja, H, Kjeldsen, L, Udby, L

“…METHODS: Radical prostatectomy specimens and tissue microarrays from transurethral resections and metastases were analyzed for CRISP-3 and PSA by immunohistochemistry. …”

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

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

Gene copy number variation in natural populations of Plasmodium falciparum in Eastern Africa by Simam, J, Rono, M, Ngoi, J, Nyonda, M, Mok, S, Marsh, K, Bozdech, Z, Mackinnon, M

“…</p> <h4>Results</h4> <p>In a survey of 183 fresh field isolates from three populations in Eastern Africa with different malaria transmission intensities, we identified 94 CNV loci using microarrays. All CNVs had low population frequencies (minor allele frequency &lt; 5%) but each parasite isolate carried an average of 8 CNVs. …”

Eight-plex iTRAQ analysis of variant metastatic human prostate cancer cells identifies candidate biomarkers of progression: An exploratory study. by Glen, A, Evans, C, Gan, C, Cross, S, Hamdy, F, Gibbins, J, Lippitt, J, Eaton, C, Noirel, J, Wright, P, Rehman, I

“…Immunostaining of prostate tissue microarrays for ERp5, one of the candidates identified, showed a significant higher immunoexpression in pre-malignant lesions compared with non-malignant epithelium (P &lt; 0.0001, Mann-Whitney U-test), and in high Gleason grade (4-5) versus low grade (2-3) cancers (P &lt; 0.05). …”

TREM-1 expression is increased in the synovium of rheumatoid arthritis patients and induces the expression of pro-inflammatory cytokines. by Kuai, J, Gregory, B, Hill, A, Pittman, D, Feldman, J, Brown, T, Carito, B, O'Toole, M, Ramsey, R, Adolfsson, O, Shields, K, Dower, K, Hall, J, Kurdi, Y, Beech, J, Nanchahal, J, Feldmann, M, Foxwell, B, Brennan, F, Winkler, D, Lin, L

“…METHODS: Twenty-four RA synovial samples were analysed by gene expression oligonucleotide microarrays. Expression levels of TREM-1 mRNA in murine CIA paws were determined by quantitative PCR (qPCR). …”

Artemisinin resistance in Plasmodium falciparum is associated with an altered temporal pattern of transcription. by Mok, S, Imwong, M, Mackinnon, M, Sim, J, Ramadoss, R, Yi, P, Mayxay, M, Chotivanich, K, Liong, K, Russell, B, Socheat, D, Newton, P, Day, N, White, N, Preiser, P, Nosten, F, Dondorp, A, Bozdech, Z

“…To identify key features associated with the delayed parasite clearance phenotype, we employed DNA microarrays to profile the physiological gene expression pattern of the resistant isolates. …”

Development of an objective gene expression panel as an alternative to self-reported symptom scores in human influenza challenge trials by Muller, J, Parizotto, E, Antrobus, R, Francis, J, Bunce, C, Stranks, A, Nichols, M, McClain, M, Hill, A, Ramasamy, A, Gilbert, S

“…Whole blood collected at baseline and 24, 48, 72 and 96 hours post challenge was profiled on Illumina HT12v4 microarrays. Changes in gene expression most strongly correlated with DSS were selected to train a Random Forest model and tested on two independent test sets consisting of 41 individuals profiled on a differentmicroarray platform and 33 volunteers assayed by qRT-PCR. …”

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). …”