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Journal articles on the topic 'Low-density microarray'

Author: Grafiati

Published: 21 February 2023

Last updated: 31 July 2025

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1

Lacroix, M., N. Zammatteo, J. Remacle, and G. Leclercq. "A Low-Density DNA Microarray for Analysis of Markers in Breast Cancer." International Journal of Biological Markers 17, no. 1 (2002): 5–23. http://dx.doi.org/10.1177/172460080201700102.

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Breast cancer remains a major cause of death in women from Western countries. In the near future, advances in both nucleic acids technology and tumor biology should be widely exploited to improve the diagnosis, prognosis, and outcome prediction of this disease. The DNA microarray, also called biochip, is a promising tool for performing massive, simultaneous, fast, and standardized analyses of multiple molecular markers in tumor samples. However, most currently available microarrays are expensive, which is mainly due to the amount (several thousands) of different DNA capture sequences that they

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Kim, MinGin, Jongwon Kim, Sun-Hee Kim, and Jong-Dae Kim. "Fast Spot Locating for Low-Density DNA Microarray." Sensors 25, no. 7 (2025): 2135. https://doi.org/10.3390/s25072135.

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Low-density DNA microarrays are crucial in molecular diagnostics due to their cost-effectiveness and high sensitivity. However, reliable spot localization remains challenging due to positional variations and image artifacts. Traditional intensity-based methods often struggle with weak fluorescence signals. To address this, we propose a rapid spot localization method that combines template matching with point pattern matching, enhanced through vectorized programming and square (box) templates. Vectorized programming accelerated the most time-consuming calculation by 82 times on a PC and was 600

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Álvarez, Patricia, Pilar Sáenz, David Arteta, et al. "Transcriptional Profiling of Hematologic Malignancies with a Low-Density DNA Microarray." Clinical Chemistry 53, no. 2 (2007): 259–67. http://dx.doi.org/10.1373/clinchem.2006.075887.

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Abstract Background: High-density microarrays are powerful tools for expression analysis of thousands of genes simultaneously; however, experience with low-density microarrays in gene expression studies has been limited. Methods: We developed an optimized procedure for gene expression analysis based on a microarray containing 538 oligonucleotides and used this procedure to analyze neoplastic cell lines and whole-blood samples from healthy individuals and patients with different hematologic neoplasias. Hierarchical clustering and the Welch t-test with adjusted P values were used for data analys

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Gillet, Jean-Pierre, Thomas Efferth, Damiel Steinbach, et al. "ABCChips as New Diagnostic Tool to Monitoring Multidrug Resistance in Human Tumor Cells to Chemotherapeutics Agents by Expression Profiling of ATP-Binding Cassette Transporter Genes." Blood 104, no. 11 (2004): 4360. http://dx.doi.org/10.1182/blood.v104.11.4360.4360.

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Abstract A major problem in the treatment of tumors represents the development of resistance to chemotherapy. Many mechanisms are responsible for the failure of treatment, the main one being the activation of the ABC transporters. In the present investigation, we developed a low density DNA microarray which contains 38 ABC transporter genes. This tool has been validated with three different characterized multidrug-resistant sublines (CEM/ADR5000, HL60/AR, MCF7-CH1000) and their corresponding drug-sensitive parental cell lines (CCRF-CEM, HL60, MCF7). The multidrug-resistant cell lines used are

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Ki, Jang-Seu, Dae-Sik Hwang, and Jae-Seong Lee. "Simultaneous detection ofAureliaandChrysaorascyphozoan jellyfish on a DNA microarray." Journal of the Marine Biological Association of the United Kingdom 90, no. 6 (2009): 1111–17. http://dx.doi.org/10.1017/s0025315409990373.

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To demonstrate the effectiveness of microarrays for the detection of jellyfish, we developed a low density DNA chip based on the mitochondrial COI gene sequences of scyphozoans (jellyfish). We designed species-specific oligonucleotide probes by sequence comparisons between scyphozoans and other cnidarians such as hydrozoans and anthozoans. Each amine-labelled capture probe was arrayed onto a silylated slide. PCR products of the COI gene were hybridized to the DNA microarray that contained COI consensus sequences. We tested the ability of the DNA chip to discriminate between species from the ge

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Goji, Noriko, Trevor MacMillan, and Kingsley Kwaku Amoako. "A New Generation Microarray for the Simultaneous Detection and Identification ofYersinia pestisandBacillus anthracisin Food." Journal of Pathogens 2012 (2012): 1–8. http://dx.doi.org/10.1155/2012/627036.

