• The majority of the top 15 differentially expressed genes for each tissue were known to either be expressed in a tissue-specific manner or relate to specific functions of that tissue. (cambridge.org)
  • Gene ontology analysis of the differentially expressed genes revealed the expected differences in gene expression profiles between the two tissues. (cambridge.org)
  • Results The highest-ranked differentially expressed genes were dominated by IGF-1 signalling genes. (bmj.com)
  • 4 samples each) were identified using the R language, and were pooled using the Excel software program to select the common differentially expressed genes in the two datasets. (minervamedica.it)
  • RESULTS: Of the 255 concomitantly and differentially expressed genes identified after respective treatment with TNF-α and IL-1β, 141 were up-regulated and 114 were down-regulated. (minervamedica.it)
  • The gene ontology annotation analysis showed that these differentially expressed genes were primarily associated with cytokine activity, growth factor activity, the inflammatory reaction and the response to injury. (minervamedica.it)
  • The signaling pathway analysis showed that these differentially expressed genes were mainly related to the interactions of cytokines, apoptosis and NOD-like receptor signaling pathways. (minervamedica.it)
  • Hypergeometric analysis was used to identify canonical pathways and curated networks having statistically significant enrichment of differentially expressed genes. (urotoday.com)
  • The mHTT and wtHTT groups showed the highest number of differentially expressed genes compared to the BACHD mouse model. (lu.se)
  • IPA analysis of the 280 significantly differentially expressed genes in the whole blood was suggestive of increased hematopoiesis and cell development, activation of cancer/tumor development pathways, and atopy. (cdc.gov)
  • By integrating two datasets (GSE77459 and GSE92681) in the GEO database using the sva and limma packages of R, differentially expressed genes (DEGs) of pulpitis were identified. (researchsquare.com)
  • Then, differentially expressed genes (DEGs) were selected for further validation using the reverse transcription quantitative polymerase chain reaction (RT-qPCR) method . (bvsalud.org)
  • In the upcoming field of neurogenomics, it is hoped that by understanding the genomic profiles of different parts of the brain, we might be able to improve our understanding of how the interactions between genes and pathways influence cellular function and development. (wikipedia.org)
  • The purpose of the study was to identify the key genes that were differentially expressed in these disc cells compared to cells without inflammatory cytokine treatment, using bioinformatics analyses, and to explore the related signaling pathways and interaction networks, providing clues to the molecular mechanisms of disc degeneration for future experimental studies. (minervamedica.it)
  • Microarray analysis was performed to screen aberrantly expressed mRNAs and activated signaling pathways between epileptic rats and normal controls. (frontiersin.org)
  • Characterisation of gene expression patterns in bladder cancer allows the identification of pathways involved in its pathogenesis, and may stimulate the development of novel therapies targeting these pathways. (urotoday.com)
  • In our study, two unsupervised knowledge-based matrix factorization methods, independent component analysis (ICA) and nonnegative matrix factorization (NMF) are integrated to identify significant genes and related pathways in microarray gene expression dataset of Alzheimer's disease. (biomedcentral.com)
  • Furthermore, they can group genes into different categories for identifying related diagnostic pathways and regulatory networks. (biomedcentral.com)
  • The simulation results shows that both of the methods can clearly classify severe AD samples from control samples, and the biological analysis of the identified significant genes and their related pathways demonstrated that these genes play a prominent role in AD and relate the activation patterns to AD phenotypes. (biomedcentral.com)
  • By combining the significant genes identified by both ICA and NMF, the biological analysis shows great efficient for elucidating the molecular taxonomy of Alzheimer's disease and enable better experimental design to further identify potential pathways and therapeutic targets of AD. (biomedcentral.com)
  • By integrating different datasets from the Gene Expression Omnibus (GEO) database, we analysed a merged expression matrix of pulpitis, aiming to identify biological pathways and diagnostic biomarkers of pulpitis. (researchsquare.com)
  • Then, the DEGs were analysed to identify biological pathways of dental pulp inflammation with Gene Ontology (GO) analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis and Gene Set Enrichment Analysis (GSEA). (researchsquare.com)
  • In Arabidopsis thaliana we use the spatial data to identify differences in expression levels of 141 genes and 189 pathways in eight inflorescence tissue domains. (nature.com)
  • But even so, gene-expression profiling can be enormously valuable in finding biomarkers, highlighting druggable targets, revealing the metabolic pathways important in a biological process, and identifying subsets of a population that might respond to a certain therapy or be more susceptible to a certain clinical outcome. (genengnews.com)
  • Dr. Storey participated in a longitudinal study to try to identify which genetic pathways are associated with more direct clinical outcomes as well as exactly when these molecular signatures must be detected to be useful in determining clinical treatments. (genengnews.com)
  • Dr. Lo and colleagues believe that most of these PanIN lesions would not have been amenable to other gene expression methodologies and that the PanIN data collected using the HTG EdgeSeq technology will contribute to a better understanding of the molecular pathways that underlie pancreatic cancer. (genomeweb.com)
  • In AAV groups, from the combined limma with GSEA using ClusterProfiler, we found both shared and unique gene sets and pathways for mice with wtHTT overexpression compared to mice with mHTT overexpression. (lu.se)
  • Multiple biosynthetic pathways such as sterol synthesis were among the top shared processes, where both unique and shared genes constituted leading-edge subsets. (lu.se)
  • Two of these genes, arginase 1 and eotaxin 1 are the focus of continuing investigations in mouse models of asthma regarding differences in mechanistic pathways depending on the allergen. (cdc.gov)
