Analysis of ultra low genome conservation in Clostridium difficile. by Joy Scaria, Lalit Ponnala, Tavan Janvilisri, Weiwei Yan, Lukas A Mueller, Yung-Fu Chang

“…Microarray-based comparative genome hybridisations (CGH) and genome sequencing of Clostridium difficile isolates have shown that the genomes of this species are highly variable. …”
Get full text

Genome-wide gene expression analysis in response to organophosphorus pesticide chlorpyrifos and diazinon in C. elegans. by Ana Viñuela, L Basten Snoek, Joost A G Riksen, Jan E Kammenga

“…To address this question we performed a microarray study in C. elegans which was exposed for 72 hrs to two widely used Ops, chlorpyrifos and diazinon, and a low dose mixture of these two compounds. …”
Get full text

Bayesian weighted random forest for classification of high-dimensional genomics data by Oyebayo Ridwan Olaniran, Mohd Asrul A. Abdullah

“…The performance of the proposed method is analyzed using simulated and real-life high-dimensional microarray datasets based on holdout accuracy and misclassification error rates. …”
Get full text

Diagnosis of Bardet-Biedl Syndrome in Consecutive Pregnancies Affected with Echogenic Kidneys and Polydactyly in a Consanguineous Couple by Tieneka M. Baker, Erica L. Sturm, Clesson E. Turner, Scott M. Petersen

“…We present the first case of prenatal diagnosis of BBS in consecutive pregnancies aided by homozygosity testing via SNP microarray analysis. This case demonstrates a novel approach to the evaluation of recurrent echogenic kidneys in consanguineous couple with no significant family history.…”
Get full text

Prenatal Diagnosis of 17p13.1p13.3 Duplication by Kirsi Kiiski, Tiiu Roovere, Riina Zordania, Harriet von Koskull, Nina Horelli-Kuitunen

“…This was further defined as a chromosome 17p13.1p13.3 duplication by FISH and genomic microarray analysis (GMA). In addition Prenatal BACs-on-Beads (PN_BoBs) assay was performed, which detected the duplication clearly. …”
Get full text

SMALL NONCODING RNA AS PERSPECTIVE BIOMARKERS: BIOGENESIS AND THERAPEUTIC STRATIGIES by V. V. Tiguntsev, S. A. Ivanova, V. Yu. Serebrov, M. B. Buhareva

“…The paper considers techniques to study noncoding RNA (cloning, bioinformatics analysis and hybridization methods: northern-blotting, RT-PCR, in situ hybridization, microarray analysis, reporter analysis). Possible noncoding RNA-targeted therapy can suggest delivery microRNA, anti-microRNA, antagomirs, microRNAsponges to target tissue by virus molecules, liposomes or nanoparticles.…”
Get full text

Prenatal diagnosis and genetic counseling of mosaicism for chromosome t (7; 14) with a favorable outcome by D. Lu, D. Cao, Q. Zhao, X. Chen

“…Similar chromosomal abnormalities have been observed in patients with hematologic malignancy. Chromosomal microarray analysis (CMA) revealed no genomic imbalance, prenatal ultrasound examination revealed no intrauterine growth restriction (IUGR) or dysmorphisms in this fetus. …”
Get full text

Gene Expression Profiling in Organ Transplantation by Osama Ashry Ahmed Gheith

“…It is important to note that the reproducibility of differently expressed genes might be affected by many factors such as gene ranking and selection methods, inherent differences between types, and the choice of thresholds. However, because microarray analyses are expensive and time consuming and their statistical evaluation is often very difficult, gene expression analysis using the RTPCR method is nowadays recommended. …”
Get full text

OMICS Approaches Evaluating Keloid and Hypertrophic Scars by Nazihah Bakhtyar, Saeid Amini-Nik, Marc G. Jeschke

“…In this review, we summarize genome-wide linkage analysis, genome-wide association studies, and microarray data to name a few omics technologies. Such data can provide novel insights into different molecular pathways and identify novel factors which may not be captured through small-scale laboratory techniques.…”
Get full text

Unravelling the Impact of an Additional Sex Chromosome in an Adult Female by Sigin George, Vikas Dagar, Barun Kumar Chakrabarty, N. Nagaraja

“…Interphase fluorescence in situ hybridisation was performed to confirm the diagnosis. Chromosomal microarray, which is a more expensive test, substantiated the presence of additional X chromosomes but failed to detect the presence of low level of mosaicism. …”
Get full text

The Utilization of Formalin Fixed-Paraffin-Embedded Specimens in High Throughput Genomic Studies by Pan Zhang, Brian D. Lehmann, Yu Shyr, Yan Guo

“…Here, we summarize the findings of these studies and discuss the limitations of high throughput data generated from FFPE specimens across several platforms that include microarray, high throughput sequencing, and NanoString.…”
Get full text

Application of family whole-exome sequencing for prenatal diagnosis—an analysis of 357 cases by Yijun Ge, Huizhen Yuan, Yao Yu, Junfang Xiao, Danping Liu, Yongbao Peng, Ying Liu, Shuhui Huang, Bicheng Yang, Yongyi Zou, Yanqiu Liu