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The use of microarrays as a multiple analytic system has generated increased interest and provided a powerful analytical tool for the simultaneous detection of pathogens in a single experiment. A wide array of applications for this technology has been reported. A low density oligonucleotide microarray was generated from the genetic sequences ofY. pestisandB. anthracisand used to fabricate a microarray chip. The new generation chip, consisting of 2,240 spots in 4 quadrants with the capability of stripping/rehybridization, was designated as “Y-PESTIS/B-ANTHRACIS 4x2K Array.” The chip was tested

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Sun, Zhaohui, Wenli Ma, Min Wei, Shuyan Wang, and Wenling Zheng. "Identification of HCV-1b by Low-Density cDNA Microarray-Based Assay." Current Microbiology 55, no. 3 (2007): 211–16. http://dx.doi.org/10.1007/s00284-007-0051-z.

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8

Shaskolskiy, Boris, Ilya Kandinov, Dmitry Kravtsov, et al. "Hydrogel Droplet Microarray for Genotyping Antimicrobial Resistance Determinants in Neisseria gonorrhoeae Isolates." Polymers 13, no. 22 (2021): 3889. http://dx.doi.org/10.3390/polym13223889.

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A multiplex assay based on a low-density hydrogel microarray was developed to identify genomic substitutions in N. gonorrhoeae that determine resistance to the currently recommended treatment agents ceftriaxone and azithromycin and the previously used drugs penicillin, tetracycline, and ciprofloxacin. The microarray identifies 74 drug resistance determinants in the N. gonorrhoeae penA, ponA, porB, gyrA, parC, rpsJ, mtrR, blaTEM, tetM, and 23S rRNA genes. The hydrogel elements were formed by automated dispensing of nanoliter-volume droplets followed by UV-induced copolymerization of NH2-contain

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AJIKUMAR, PARAYIL KUMARAN, JIN KIAT NG, JIM YANG LEE, GREGORY STEPHANOPOULOS, and HENG-PHON TOO. "NANOSTRUCTURED DENDRIMER MODIFIED GLASS SURFACES FOR PROTEIN MICROARRAY." International Journal of Nanoscience 06, no. 02 (2007): 161–65. http://dx.doi.org/10.1142/s0219581x07004432.

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Carboxyl PAMAM dendrimer (3.5 generation) was covalently coupled onto amine modified glass surface to prepare a monolayer of high density functional linkers. Activation of the carboxyl PAMAM surface and the subsequent immobilization of antibodies resulted in a high density protein microarray as compared to linear carboxyl linker surface. In addition, fluorescent labeled cell lysate showed extremely low nonspecific adsorption to the PAMAM modified surface, comparable to inert PEG surface. Thus, the carboxyl PAMAM modified surface is ideal for the generation of high density protein arrays for th

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10

Lacroix, M., N. Zammatteo, J. Remacle, and G. Leclercq. "A low-density DNA microarray for analysis of markers in breast cancer." International Journal of Biological Markers 17, no. 1 (2002): 5–23. http://dx.doi.org/10.5301/jbm.2008.12.

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11

Zimenkov, Danila V., Elena V. Kulagina, Olga V. Antonova, et al. "Evaluation of a Low-Density Hydrogel Microarray Technique for Mycobacterial Species Identification." Journal of Clinical Microbiology 53, no. 4 (2015): 1103–14. http://dx.doi.org/10.1128/jcm.02579-14.

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In addition to the obligatory pathogenic species of theMycobacterium tuberculosiscomplex andMycobacterium leprae, the genusMycobacteriumalso includes conditionally pathogenic species that in rare cases can lead to the development of nontuberculous mycobacterial diseases. Because tuberculosis and mycobacteriosis have similar clinical signs, the accurate identification of the causative agent in a clinical microbiology laboratory is important for diagnostic verification and appropriate treatment. This report describes a low-density hydrogel-based microarray containing oligonucleotide probes based

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12

Meneses-Lorente, Georgina, Françoise de Longueville, Sofia Dos Santos-Mendes, et al. "An Evaluation of a Low-Density DNA Microarray Using Cytochrome P450 Inducers." Chemical Research in Toxicology 16, no. 9 (2003): 1070–77. http://dx.doi.org/10.1021/tx034117n.