  • Array studies provide candidate genes to identify common mechanistic pathways in the effector phase, as well as mechanistic pathways unique to individual allergens. (cdc.gov)
  • Besides demonstrating that the probe selection method can be used to study the ovine transcriptome, the benefits of this approach are that it can greatly increase the number of annotated and novel genes that can be studied beyond those currently possible using ovine- or bovine-specific microarrays. (cambridge.org)
  • Since RNA-seq provides a powerful tool for transcriptome-based applications beyond the limitations of microarrays, we sought to systematically evaluate the performance of RNA-seq-based and microarray-based classifiers in this MAQC-III/SEQC study for clinical endpoint prediction using neuroblastoma as a model. (uni-koeln.de)
  • Characterization of the neuroblastoma transcriptome by RNA-seq reveals that more than 48,000 genes and 200,000 transcripts are being expressed in this malignancy. (uni-koeln.de)
  • CD genomics provides high-quality services for microarray-based transcriptome studies at a very affordable price. (cd-genomics.com)
  • To meet multiple research goals, we offer a complete range of arrays for whole-transcriptome-, gene-, exon-, or short noncoding (snc)RNA-level analysis. (cd-genomics.com)
  • The wide use of high-throughput DNA microarray technology provide an increasingly detailed view of human transcriptome from hundreds to thousands of genes. (biomedcentral.com)
  • In conclusion, we show that both wtHTT and mHTT overexpression change hypothalamic transcriptome profile, specifically mHTT, altering neuroendocrine circuits. (lu.se)
  • In conclusion, our studies have shown that transcriptome changes occurring in the lungs of MWCNT-exposed mice do not necessarily produce a completely replicable pattern in the whole blood, however, specific systemic responses may be shared between transcriptomic profiles. (cdc.gov)
  • Our process includes high-throughput spatial transcriptome profiling followed by spatial gene and pathway analyses. (nature.com)
  • We first demonstrate the feasibility of the technique by generating spatial transcriptome profiles from model angiosperms and gymnosperms microsections. (nature.com)
  • Unsupervised matrix factorization methods provide efficient tools to analyze high-throughput microarray dataset. (biomedcentral.com)
  • According to the facts that different unsupervised approaches explore correlations in the high-dimensional data space and identify relevant subspace base on different hypotheses, integrating these methods to explore the underlying biological information from microarray dataset is an efficient approach. (biomedcentral.com)
  • Modern signal processing and machine learning techniques provide new and efficient analysis tools to the high-throughput microarray gene expression dataset. (biomedcentral.com)
  • DAVID was used to perform the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis for the different expression genes (DEGs). (medscimonit.com)
  • Pharmacogenomics provides an opportunity to identify candidate genes for studying disease progression and outcomes. (cambridge.org)
  • In the first phase of the project cell lines of specific leukocyte subsets (THP-1/monocyte, IM-9/T lymphocyte, H9/B lymphocyte), PBMCs (peripheral blood mononuclear cells) from healthy donors, respectively will be treated in vitro with hgh to identify candidate genes influenced by hghapplication. (wada-ama.org)
  • To find additional hgh-candidate genes, suppression subtractive hybridization (SSH) technology will be applied on hgh-treated PBMCs and on those cultured leukocyte subsets which showed a response to hgh before during in vitro studies. (wada-ama.org)
  • After confirming SSH-genes to be differentially expressed in a series of microarray experiments, oligonucleotide probes will be designed for both SSH-genes and the candidate genes identified along gene expression profiling using whole genome/leukocyte relevant arrays. (wada-ama.org)
  • The studies yielded an over-abundance of transcriptional regulators in the identified genes, and these form a set of candidate genes for evaluation of roles in ovule development using reverse genetics. (escholarship.org)
  • Different statistical methods with varying selection criteria resulted in identification of similar candidate genes. (cdc.gov)
  • Array data are intended to provide candidate genes for hypothesis generation and further experimentation. (cdc.gov)
  • Whole genome cDNA microarrays as well as oligonucleotide microarrays including leukocyte-relevant genes will be used to characterize potential hgh-specific genes by comparing gene expression profiles of treated and untreated cells. (wada-ama.org)
  • To characterize gene expression signatures in acute lymphocytic leukemia (ALL) cells associated with known genotypic abnormalities in adult patients. (aacrjournals.org)
  • The general aim of this thesis was to molecularly characterize urothelial carcinoma (UC) at the transcriptional level using gene expression microarrays to improve the classification and pathogenetic understanding of this disease. (avhandlingar.se)
  • Although many BSTT are rare, it has become clear that BSTT are characterized by recurrent acquired chromosomal aberrations, and the general aim of this thesis have been to apply molecular genetic and molecular cytogenetic techniques to further characterize recurrent breakpoints and deletions, and to search for candidate target genes. (avhandlingar.se)
  • By understanding the molecular details of this interaction, we can identify virulence-associated microbial genes and host-defense strategies and characterize the cues to which they respond and mechanisms by which they are regulated. (medscape.com)
  • In a Swedish study to characterize welding fume aerosol (Isaxon et al. (who.int)
  • Gene expression profiles from 128 adult patients with newly diagnosed ALL were characterized using high-density oligonucleotide microarrays. (aacrjournals.org)
  • Protein crystallization is a key assay for structural studies of proteins. (gracebio.com)
  • We analyzed 137 B-lineage and 30 T-lineage childhood ALL cases using microarray analysis of DNA copy number alterations and gene expression, and genome-wide cytosine methylation profiling using the HpaII tiny fragment enrichment by ligation-mediated PCR (HELP) assay. (lu.se)
  • Our first speakers, Adi Gazdar and Luc Girard from UT Southwestern Medical Center, discussed an expression-based assay for the pathological classification of non-small cell lung cancer. (genomeweb.com)