“…Using techniques such as amniotic fluid, chorionic villus, or umbilical cord blood sampling, intact fetal cells were extracted for cell culture and subsequently analyzed using chromosomal karyotyping and chromosomal microarray techniques. 2. With fully informed consent, fetuses and their parents whose genetic etiology could not be detected by karyotyping combined with chromosomal microarray technology had their cellular DNA subjected to whole-exome sequencing of the pedigree. 3. …”
Get full text

Characterization of a MERS-related betacoronavirus in Danish brown long-eared bats (Plecotus auritus) by Camille Melissa Johnston, Vithiagaran Gunalan, Hans J. Baagøe, Anna S. Fomsgaard, Charlotta Polacek, Morten Rasmussen, Louise Lohse, Thomas Bruun Rasmussen

“…Positive samples underwent ORF1b sequencing, microarray analysis and Illumina MiSeq sequencing, followed by metagenomic assembly of full-length genomes. …”
Get full text

β-catenin is a Potential Prognostic Biomarker in Uterine Sarcoma by Ying Cai MS, Yunjia Wang MS, Ling Yang MS, Yue Huang MS, Min-Jun Chen MS, Chi Zhang MS, Su-Han Jin MD, PhD, Benjamin Frey PhD, Udo S. Gaipl PhD, Hu Ma MD, PhD, Jian-Guo Zhou MD, PhD

“…Methods Utilizing a Sweden microarray dataset from the Gene Expression Omnibus (GEO) (GSE119043, n = 50) and a clinical cohort (n = 31) retrospectively collected from Suining Central Hospital, we analyzed β-catenin expression profiles and corresponding clinicopathological characteristics. …”
Get full text

The combination of decitabine with multi-omics confirms the regulatory pattern of the correlation between DNA methylation of the CACNA1C gene and atrial fibrillation by Yuling Yang, Qijun Li, Xiaoning Liu, Caixia Shao, Heng Yang, Siquan Niu, Hong Peng, Xiangguang Meng, Xiangguang Meng

“…Similarly, AZA treatment of T47D cells showed upregulated mRNA expression of the CACNA1C gene in the gene expression microarray results (adj P < 0.05). DNA methylation microarray analysis revealed that methylation of a CpG site in intron 30 of the CACNA1C gene may be associated with AF (adj P < 0.05). …”
Get full text

Hypoxia alters the response of ovarian cancer cells to the mitomycin C drug by Aleksandra Gawrylak, Aleksandra Gawrylak, Klaudia Brodaczewska, Roksana Iwanicka-Nowicka, Roksana Iwanicka-Nowicka, Marta Koblowska, Marta Koblowska, Agnieszka Synowiec, Lubomir Bodnar, Lubomir Bodnar, Cezary Szczylik, Bogdan Lesyng, Rafał Stec, Claudine Kieda, Claudine Kieda

“…In this study, we show that mitomycin C (MMC), an antineoplastic antibiotic, is rarely used in ovarian cancer (OC) treatment despite its potential efficacy; we use MMC as an example of a treatment that warrants reevaluation under microenvironmental conditions, particularly during in vitro testing.MethodsTo evaluate the effects of MMC and oxygen tension (pO2) on OC cells (SKOV3), HTA 2.0 microarrays were used, which demonstrated that hypoxia and MMC induced transcriptomic changes in OC cells. …”
Get full text

Microdeletion of 4p16.2 in Children: A Case Report and Literature Review by Yanjie Qian, Xiaoying Wang, Wei Tang, Chaochun Zou

“…The brain MRI indicated brain abnormalities; the Gross Motor Function Measure-66 score was 23.37; the Gesell test result showed the development quotient was 50, suggesting mental retardation. Chromosomal microarray analysis showed an approximately 97 kb microdeletion at 4p16.2 (4p16.2 CNV), including part of EVC and EVC2 genes, which were associated with Ellis-van Creveld syndrome (EvC) and Weyers acrofacial dysostosis (WAD). …”
Get full text

An Ensemble Classification Method for High-Dimensional Data Using Neighborhood Rough Set by Jing Zhang, Guang Lu, Jiaquan Li, Chuanwen Li

“…Efficient and effective sample classification and feature selection are challenging tasks due to high dimensionality and small sample size of microarray data. Feature selection is necessary in the process of constructing the model to reduce time and space consumption. …”
Get full text

Mining TCGA data using Boolean implications. by Subarna Sinha, Emily K Tsang, Haoyang Zeng, Michela Meister, David L Dill

“…The Boolean implication results used in the paper can be accessed at http://crookneck.stanford.edu/microarray/TCGANetworks/.…”
Get full text

Robust modeling of differential gene expression data using normal/independent distributions: a Bayesian approach. by Mojtaba Ganjali, Taban Baghfalaki, Damon Berridge

“…In this paper, the problem of identifying differentially expressed genes under different conditions using gene expression microarray data, in the presence of outliers, is discussed. …”
Get full text