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13

Sukhanov, Sergiy, and Patrick Delafontaine. "Protein chip-based microarray profiling of oxidized low density lipoprotein-treated cells." PROTEOMICS 5, no. 5 (2005): 1274–80. http://dx.doi.org/10.1002/pmic.200400985.

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Bogaerts, Pierre, Andrea M. Hujer, Thierry Naas та ін. "Multicenter Evaluation of a New DNA Microarray for Rapid Detection of Clinically RelevantblaGenes from β-Lactam-Resistant Gram-Negative Bacteria". Antimicrobial Agents and Chemotherapy 55, № 9 (2011): 4457–60. http://dx.doi.org/10.1128/aac.00353-11.

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ABSTRACTA new commercial low-density microarray which identifies common extended-spectrum β-lactamase plasmid-mediated cephalosporinase genes, as well as carbapenemase (blaKPCandblaNDM) genes, was evaluated. We tested 207 clinical and reference/collection isolates of theEnterobacteriaceaepossessing differentblagenes. Overall, the sensitivity and specificity of the microarray were 100% for the detection of the plasmid-mediatedblaAmpC,blaKPC, andblaNDMgenes usingblagene sequencing as the reference method.

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15

Alvarez, Patricia, Pilar Saenz, David Arteta, et al. "A Low Density DNA Microarray for Comparing Gene Expression Profiles in Hematological Malignancies." Blood 108, no. 11 (2006): 4291. http://dx.doi.org/10.1182/blood.v108.11.4291.4291.

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Abstract High density microarrays (HDM) are powerful tools for simultaneously profiling the expression levels of thousands of genes. The application of this technology to study of neoplastic hematological disorders.has identified new sub groups of disease not related previously and new prognosis markers. However there is a limited experience in the gene expression studies using low density microarrays (LDM) in neoplastic hematological disorders. A gene expression analysis system based on a LDM containing 538 oligonucleotides has been developed. Whole technical process was optimized to improve

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16

Zhu, Hong-Lan, Hao-Xia Zeng, Xu-Dong Liang, et al. "Prediction of chemotherapeutic resistance in serous ovarian cancer with low-density custom microarray." Chinese Medical Journal 133, no. 7 (2020): 871–73. http://dx.doi.org/10.1097/cm9.0000000000000717.

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17

Zimenkov, Danila V., Elena V. Kulagina, Olga V. Antonova, Viacheslav Yu Zhuravlev, and Dmitry A. Gryadunov. "Simultaneous drug resistance detection and genotyping ofMycobacterium tuberculosisusing a low-density hydrogel microarray." Journal of Antimicrobial Chemotherapy 71, no. 6 (2016): 1520–31. http://dx.doi.org/10.1093/jac/dkw015.

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18

Rangel, Angelica, Alfonso Tenorio, Kenneth Beattie, et al. "Specific mutation screening of TP53 gene by low-density DNA microarray." Nanotechnology, Science and Applications Volume 2 (January 2009): 1–12. http://dx.doi.org/10.2147/nsa.s4469.

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19

Ramöller, Inken, Emma McAlister, Abigail Bogan, Ana Cordeiro, and Ryan Donnelly. "Novel Design Approaches in the Fabrication of Polymeric Microarray Patches via Micromoulding." Micromachines 11, no. 6 (2020): 554. http://dx.doi.org/10.3390/mi11060554.

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The focus on novel systems for transdermal delivery of therapeutic agents has increased considerably over recent years, as this administration route comes with many advantages. Polymeric microarray patches (MAPs) are minimally invasive devices that enable systemic delivery of a wide range of drugs by overcoming the outer skin barrier. Conventionally, MAPs fabricated by micromoulding have a low needle density. In this study, the performance of hydrogel-forming MAPs cast using novel industrially manufactured micromoulds with a high needle density (600 needles/0.75 cm2) was compared to that of MA

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Choi, Chang Hwan, Kyu Ho Kim, Ju Young Song, et al. "Construction of High-Density Tissue Microarrays at Low Cost by Using Self-Made Manual Microarray Kits and Recipient Paraffin Blocks." Korean Journal of Pathology 46, no. 6 (2012): 562. http://dx.doi.org/10.4132/koreanjpathol.2012.46.6.562.