  • This study uses microarray technology to evaluate differential gene expression profiles in obese patients undergoing bariatric surgery versus non-obese controls. (sages.org)
  • Conclusions: Microarrays are a powerful tool to identify biomarkers for obesity by analyzing differential gene expression profiles. (sages.org)
  • This study provides a differential gene expression profile between TMJ fibrous and bony ankylosis. (medscimonit.com)
  • Several independent high-throughput methods for differential gene expression (including SAGE and differential display) may enable function annotation of sequenced genomes [ 2 ] . (medscape.com)
  • A study of differential gene expression profiling of aggressive and nonaggressive follicular carcinomas identified 94 genes that distinguish follicular carcinomas from follicular adenomas (including PBP and CKS2 ) and 4 genes that distinguish aggressive follicular carcinomas from nonaggressive follicular carcinomas ( NID2, TM7SF2, TRIM2, and GLTSCR2 ). (medscape.com)
  • In 1999, Cirelli & Tononi first reported the association of genome-wide brain gene expression profiling (using microarrays) with a behavioural phenotype in mice. (wikipedia.org)
  • Background: Genome wide microarray studies have the potential to unveil novel disease entities. (sciweavers.org)
  • These diverse microarrays are designed based on the most recent genome content for generating genome-wide expression profiles of human, model organisms, plants, and animals. (cd-genomics.com)
  • Previous studies of DNA methylation suggest epigenetic alterations may also be important, but an integrated genome-wide analysis of genetic and epigenetic alterations in ALL has not been performed. (lu.se)
  • I view this problem as being as or more problematic than the population stratification problem in genome-wide association studies (referring to allelic differences in subpopulations that may be due to ancestral, rather than disease associated, differences). (genengnews.com)
  • cDNA expression analysis was performed using the Affymetrix GeneChip Human Genome U133 Plus 2.0 platform and validated using quantitative PCR. (bmj.com)
  • ABSTRACT: We used a cDNA microarray to profile gene expression in the intertidal mussel Mytilus californianus across major portions of its biogeographic range. (int-res.com)
  • First-strand cDNA prepared from 5 biological replicates from each site were competitively hybridized to a 2496 feature cDNA microarray. (int-res.com)
  • Genes Chromosomes and Cancer 2016;55;11:847-54. (lu.se)
  • Conclusions: We demonstrate that RNA-seq outperforms microarrays in determining the transcriptomic characteristics of cancer, while RNA-seq and microarray-based models perform similarly in clinical endpoint prediction. (uni-koeln.de)
  • CONCLUSIONS: We found that ICAM1 and other genes may play a role in the development of disc degeneration induced by inflammatory reactions using a bioinformatics analysis of the gene expression profiles of degenerative intervertebral disc cells stimulated with inflammatory factors, suggesting that bioinformatics methods can be used to identify potential target for intervertebral disc degeneration. (minervamedica.it)
  • Grace Bio-Labs microarray surface chemistry is based on the well-known protein-binding properties of nitrocellulose. (gracebio.com)
  • Consistently down-regulated genes included were bone morphogenetic phosphatase kinase (BMP2K), solute carrier family 12, member 1 (SLC12A1), solute carrier family 7 (SLC7A2), paternally expressed 10 (PEG10) and protein phosphatase 1 regulatory (inhibitor unit) (PPP1R1C). (nih.gov)
  • Fluoride exposure also significantly elevated the protein expressions of cytochrome c and active caspase-3. (fluoridealert.org)
  • The presence of BDNF and GDNF mRNA was determined by RT-PCR and protein expression was evaluated by Western Blot. (sld.cu)
  • Of the 31 genes, the 21 upregulated genes were primarily associated with cell paracrine and intracellular signaling, transcription regulation and cell adhesion and migration, and their transcriptional products included transforming growth factor-β2 (TGF-β2), insulin-like growth factor-binding protein 2 and transcriptional factor AP-2α/γ ( 11 ). (spandidos-publications.com)
  • Using semi-quantitative reverse-transcription polymerase chain reaction (RT-PCR) and western blots experiments, we compared changes in ETS-1 and ETS-2 expression, their protein levels, and the regulation of some of their target gene expressions at different stages of the ocular tumoral progression in the transgenic mouse model, Tyrp-1-TAg, with those in normal eyes from control mice of the same age. (molvis.org)
  • Transcriptomics has also expanded from sampling protein coding genes to non-coding transcripts such as miRNAs, which have the potential not only to act as more stable biomarkers, but also to regulate translation, and in themselves be used a therapeutic agents against specific targets. (videolectures.net)
  • The protein encoded by this gene is a cyclin-dependent kinase 2 (CDK2) -associated protein which is thought to negatively regulate CDK2 activity by sequestering monomeric CDK2, and targeting CDK2 for proteolysis. (cancerindex.org)
  • What does this gene/protein do? (cancerindex.org)
  • Scope includes mutations and abnormal protein expression. (cancerindex.org)
  • Protein-protein interaction (PPI) networks and modules were constructed to identify hub genes with the Search Tool for the Retrieval of Interacting Genes/Proteins (STRING) and Cytoscape. (researchsquare.com)
  • These profiles measure mRNA, not protein, so further studies are needed to corroborate that any detected changes in gene expression actually have meaning in the life of the cell. (genengnews.com)
  • In the present study, we investigated whether transcriptional changes would be part of hypothalamic pathology induced by the disease-causing huntingtin (HTT) protein. (lu.se)
  • However, microarray based approaches have their own problems that confound analysis - probe saturation can result in very small measurable variance of gene expression between genetically unique individuals, and the presence of single nucleotide polymorphisms (SNPs) can result in hybridization artifacts. (wikipedia.org)
  • This is the first study describing the production and distribution of ETS-1 and ETS-2 mRNAs and proteins using in situ hybridization and immunohistochemistry in murine ocular tissue sections of normal control eyes and tumoral eyes from mice of the same age. (molvis.org)
  • Approximately two hundred genes were found to have a high probability of preferential expression in these structures, and the predictive nature of the expression classes was confirmed with reverse transcriptase polymerase chain reaction and in situ hybridization. (escholarship.org)