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21

Meza-Menchaca, Thuluz, John Williams, Rocío Rodríguez-Estrada, et al. "A Low Density Microarray Method for the Identification of Human Papillomavirus Type 18 Variants." Sensors 13, no. 10 (2013): 12975–93. http://dx.doi.org/10.3390/s131012975.

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22

de Longueville, Françoise, Dominic Surry, Georgina Meneses-Lorente, et al. "Gene expression profiling of drug metabolism and toxicology markers using a low-density DNA microarray." Biochemical Pharmacology 64, no. 1 (2002): 137–49. http://dx.doi.org/10.1016/s0006-2952(02)01055-9.

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23

Cannon, Gemma A., Michael J. Carr, Zoe Yandle, et al. "A low density oligonucleotide microarray for the detection of viral and atypical bacterial respiratory pathogens." Journal of Virological Methods 163, no. 1 (2010): 17–24. http://dx.doi.org/10.1016/j.jviromet.2009.07.005.

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24

ZHOU, Ping-Ping, Jian-Zhong ZHANG, Yuan-Hai YOU, and Yong-Ning WU. "Detection of Genetically Modified Crops by Combination of Multiplex PCR and Low-density DNA Microarray." Biomedical and Environmental Sciences 21, no. 1 (2008): 53–62. http://dx.doi.org/10.1016/s0895-3988(08)60007-0.

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25

Zammatteo, Nathalie, Laurence Lockman, Francis Brasseur, et al. "DNA Microarray to Monitor the Expression of MAGE-A Genes." Clinical Chemistry 48, no. 1 (2002): 25–34. http://dx.doi.org/10.1093/clinchem/48.1.25.

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Abstract Background: The MAGE-A genes encode antigens that are of particular interest for antitumor immunotherapy because they are strictly tumor specific and are shared by many tumors. We developed a rapid method to identify the MAGE-A genes expressed in tumors. Methods: A low-density DNA microarray was designed to discriminate between the 12 MAGE-A cDNAs amplified by PCR with only one pair of consensus primers. The assay involved reverse transcription of total RNA with oligo(dT) primer, followed by PCR amplification and hybridization on a microarray. Amplification in the presence of Biotin-1

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Jones, Susie, and Manju L. Prasad. "Comparative Evaluation of High-Throughput Small-Core (0.6-mm) and Large-Core (2-mm) Thyroid Tissue Microarray: Is Larger Better?" Archives of Pathology & Laboratory Medicine 136, no. 2 (2012): 199–203. http://dx.doi.org/10.5858/arpa.2011-0080-oa.

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Context.—Tissue microarrays (TMAs) are useful in gene/protein expression profiling of large number of tumors. Several studies have validated that a 0.6-mm core of a large tumor would give results similar to results of the whole section. However, cores from colloid-filled thyroid follicles, for example in breast carcinoma, may contain fewer cells compared to solid tumors. Objective.—The aim of this study is to validate thyroid TMAs choosing 2 core diameters, 0.6 and 2 mm, and to study the effect of core size and grid density on concordance with whole sections. Design.—0.6-mm tissue cores were a

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Dondero, Francesco, Luciana Piacentini, Francesco Marsano, et al. "Gene transcription profiling in pollutant exposed mussels (Mytilus spp.) using a new low-density oligonucleotide microarray." Gene 376, no. 1 (2006): 24–36. http://dx.doi.org/10.1016/j.gene.2006.02.015.

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28

Gillet, Jean-Pierre, Thierry Jo Molina, Jacques Jamart, et al. "Evaluation of a low density DNA microarray for small B-cell non-Hodgkin lymphoma differential diagnosis." Leukemia & Lymphoma 50, no. 3 (2009): 410–18. http://dx.doi.org/10.1080/10428190902763459.

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Xiaoming Han, Go Yamanouchi, Takeshi Mori, Jeong-Hun Kang, Takuro Niidome, and Yoshiki Katayama. "Monitoring Protein Kinase Activity in Cell Lysates Using a High-Density Peptide Microarray." Journal of Biomolecular Screening 14, no. 3 (2009): 256–62. http://dx.doi.org/10.1177/1087057108329348.