  • DNA microarray hybridization analysis stands out for its simplicity, comprehensiveness, data consistency, and high throughput. (medscape.com)
  • Background: Gene expression profiling is being widely applied in cancer research to identify biomarkers for clinical endpoint prediction. (uni-koeln.de)
  • The results of these studies have been used to investigate disease mechanisms, monitor progression of disease and identify specific genes or gene signatures which could be used as diagnostic or prognostic biomarkers. (videolectures.net)
  • Whole blood gene expression profiling is a promising approach to identification of novel biomarkers for tissues over traditional, invasive biopsy. (cdc.gov)
  • How Reliable Are Gene Expression-Based and Immunohistochemical Biomarkers Assessed on a Core-Needle Biopsy? (lu.se)
  • 3. Translational research - to identify predictive biomarkers for treatment decision - by immunohistochemistry, gene expression or sequencing. (lu.se)
  • Genomic profiling also identifies genes associated with poor outcome in cases without molecular aberrations and specific genes that may be new therapeutic targets in adult ALL. (aacrjournals.org)
  • Affymetrix GeneChip microarrays are a powerful tool to study global gene expression profiles and have been used on many species. (cambridge.org)
  • In the last decade, diagnostic and prognostic evaluation has been facilitated by global gene expression profiling (GEP), provid- ing a new powerful means for the classification, prediction of survival, and response to treatment of lym- phomas. (lu.se)
  • Subsequent RNA sequence analysis and liquid chromatography with mass tandem spectrometry analyses showed that these variations translated into discretely separated transcriptomic and proteomic profiles. (cdc.gov)
  • On the basis of these observations, we hypothesized that strains with different genomic organization should display altered global transcriptomic and, consequently, proteomic profiles, and thereby genome rearrangements might contribute to strain variation and adaptation. (cdc.gov)
  • Gene coexpression analysis refers to the en masse discovery of coexpressed genes from a large variety of transcriptomic experiments. (mdpi.com)
  • In contrast, the ubiquitous expression of full-length mHTT in the BACHD hypothalamus moderately affects the transcriptomic profile. (lu.se)
  • In the present study, we examine the specific impacts of MSCs on mitochondrial morphology and function in host tissues. (frontiersin.org)
  • In this study, we demonstrate that gDNA-based probe selection on the Affymetrix Human U133+2 GeneChip array can be used to study gene expression profiles in sheep tissues. (cambridge.org)
  • Functional aspects such as growth, development, biochemistry and physiology ultimately derive from underlying gene expression programmes that are actively regulated in different organs and tissues. (nature.com)
  • Next, Bryan Lo of the Ottawa Hospital discussed a method for gene expression profiling of pancreatic cancer precursors directly from FFPE tissues without nucleic acid extraction. (genomeweb.com)
  • Since then, global brain gene expression data, derived from microarrays, has been aligned to various behavioural quantitative trait loci (QTLs) and reported in several publications. (wikipedia.org)
  • Collectively, our data indicate that MSC therapy rescues impaired mitochondrial morphology, enhances host metabolic capacity, and induces widespread host gene shifting. (frontiersin.org)
  • This is done using both gene expression data and functional gene annotations. (sciweavers.org)
  • Our unique blood analyses confirm previous tissue data from our lab and shed new light on the ensuing cascade of gene dysfunction associated with obesity. (sages.org)
  • Our microarray data also demonstrate dysregulation of wingless-type MMTV (Wnt) signalling gene expression, including Wnt5a, sFRPs and DKK. (bmj.com)
  • These data also provide the first evidence of dysregulation of IGF-1 pathway genes in TAO tissue, further strengthening the evidence for the role of IGF-1 signalling in the pathogenesis and potential treatment of TAO. (bmj.com)
  • Evaluation of factors potentially affecting model performances reveals that prediction accuracies are most strongly influenced by the nature of the clinical endpoint, whereas technological platforms (RNA-seq vs. microarrays), RNA-seq data analysis pipelines, and feature levels (gene vs. transcript vs. exon-junction level) do not significantly affect performances of the models. (uni-koeln.de)
  • BACKGROUND: To investigate the microarray data on the gene expression profiles of intervertebral disc degeneration related to cytokine exposure. (minervamedica.it)
  • Prediction of Heart Cancer Microarray Data Using Hybrid Particle Swarm Optimization with Grey Wolf Optimizer and Machine Learning Techniques. (ukessays.com)
  • Two different types of feature selection algorithms: set-based and ranking-based are admitted for microarray gene expression data analysis. (ukessays.com)
  • Although biomedical researchers typically design microarray experiments to explore specific biological contexts, the relationships between genes are hard to identified because they are complex and noisy high-dimensional data and are often hindered by low statistical power. (biomedcentral.com)
  • In our work, we performed FastICA and non-smooth NMF methods on DNA microarray gene expression data of Alzheimer's disease respectively. (biomedcentral.com)
  • With the widespread use of the DNA microarray technology in the study of biology and medicine, large amount of gene expression data have been easily accumulated. (biomedcentral.com)
  • However, most GEP studies have typically been performed on whole tissue samples, containing varying degrees of tumor cell content, which results in uncertainties in data analysis. (lu.se)
  • Results obtained from gene expression profiling utilising whole genome arrays were in accordance with published data. (wada-ama.org)
  • Although these techniques can provide spatially resolved or cell-type-specific gene expression data, they each have inherent limitations. (nature.com)
  • At the "Critical Assessment of Massive Data Analysis" conference held recently in Vienna, John Storey, from the Lewis-Sigler Institute for Integrative Genomics at Princeton University, gave a talk on dissecting the inflammatory complications in critically injured patients by within-patient gene-expression changes. (genengnews.com)