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Monitoring and targeting protein kinases is widely accepted as a promising approach for disease diagnosis and drug discovery. For this purpose, the authors have developed an original type of peptide array as a high-throughput screening assay for quantitatively evaluating kinase activity. A volume of 2 nL of peptide solution was spotted onto a formyl group-modified glass slide by using an arrayer, which was designed for use with protein chip technology. The phosphorylation was recognized by fluorescence-label antibody and detected with an automatic microarray scanner widely used in DNA chip tec

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Liang, Faquan, Ann M. Kapoun, Andrew Lam, et al. "B-Type Natriuretic Peptide Inhibited Angiotensin II-Stimulated Cholesterol Biosynthesis, Cholesterol Transfer, and Steroidogenesis in Primary Human Adrenocortical Cells." Endocrinology 148, no. 8 (2007): 3722–29. http://dx.doi.org/10.1210/en.2006-1599.

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In this study, we demonstrate that B-type natriuretic peptide (BNP) opposed angiotensin II (Ang II)-stimulated de novo cholesterol biosynthesis, cellular cholesterol uptake, cholesterol transfer to the inner mitochondrial membrane, and steroidogenesis, which are required for biosynthesis of steroid hormones such as aldosterone and cortisol in primary human adrenocortical cells. BNP dose-dependently stimulated intracellular cGMP production with an EC50 of 11 nm, implying that human adrenocortical cells express the guanylyl cyclase A receptor. cDNA microarray and real-time RT-PCR analyses reveal

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Abanda, Babette, Archile Paguem, Mbunkah Daniel Achukwi, Alfons Renz, and Albert Eisenbarth. "Development of a Low-Density DNA Microarray for Detecting Tick-Borne Bacterial and Piroplasmid Pathogens in African Cattle." Tropical Medicine and Infectious Disease 4, no. 2 (2019): 64. http://dx.doi.org/10.3390/tropicalmed4020064.

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In Africa, pathogens transmitted by ticks are of major concern in livestock production and human health. Despite noticeable improvements particularly of molecular screening methods, their widespread availability and the detection of multiple infections remain challenging. Hence, we developed a universally accessible and robust tool for the detection of bacterial pathogens and piroplasmid parasites of cattle. A low-cost and low-density chip DNA microarray kit (LCD-Array) was designed and tested towards its specificity and sensitivity for five genera causing tick-borne diseases. The blood sample

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Chacon-Millan, Pilar, Stefania Lama, Nunzio Del Gaudio, et al. "A Combination of Microarray-Based Profiling and Biocomputational Analysis Identified miR331-3p and hsa-let-7d-5p as Potential Biomarkers of Ulcerative Colitis Progression to Colorectal Cancer." International Journal of Molecular Sciences 25, no. 11 (2024): 5699. http://dx.doi.org/10.3390/ijms25115699.

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Ulcerative colitis (UC), an inflammatory bowel disease (IBD), may increase the risk of colorectal cancer (CRC) by activating chronic proinflammatory pathways. The goal of this study was to find serum prediction biomarkers in UC to CRC development by combining low-density miRNA microarray and biocomputational approaches. The UC and CRC miRNA expression profiles were compared by low-density miRNA microarray, finding five upregulated miRNAs specific to UC progression to CRC (hsa-let-7d-5p, hsa-miR-16-5p, hsa-miR-145-5p, hsa-miR-223-5p, and hsa-miR-331-3p). The circRNA/miRNA/mRNA competitive endog

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KIMOTO, OSAMU, JIN SAWADA, KUMIKO SHIMOYAMA, et al. "Activation of the Interferon Pathway in Peripheral Blood of Patients with Sjögren’s Syndrome." Journal of Rheumatology 38, no. 2 (2010): 310–16. http://dx.doi.org/10.3899/jrheum.100486.