  • Pools of pistils representing early and late stages of ovule development were evaluated and data from the three genotypes were used to designate genes that were predominantly expressed in the integuments using pair-wise and cluster analyses. (escholarship.org)
  • Robust microarray averaging (RMA) analysis of array data provided the most reliable comparisons, especially for weakly expressed genes. (escholarship.org)
  • Scripts, supplementary materials and data used in this study are publicly available at http://lifecenter.sgst.cn/fusion/ . (biomedcentral.com)
  • To analyze microarray datasets (34760 variables) and obtain functional implications of differential expression patterns, we used Linear Models for Microarray Data (limma) followed by Gene Set Enrichment Analysis (GSEA) using ClusterProfiler. (lu.se)
  • Consolidating and exploring antibiotic resistance gene data resources. (cdc.gov)
  • DNA microarrays exploit primary sequence data to measure transcript levels and detect sequence polymorphisms, for every gene, simultaneously. (medscape.com)
  • The purpose of an Interaction Profile is to evaluate data on the toxicology of the "whole" priority mixture (if available) and on the joint toxic action of the chemicals in the mixture in order to recommend approaches for the exposure-based assessment of the potential hazard to public health. (cdc.gov)
  • Micro- array data from the ovalbumin and TMA model of asthma were also compared to previous data using Aspergillus as allergen to identify putative asthma `signature genes', i.e. genes up-regulated with all 3 allergens. (cdc.gov)
  • We are experienced in processing microarrays from various vendors including Illumina Infinium, Affymetrix GeneChip, Agilent Sureselect as well as others on a standard slide format. (cd-genomics.com)
  • This study has identified several genes of interest, such as HLA-C, SLC16A3, SLC9A8, SLC12A1 and SLC7A2, that require verification of their roles as susceptibility genes for diabetic nephropathy in ethnic Malays with type 2 DM. (nih.gov)
  • Specifically, the PPAR gamma pathway from obese patients showed an increased number of genes that were dysregulated including TNF alpha. (sages.org)
  • Genes associated with the classical complement pathway were downregulated in non-muscle invasive cancer. (urotoday.com)
  • Additionally, gene expression changes in the blood were indicative of ER-stress and downregulation of mTOR pathway. (cdc.gov)
  • Prior to the availability of expression arrays and DNA sequencing methodologies, researchers sought to understand the cellular behaviour of neurons (including synapse formation and neuronal development and regionalization in the human nervous system) in terms of the underlying molecular biology and biochemistry, without any understanding of the influence of a neuron's genome on its development and behaviour. (wikipedia.org)
  • We call such expression patterns molecular symptoms. (sciweavers.org)
  • However, recent studies on cancer diagnosis are focused on molecular level identification so as to improve the capability of diagnosis process. (ukessays.com)
  • Here, we performed comprehensive differential molecular profiling between TMJ fibrous and bony ankylosis. (medscimonit.com)
  • We have studied the transgenic mouse strain, Tyrp-1-TAg, to try to gain insight into possible molecular mechanisms common to pigmented ocular neoplasms occurring spontaneously in the eyes of these mice and human choroidal melanoma. (molvis.org)
  • This offers significant advantages for studying tumor pathogenesis and molecular mechanisms of oncogenesis caused by a single initiating oncogenic event introduced through the mouse germ line. (molvis.org)
  • C.P. tion stage, why much more detailed molecular analysis is contributed to the design of the study, discussions on statistical analysis of called for [2]. (lu.se)
  • Hara Levy, professor of physiology at the Human and Molecular Genetics Center of the Medical College of Wisconsin, studies cystic fibrosis (CF). Although CF is caused by mutations in the CF transmembrane conductance regulator gene, patients with identical genetic mutations in this gene can suffer variable levels of lung disease severity. (genengnews.com)
  • BCR/ABL + gene expression pattern was more heterogeneous and was most similar to ALL without known molecular rearrangements. (aacrjournals.org)
  • We also identified a set of 83 genes that were highly expressed in leukemia blasts from patients without known molecular abnormalities who subsequently relapsed following therapy. (aacrjournals.org)
  • Supervised analysis of kinase genes revealed a high-level FLT3 expression in a subset of cases without molecular rearrangements. (aacrjournals.org)
  • The evaluation and application of multilocus variable number tandem repeat analysis (MLVA) for the molecular epidemiological study of Salmonella enterica subsp. (cdc.gov)
  • Similarly, by using host gene microarrays, one can explore host response at the level of gene expression and provide a molecular description of the events that follow infection. (medscape.com)
  • The pace of gene discovery rapidly accelerates, but its potential for explaining life at the molecular level remains largely unrealized because our understanding of gene function lags increasingly far behind. (medscape.com)
  • His interests include Bordetella molecular pathogenesis and gene expression bioinformatics. (medscape.com)
  • Examples of high molecular environmental factors are known to influence the development weight occupational allergens include proteases used in the and expression of asthma, and a vast array of triggers of asthma detergent industry, laboratory animal allergens, and ovalbumin have been identified. (cdc.gov)
  • Molecular signatures in childhood acute leukemia and their correlations to expression patterns in normal hematopoietic subpopulations. (lu.se)
  • A compromise could be reached by relating gene expression profile to percentage of neoplastic cells in the investigated tissue sample. (viamedica.pl)
  • With the advent of microarrays allowing the expression levels of increasing numbers of genes to be quantified, gene expression profiling, microarray analysis and transcriptomics have become frequently used terms associated with sampling RNA from multiple different tissue types. (videolectures.net)
  • Normalised CDK2AP1 expression was 38-fold higher in adjacent non-cancerous breast tissue than in breast cancer. (cancerindex.org)
  • The goal of this study was to look for correlates between RNA expression in lung tissue and in whole blood after MWCNT exposure. (cdc.gov)
  • A total of 470 DEGs comprising 394 upregulated and 76 downregulated genes were found in pulpitis tissue. (researchsquare.com)