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Objective.DNA microarray analysis and quantitative real-time polymerase chain reaction (PCR) were performed to identify key target genes in peripheral blood from patients with Sjögren’s syndrome (SS).Methods.DNA microarray analysis was performed in 19 patients with SS (all women) and 10 healthy controls (5 men and 5 women) using a low-density DNA microarray system with 778 genes. For confirmation, the expression of upregulated genes was analyzed by quantitative real-time PCR in another 37 SS patients (35 women and 2 men) and 9 healthy controls (8 women and 1 man). Relationships between gene si

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Hoang, Hanh H., Anke Becker, and Juan E. González. "The LuxR Homolog ExpR, in Combination with the Sin Quorum Sensing System, Plays a Central Role in Sinorhizobium meliloti Gene Expression." Journal of Bacteriology 186, no. 16 (2004): 5460–72. http://dx.doi.org/10.1128/jb.186.16.5460-5472.2004.

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ABSTRACT Quorum sensing, a population density-dependent mechanism for bacterial communication and gene regulation, plays a crucial role in the symbiosis between alfalfa and its symbiont Sinorhizobium meliloti. The Sin system, one of three quorum sensing systems present in S. meliloti, controls the production of the symbiotically active exopolysaccharide EPS II. Based on DNA microarray data, the Sin system also seems to regulate a multitude of S. meliloti genes, including genes that participate in low-molecular-weight succinoglycan production, motility, and chemotaxis, as well as other cellular

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Yuan, Lihui, Jeffrey D. Hillman, and Ann Progulske-Fox. "Microarray Analysis of Quorum-Sensing-Regulated Genes in Porphyromonas gingivalis." Infection and Immunity 73, no. 7 (2005): 4146–54. http://dx.doi.org/10.1128/iai.73.7.4146-4154.2005.

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ABSTRACT Quorum sensing is a phenomenon defined as gene regulation in response to cell density that regulates various functions in bacteria. The periodontopathogen Porphyromonas gingivalis possesses a luxS gene homologue that may encode a quorum-sensing system. In order to identify genes of P. gingivalis that are regulated by luxS, gene expression analysis was done using microarrays and RNA samples from the W83 wild-type strain and an isogenic luxS mutant, LY2001. The results indicated that 17 open reading frames (ORFs) in LY2001 are upregulated and two are downregulated. Real-time PCR was don

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Dubrovska, A. M., and S. S. Souchelnytskyi. "Low-density microarray analysis of TGFβ1-dependent cell cycle regulation in human breast adenocarcinoma MCF7 cell line." Biopolymers and Cell 30, no. 2 (2014): 107–17. http://dx.doi.org/10.7124/bc.000888.

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Heil, Gary L., Troy McCarthy, Kyoung-Jin Yoon, et al. "MChip, a low density microarray, differentiates among seasonal human H1N1, North American swine H1N1, and the 2009 pandemic H1N1." Influenza and Other Respiratory Viruses 4, no. 6 (2010): 411–16. http://dx.doi.org/10.1111/j.1750-2659.2010.00185.x.

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THAKKAR, R. S., N. G. NAYEE, and P. H. VATALIYA. "Evaluation of INDUSCHIP-1 and selected low-density SNP panel for imputation to higher density in Gir dairy cattle of Gujarat." Indian Journal of Animal Sciences 92, no. 6 (2021): 751–56. http://dx.doi.org/10.56093/ijans.v92i6.108935.

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Application of Genomic Selection among other selection methods mainly depends upon the cost of genotyping, as cheaper the cost more animals can be genotyped to increase reference population size. Imputation approaches have been useful in reducing the cost. Imputation strategies and GS have been comprehensively studied in several taurine dairy cattle populations but very limited information is available on Bos Indicus populations. Factors that affect the efficiency of imputation are population structure, linkage disequilibrium between markers, and marker density in target and reference SPN pane

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Park, In-Kyung, Yaqin He, Fangming Lin, et al. "Differential gene expression profiling of adult murine hematopoietic stem cells." Blood 99, no. 2 (2002): 488–98. http://dx.doi.org/10.1182/blood.v99.2.488.

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Abstract Hematopoietic stem cells (HSCs) have self-renewal capacity and multilineage developmental potentials. The molecular mechanisms that control the self-renewal of HSCs are still largely unknown. Here, a systematic approach using bioinformatics and array hybridization techniques to analyze gene expression profiles in HSCs is described. To enrich mRNAs predominantly expressed in uncommitted cell lineages, 54 000 cDNA clones generated from a highly enriched population of HSCs and a mixed population of stem and early multipotent progenitor (MPP) cells were arrayed on nylon membranes (macroar

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Mandelkow, T., E. Bady, NC Blessin, et al. "P03.10 Prevalence and prognostic role of FoxP3+regulatory T lymphocytes in cancer. A tissue microarray study on >20’000 cancers." Journal for ImmunoTherapy of Cancer 8, Suppl 2 (2020): A26.1—A26. http://dx.doi.org/10.1136/jitc-2020-itoc7.49.

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BackgroundRegulatory FoxP3+ lymphocytes function as suppressors of T-cell activity. The clinical impact of high FoxP3+ cell density in cancers is not fully understood, as some studies have linked high FoxP3+ cell density to good prognosis and others to poor prognosis in tumor cohorts with associated clinical data. While some data suggest that these variable data are due to biological differences between tumor entities, it is also possible that methodological differences have caused these discrepancies. This study was undertaken to analyze the density of FoxP3+ cells in various different cancer

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Sun, Yanbin, and Shun Xu. "Tumor-Associated CD204-Positive Macrophage Is a Prognostic Marker in Clinical Stage I Lung Adenocarcinoma." BioMed Research International 2018 (2018): 1–7. http://dx.doi.org/10.1155/2018/8459193.

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Objective. Macrophages are the dominant leukocytes in the tumor microenvironment. Accumulating evidence revealed that CD204-positive (CD204+) tumor-associated macrophages (TAMs) are associated with the aggressive behavior of various cancers; however, the clinical, pathological, and prognostic associations of CD204+ TAMs with the subtype of lung adenocarcinoma have not been reported. Methods. Tissue microarray and immunohistochemistry were constructed from clinical stage I lung adenocarcinomas with radical surgical resection. The intratumoral density of CD204+ cells was calculated using image a

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de Longueville, F. "Use of a Low-Density Microarray for Studying Gene Expression Patterns Induced by Hepatotoxicants on Primary Cultures of Rat Hepatocytes." Toxicological Sciences 75, no. 2 (2003): 378–92. http://dx.doi.org/10.1093/toxsci/kfg196.

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de Souza Luna, L. K., V. Heiser, N. Regamey, et al. "Generic Detection of Coronaviruses and Differentiation at the Prototype Strain Level by Reverse Transcription-PCR and Nonfluorescent Low-Density Microarray." Journal of Clinical Microbiology 45, no. 3 (2007): 1049–52. http://dx.doi.org/10.1128/jcm.02426-06.

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Camos, Mireia, Jordi Esteve, Dolors Colomer, et al. "Gene Expression Signature of Acute Myeloid Leukemia (AML) with T(8;16)(P11;P13) and MYST3-CREBBP Rearrangement: A Microarray Study Validated by Multiple Real-Time PCR." Blood 106, no. 11 (2005): 3009. http://dx.doi.org/10.1182/blood.v106.11.3009.3009.

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Abstract AML with t(8;16)(p11;p13) is an infrequent leukemia subtype with characteristic clinical-biological features. The t(8;16)(p11;p13) translocation leads to the fusion of MYST3 and CREBBP genes, probably resulting in a disturbed transcriptional program of a myelo-monocytic precursor. In this study, the genetic signature of MYST3-CREBBP AML was compared with other well-defined AML subtypes. Genotypic analyses using oligonucleotide U133A arrays (Affymetrix) were performed on RNA of 23 AML patients, including three MYST3-CREBBP cases, PML-RARa (n=3), RUNX1-CBF2T1 (n=3), CBFβ-MYH11 (n=3), t(

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Giesecke, Yvonne, Samuel Soete, Katarzyna MacKinnon, et al. "Developing Electron Microscopy Tools for Profiling Plasma Lipoproteins Using Methyl Cellulose Embedment, Machine Learning and Immunodetection of Apolipoprotein B and Apolipoprotein(a)." International Journal of Molecular Sciences 21, no. 17 (2020): 6373. http://dx.doi.org/10.3390/ijms21176373.