  • The study of specialized tissue domains and their interactions is essential for a comprehensive understanding of the function of biological systems, including the wide variety of plant species. (nature.com)
  • This online seminar focused on recent advances in gene expression profiling of challenging formalin-fixed, paraffin-embedded tissue samples for cancer research and clinical practice. (genomeweb.com)
  • Gene expression analysis of pancreatic intraepithelial neoplasia's (PanINs), the classical pancreatic cancer precursor, has been challenging because extracting and purifying RNA from pancreatic tissue is difficult. (genomeweb.com)
  • Dr. Lo and colleagues have shown in a pilot study that they can use the HTG EdgeSeq Oncology Biomarker Panel to profile approximately 2,500 genes from a cohort of microdissected low- and high-grade PanIN lesions from human pancreatic cancer resections that have been archived as FFPE tissue blocks. (genomeweb.com)
  • Neurogenomics allows scientists to study the nervous system of organisms in the context of these underlying regulatory and transcriptional networks. (wikipedia.org)
  • These include IGF-1, IGF-1 receptor binding/signalling genes, such as SOCS3 and IRS2, and downstream signalling and transcriptional regulators, such as SGK (PDK/Akt signalling) and c-JUN. (bmj.com)
  • A total of 7 possible genetic alterations and epigenetic changes in CAFs are discussed, including gene differential expression, karyotype analysis, gene copy number variation, loss of heterozygosis, allelic imbalance, microsatellite instability, post‑transcriptional control and DNA methylation. (spandidos-publications.com)
  • Epigenetic alterations, represented by post-transcriptional control and DNA methylation, have been the focus of recent studies. (spandidos-publications.com)
  • Transcription factors (TFs) are critical for B-cell differentiation, affecting gene expression both by repres- sion and transcriptional activation. (lu.se)
  • In this study, we investigated whether hypothalamic HTT expression causes transcriptional changes. (lu.se)
  • In the first two studies (Articles I and II), gene expression profiling was used to study dysregulated transcriptional networks in a large cohort of UCs. (avhandlingar.se)
  • Notably, the association between behavioural patterns and high penetrance single gene loci falls under the purview of neurogenetics research, wherein the focus is to identify a simple causative relationship between a single, high penetrance gene and an observed function/behaviour. (wikipedia.org)
  • We provide stam, a Bioconductor compliant software package for the statistical programming environment R. We demonstrate that our tool detects gene expression patterns, which are characteristic for only a subset of patients from an established disease entity. (sciweavers.org)
  • Gene expression patterns in mussels from Strawberry Hill, Oregon, displayed a unique expression phenotype that was distinct from the other 3 mussel populations sampled. (int-res.com)
  • We also find that RNA-seq provides much more detailed information on specific transcript expression patterns in clinico-genetic neuroblastoma subgroups than microarrays. (uni-koeln.de)
  • The results showed that it was possible to use a mutant, ant, with broad effects on plant phenotype to identify genes expressed specifically in ovules, when coupled with predictions from known gene expression patterns, or in combination with a more specific mutant, ino. (escholarship.org)
  • Finally, we identified aberrant methylation in multiple genes also targeted by recurring DNA copy number alterations in ALL, suggesting that these genes are inactivated far more frequently than suggested by structural genomic analyses alone. (lu.se)
  • In this genomic age, one possible answer is that a cell can be defined by a profile of all of the genes it is expressing. (genengnews.com)
  • Complete genomic sequences of microbial pathogens and hosts offer sophisticated new strategies for studying host-pathogen interactions. (medscape.com)
  • Studies of gene expression profile using DNA microarray technology are usually performed using either tumor-derived sample material or isolated neoplastic cells obtained through microdissection. (viamedica.pl)
  • Seventeen genes showing the best correlation with the tumor cell numbers were selected and their classification potential was evaluated. (viamedica.pl)
  • However, the differentiation potential of gene expression profile is not markedly improved by selection of genes showing best correlation with the number of tumor cells. (viamedica.pl)
  • Studies have focused on the genetic and epigenetic status of CAFs, since they are critical in tumor progression and differ phenotypically and functionally from normal fibroblasts. (spandidos-publications.com)
  • The directed expression of SV40 T antigen has led to the development of several important transgenic models with spontaneous epithelial tumor formation. (molvis.org)
  • Histological analyses included quantitative immunohistochemical studies and evaluation of collagen deposition. (thejns.org)
  • Further analyses of the key interactions between the target and effector cells through functional studies, gene expression profile and microarray analyses in patient cohorts will be discussed. (muni.cz)
  • Our study presented an efficient, extendable and quantitative computational model for integration of different compound representations, and expected to provide new clues to improve the virtual drug screening from various pharmacological properties. (biomedcentral.com)
  • The lack of efficient and quantitative tRNA-seq methods has hindered biological studies of tRNA. (cdc.gov)
  • RNA-seq, for example, identifies 25-60% more expressed genes than microarrays do. (wikipedia.org)
  • In future, drug regulations may require population specific studies and pharmacogenomics to evaluate current and new drugs used in SSA. (cambridge.org)
  • This study was conducted to evaluate ultrastructure, oxidative stress, and apoptosis in sperm of mice treated with 150 mg/l NaF for 49 days. (fluoridealert.org)
  • The present study aimed to evaluate the effects of phytosphingosine as an active ingredient in cosmetic formulations to determine whether the type of formula influences its biological activity. (cosmeticsandtoiletries.com)
  • Functional clustering was performed with the Expression Analysis Systematic Explorer (EASE) bioinformatics package. (thejns.org)
  • The EASE analysis yielded eight functional classes of gene expression. (thejns.org)
  • Here we present the first available approach to generate and study high-resolution, spatially resolved functional profiles in a broad range of model plant systems. (nature.com)
  • Our combined approach of spatial transcriptomics and functional profiling offers a powerful new strategy that can be applied to a broad range of plant species, and is an approach that will be pivotal to answering fundamental questions in developmental and evolutionary biology. (nature.com)
  • The present study contributes to a growing body of work on gene expression signatures in bladder cancer. (urotoday.com)
  • Gera R, Mokbel L, Jiang WG, Mokbel K mRNA Expression of Cancer Genomics Proteomics. (cancerindex.org)
  • Our objective was to determine if CDK2AP1 mRNA expression levels were consistent with tumour-suppressive functions in breast cancer. (cancerindex.org)
  • CDK2AP1 expression in disease-free patients at 10 years was more than threefold that of patients who died of breast cancer. (cancerindex.org)
  • To our knowledge, this is the first study in the literature to examine the mRNA expression of CDK2AP1 in human breast cancer over a long-term follow-up period. (cancerindex.org)
  • Presentations covered studies in non-small cell lung cancer and pancreatic cancer. (genomeweb.com)
  • Accumulating evidence shows that tRNA expression and mutations are associated with various diseases such as neurological pathologies and cancer development3,4. (cdc.gov)
  • In this paper we demonstrate that coupling a multiplexing procedure with our microarray method is possible for the simultaneous detection and genotyping of four point mutations, in three different genes, involved in Charcot-Marie-Tooth disease. (hindawi.com)
  • Four heterozygous point mutations were typed in the three genes implicated in CMT disease. (hindawi.com)
  • Dysregulation of PI3K/AKT can be triggered by activating mutations in a variety of genes, including RAS, PIK3CA , and AKT1, as well as by inactivation of PTEN . (medscape.com)
  • There has hence been a shift from single gene approaches to network approaches for studying neurological development and diseases, a shift that has been greatly propelled by the advent of next generation sequencing methodologies. (wikipedia.org)
  • This study highlights the usefulness of genomics-based approaches in assessing physiological responses to environmental variation across large spatial scales. (int-res.com)
  • Unsupervised machine learning approaches provide new and efficient analysis of gene expression profiles. (biomedcentral.com)
  • The advantage of these two approaches is they can be performed as a biclustering method by which genes and conditions can be clustered simultaneously. (biomedcentral.com)
  • Knowledge generated along this research project and the introduction of microarray technology into doping analysis should open novel approaches and strategies for future detection of doping substances. (wada-ama.org)
  • This review focuses on microarray-based approaches for studying transcription response because they hold exceptional promise for the study of infectious disease. (medscape.com)
  • The expression pattern of these proteins in BMSC has not been well characterized. (sld.cu)
  • By contrast, the 10 downregulated genes were primarily associated with epithelial membrane proteins ( 11 ). (spandidos-publications.com)
  • Ma DD , 2007 , 'Expression of Neurofilament Proteins in Adult Bone Marrow Mesenchymal Stem Cells and Embryonic Stem Cells and Their Clinical Potential' , in Davenport LP (ed. (edu.au)
  • The study shows the usefulness of proteomics in identifying proteins that may express differences between sensitive and resistant L. tropica isolates. (who.int)
  • Our preliminary study using 2D isolates were recovered from liq- new cases throughout the world cu- gel electrophoresis in drug sensitive/ uid nitrogen, and sub-cultured in taneous leishmaniasis (CL) remains resistant strains of L. tropica showed RPMI1640 medium (Gibco/BRL) a serious public health problem in that some proteins were differentially supplemented with 10% fetal bovine numerous countries [1,2]. (who.int)
  • Since most studies are carried out on non-African populations (Asians and Caucasians), a smaller portion of the overall human genome's diversity is interrogated and results from replication studies do not always concur. (cambridge.org)
  • Dose adjustments have been recommended for efavirenz due to genetic variations in CYP2B6 gene, which results in HIV patients in SSA requiring a reduced dose [ Reference Mukonzo 4 , Reference Dhoro 5 ]. (cambridge.org)
  • Results: We identified 97 upregulated genes and 125 downregulated genes with >1.5 fold change in obese patients versus controls. (sages.org)
  • Results: We generate gene expression profiles from 498 primary neuroblastomas using both RNA-seq and 44 k microarrays. (uni-koeln.de)
  • These results are consistent with another study concerning the gene expression profiling of breast CAFs, which were detected using a complementary DNA microarray ( 15 ). (spandidos-publications.com)
  • By measuring the change in expression within each patient, regardless of the patient's baseline values, this method leads more easily to a clinical translation of the results. (genengnews.com)
  • RT-qPCR results confirmed the significant expression of pyruvate dehydrogenase kinase 3 (PDK3), cyclin-dependent kinase 8 (CDK8), activating transcription factor 3 (ATF3), fibulin-7 (Fbln-7), hyaluronan synthase 1 (HAS1), interleukin 4 receptor (IL-4R) and apolipoprotein C1 (ApoC1). (bvsalud.org)
  • Thirty-seven significantly up-regulated genes and 40 down-regulated genes were commonly expressed in all 3 groups of patients with worsening of renal functions. (nih.gov)
  • Comparisons between high- glucose and low- glucose conditions showed that on day 1, there were 72 significantly up-regulated and 75 down-regulated genes in the high- glucose condition. (bvsalud.org)
  • Structural changes and neuropathology in the hypothalamus have been suggested to contribute to the non-motor manifestations of Huntington's disease (HD), a neurodegenerative disorder caused by an expanded cytosine-adenine-guanine (CAG) repeat in the huntingtin (HTT) gene. (lu.se)
  • Microarray-based methods offer a convenient solution to this need, but multiplexing is essential to increase the power of this approach for detection and discrimination. (hindawi.com)
  • Finally, the pooling of DNA samples or multiplex PCR strategies for SNP genotyping have also been described in several microarray methods, such as the original arrayed primer extension (APEX) [ 9 - 12 ] or single base extension (SBE-tags) [ 13 , 14 ] assays. (hindawi.com)