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Plasma lipoproteins are important carriers of cholesterol and have been linked strongly to cardiovascular disease (CVD). Our study aimed to achieve fine-grained measurements of lipoprotein subpopulations such as low-density lipoprotein (LDL), lipoprotein(a) (Lp(a), or remnant lipoproteins (RLP) using electron microscopy combined with machine learning tools from microliter samples of human plasma. In the reported method, lipoproteins were absorbed onto electron microscopy (EM) support films from diluted plasma and embedded in thin films of methyl cellulose (MC) containing mixed metal stains, pr

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Ueda, Hiroki, Yoshimitsu Akiyama, Shu Shimada, et al. "Tumor suppressor functions of DAXX through histone H3.3/H3K9me3 pathway in pancreatic NETs." Endocrine-Related Cancer 25, no. 6 (2018): 619–31. http://dx.doi.org/10.1530/erc-17-0328.

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Pancreatic neuroendocrine tumors (PanNETs) have considerable malignant potential. Frequent somatic mutations and loss of DAXX protein expression have been found in PanNETs. DAXX is known as a transcriptional repressor; however, molecular functions underlying DAXX loss remain unclear in PanNETs. We evaluated DAXX expression by immunohistochemistry in 44 PanNETs.DAXX-knockdown (KD) and -knockout (KO) PanNET cells were analyzed forin vitroandvivo. The target genes were screened by microarray and chromatin immunoprecipitation (ChIP) assays for DAXX, histone H3.3 and H3K9me3 complex. In clinicopath

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Vina-Rodriguez, Ariel, Konrad Sachse, Ute Ziegler, et al. "A Novel Pan-FlavivirusDetection and Identification Assay Based on RT-qPCR and Microarray." BioMed Research International 2017 (2017): 1–12. http://dx.doi.org/10.1155/2017/4248756.

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The genusFlavivirusincludes arthropod-borne viruses responsible for a large number of infections in humans and economically important animals. While RT-PCR protocols for specific detection of mostFlavivirusspecies are available, there has been also a demand for a broad-rangeFlavivirusassay covering all members of the genus. It is particularly challenging to balance specificity at genus level with equal sensitivity towards each target species. In the present study, a novel assay combining a SYBR Green-based RT-qPCR with a low-density DNA microarray has been developed. Validation experiments con

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Yeung, Ka Yee, Vivian Oehler, Edward Choi, Roger E. Bumgarner, Adrian E. Raftery, and Jerald Radich. "Derivation of Diagnostic Gene Predictors for the Progression of Chronic Myeloid Leukemia from Microarray Data and Independent PCR Validation." Blood 112, no. 11 (2008): 3211. http://dx.doi.org/10.1182/blood.v112.11.3211.3211.

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Abstract Chronic myeloid leukemia (CML) usually presents in chronic phase, and progresses through accelerated phase to an acute leukemia, blast crisis. Blast crisis is highly resistant to treatment, and all treatments are more successful when administered during the chronic phase of the disease. The biological basis of the progression of CML remains poorly understood, and there are no clinical or molecular tests that can predict the “clock” of CML progression for individual patients at the time of diagnosis, making it impossible to adapt therapy to the risk level of each patient. Microarrays h

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Abruzzo, Lynne V., Kathleen Y. Lee, Alexandra Fuller, et al. "Validation of oligonucleotide microarray data using microfluidic low-density arrays: a new statistical method to normalize real-time RT-PCR data." BioTechniques 38, no. 5 (2005): 785–92. http://dx.doi.org/10.2144/05385mt01.

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Ikonnikova, Anna, Anna Morozova, Olga Antonova, et al. "Evaluation of the Polygenic Risk Score for Alzheimer’s Disease in Russian Patients with Dementia Using a Low-Density Hydrogel Oligonucleotide Microarray." International Journal of Molecular Sciences 24, no. 19 (2023): 14765. http://dx.doi.org/10.3390/ijms241914765.

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The polygenic risk score (PRS), together with the ɛ4 allele of the APOE gene (APOE-ɛ4), has shown high potential for Alzheimer’s disease (AD) risk prediction. The aim of this study was to validate the model of polygenic risk in Russian patients with dementia. A microarray-based assay was developed to identify 21 markers of polygenic risk and ɛ alleles of the APOE gene. This case–control study included 348 dementia patients and 519 cognitively normal volunteers. Cerebrospinal fluid (CSF) amyloid-β (Aβ) and tau protein levels were assessed in 57 dementia patients. PRS and APOE-ɛ4 were significan

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