  • Microarray technology and next-generation sequencing methods have enabled us to see all of the genes expressed by a given cell type at any particular time, or under a particular circumstance. (genengnews.com)
  • Three welding methods were included in this study: Shielded-metal arc welding (manual welding), gas metal-arc welding shields (semi-automatic), and fluxed-core arc welding (automated). (who.int)
  • However, it has been shown that several neurological diseases tend to be polygenic, being influenced by multiple different genes and regulatory regions instead of one gene alone. (wikipedia.org)
  • Cultured keratinocytes were incubated with phytosphingosine and gene expression profiling was performed using DNA micro arrays, which revealed that phytosphingosine significantly promoted cell differentiation. (cosmeticsandtoiletries.com)
  • Further evaluation of the biological effects of phytosphingosine was accomplished in vitro by applying the test formulations to reconstructed human epidermis, followed by RT-qPCR analysis of selected genes relating to keratinocyte differentiation. (cosmeticsandtoiletries.com)
  • Using this approach, the study further demonstrated that the biological effect of phytosphingosine on keratinocyte differentiation in reconstructed human epidermis is clearly dependent on its bioavailability, which is determined by the polarity of the cosmetic oil. (cosmeticsandtoiletries.com)
  • In this study, highly purified, flow-cytometry sorted, classified in relation to normal B-cell differentiation [1]. (lu.se)
  • More than 20 000 transcripts were detected in triplicate ovine skeletal muscle and liver samples, which is more than would be possible using the commercially available sheep-specific microarray. (cambridge.org)
  • With RNA-sequencing now becoming more affordable and with the advantages of identifying novel transcripts and detecting a greater range of expression levels, the future for gene expression profiling includes focusing on transcripts in specific cellular compartments, being an integral part of clinical trials and perhaps even a standard part of diagnostic procedures and therapeutic decisions. (videolectures.net)
  • We found that the different genetic subtypes of ALL are characterized by distinct DNA methylation signatures that exhibit significant correlation with gene expression profiles. (lu.se)
  • Within B-lineage ALL, distinct signatures were associated with ALL1/AF4 and E2A/PBX1 gene rearrangements. (aacrjournals.org)
  • Fluoride-induced apoptosis and gene expression profiling in mice sperm in vivo. (fluoridealert.org)
  • We also demonstrated upregulation of ETS-1 and ETS-2 target expressions in Tyrp-1-TAg mice when comparing with the same target expressions in control mice. (molvis.org)
  • BACHD mice with ubiquitous expression of full-length mutant HTT (mHTT) and wild-type mice with targeted hypothalamic overexpression of either wild-type HTT (wtHTT) or mHTT fragments. (lu.se)
  • In BACHD mice, few hypothalamic genes were differentially expressed compared to age-matched WT controls. (lu.se)
  • The Tourette Syndrome Classification Study Group. (medscape.com)
  • Dr. Gazdar and Dr. Girard developed a 62-gene mRNA expression signature as an adjunct test for routine histopathological classification of NSCLCs, which includes many genes used in immunostains for NSCLC typing. (genomeweb.com)
  • Microarray-based classification of a consecutive series of 121 childhood acute leukemias: prediction of leukemic and genetic subtype as well as of minimal residual disease status. (lu.se)
  • This approach can greatly increase the number of potential annotated genes that can be studied beyond that which is currently available, particularly for species that do not have comprehensively characterised genomes. (cambridge.org)
  • This same method also has the potential to allow the study of other species where species-specific microarrays are not available or whose genomes have not been comprehensively characterised. (cambridge.org)
  • Sequencing Ebola and Marburg viruses genomes using microarrays. (cdc.gov)
  • This approach is used in high-density microarrays based on the Affymetrix resequencing system (Affymetrix, Santa Clara, Calif, USA) [ 2 , 3 ]. (hindawi.com)
  • The "hgh-chip" will then be thoroughly evaluated by performing numerous gene expression experiments on hgh-treated and untreated leukocyte subsets, cultured PBMCs as well as PBMCs obtained from hgh-patients. (wada-ama.org)
  • Gene Set Enrichment Analysis (GSEA) with leading-edge analysis showed that suppressed sterol- and cholesterol metabolism were shared between hypothalamic wtHTT and mHTT overexpression. (lu.se)
  • We previously developed a highly specific method for detecting SNPs with a microarray-based system using stem-loop probes. (hindawi.com)
  • Microalbuminuria was associated with up- and down-regulation of 2,694 and 2,538 genes, respectively, while macroalbuminuria was associated with up-regulation of 2,520 genes and down-regulation of 2,920 genes. (nih.gov)
  • There was significant up-regulation of 1,135 genes and down-regulation of 908 genes in the ESRD samples. (nih.gov)
  • and genes may participate in more than one function, resulting in one regulation pattern in one context and a different pattern in another. (biomedcentral.com)
  • Genes for non-apoptotic cell death and regulation of osmotic pressure were down-regulated. (wada-ama.org)
  • This gene thus plays a role in both cell-cycle and epigenetic regulation. (cancerindex.org)
  • Continued studies focused on genes showing minimal changes in the TMA-induced model but with clear up-regulation in the ovalbumin model. (cdc.gov)
  • Ten DEGs, including 7 hub genes from PPI analysis, were confirmed by real-time PCR. (medscimonit.com)
  • DEGs were identified, and interestingly, HAS1 and Fbln-7 genes may be involved in the glucose inhibitory effect on hDPC mineralization. (bvsalud.org)
  • Genes whose expression levels rise and fall similarly in a large set of samples, may be considered coexpressed. (mdpi.com)
  • Microarray analysis also provided several important biological clues for further investigating fluoride-induced damage in sperm morphology and functions. (fluoridealert.org)
  • The type of biological networks that studies gene coexpression, known as Gene Coexpression Networks, consist of an undirected graph depicting genes and their coexpression relationships. (mdpi.com)
  • Biological monitoring was also performed in this Russian study, where Mn in whole blood was 25% higher in welders compared to controls. (who.int)