Analyze patterns between genes gene expression profiling. Medical search. Frequent questions

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)
Using single cell genomic technologies, we analyze the gene expression and epigenetic profiles of various cells to understand cell heterogeneity. (ccmb.res.in)
Here, we present a genome-wide analysis of the CDPK gene family in maize for the first time, and this genomic analysis of maize CDPK genes provides the first step towards a functional study of this gene family in maize. (biomedcentral.com)
PUREE was trained on gene expression data and genomic consensus purity estimates from 7864 solid tumor samples. (nature.com)
Overall, PUREE is a highly accurate and versatile method for estimating tumor purity and interrogating tumor heterogeneity from bulk tumor gene expression data, which can complement genomics-based approaches or be used in settings where genomic data is unavailable. (nature.com)
Gene set enrichment analysis (GSEA) was performed to identify pathways related to the differences and similarities between chemical therapies, aging signatures, and the OSK(M)-induced iPSCs using the Kyoto Encyclopedia of Genes and Genomes (KEGG), Reactome pathways, and HALLMARK genomic databases. (news-medical.net)
Results: The genomic organization of the H2-Q, -T and -M regions was analyzed and 21 transcribed Mhc class Ib genes were identified within these regions. (edu.au)
Both tissue-wide and tissue-specific gene expression patterns were obtained that suggest that the variations in the gene expression may depend on the genomic location of the duplicated genes as well as locus specific mechanisms. (edu.au)
Since the Mhc genomic region has diversified among mouse strains, it should be a useful model region for comparative analyses of the relationships between duplicated gene organization, evolution and the regulation of expression patterns. (edu.au)

Gene Ontology (GO) enrichment analysis of differentially expressed genes between wild type plants and STTM159 transgenic plants showed that genes involved in cell division, auxin, cytokinin (CK) and brassinosteroids (BRs) biosynthesis and signaling are significantly down-regulated in STTM159 plants. (biomedcentral.com)
Of note, we observed that MAPCAs differentially express several genes at much higher levels than either PA or aorta.MAPCAs differ from PA or aorta by significantly altered levels in gene expression, suggesting a transcriptional basis for their physiology that will guide a further understanding of the pathobiology of MAPCAs and TOF. (stanford.edu)
Traditional methods of analysing gene expression data often include a statistical test to find differentially expressed genes, or use of a clustering algorithm to find groups of genes that behave similarly across a dataset. (biomedcentral.com)
Here we describe coXpress, an R package that allows researchers to identify groups of genes that are differentially co-expressed. (biomedcentral.com)
We have developed coXpress as a means of identifying groups of genes that are differentially co-expressed. (biomedcentral.com)
The software uses a re-sampling method to calculate a p-value for each group, and provides several methods for the visualisation of differentially co-expressed genes. (biomedcentral.com)
Data analysis often includes the use of a statistical test, such as a t-test or analysis of variance, to find genes differentially expressed in one set of conditions when compared to another, or the use of clustering algorithms in order to find groups of genes which behave similarly over a number of experiments [ 2 ]. (biomedcentral.com)
Statistical tests, such as the t-test or ANOVA, identify genes that are differentially expressed under one or more conditions. (biomedcentral.com)
However, neither of the above attempted to find group of genes differentially co-expressed between different conditions. (biomedcentral.com)
Compared to in vivo derived embryos, embryos produced in serum-containing medium had five times more differentially expressed genes than embryos produced in serum-free conditions (1109 vs. 207). (biomedcentral.com)
Importantly, in vitro production in the presence of serum appeared to have a different impact on the embryos according to their sex, with male embryos having three times more genes differentially expressed than their female counterparts (1283 vs. 456). (biomedcentral.com)
Conclusion: Duplicated Mhc class Ib genes located in the H2-Q, -T and -M regions are differentially expressed in a variety of developing and adult tissues. (edu.au)
Furthermore, differentially expressed genes between fetal and adult counterparts were specifically analyzed, and a fetal core signature was identified. (lu.se)

Currently, we need systems that will allow us to progress from gene discovery to the illumination of relevant biological pathways and novel therapeutics. (sfari.org)
Results of these comparisons will elucidate biological pathways that are likely to be disrupted by the ASD risk genes, and will identify compounds with the potential to selectively suppress specific behavioral phenotypes arising from these mutations. (sfari.org)
Finally, by searching for enrichment of specific neurochemical pathways in the pharmacological and gene expression studies, the team aims to identify common biological mechanisms and promising pharmacological candidates for the treatment of ASD. (sfari.org)
In addition, gene set enrichment analysis shows 6 pathways that differ between high- and low-risk group. (techscience.com)
Expression analyses suggested that maize CDPK genes are important components of maize development and multiple transduction pathways. (biomedcentral.com)
1 The study aim was to identify potential gene drivers and unique signaling pathways of DGASTs. (biochain.com)
Here, an in-depth interrogation of T cell infiltration, local immune contexture, signaling pathways and checkpoint molecule expression was performed in early-stage and late-stage VSCC. (bmj.com)
RNA expression of genes involved in immune oncology and oncogenic signaling pathways was analyzed in 40 VSCC, matched for prognostic clinicopathological variables, analyzed for HPV and p53 status, and selected based on T cell infiltration. (bmj.com)
What pathways are this gene/protein implicaed in? (cancerindex.org)
The new data support two out of three novel regulatory pathways predicted to mediate expression changes downstream of the yeast transcriptional regulator SWI4 . (biomedcentral.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)

We compared expression differences between pairs of the three vessels to determine whether MAPCAs display distinct expression patterns.Functional clustering analysis identified differences in gene expression, which were further analyzed by gene ontology classification. (stanford.edu)
The method could detect the consequences of a genetically induced epigenetic reversal of age using lentivirus transduction and gene ontology (GO) analysis. (news-medical.net)
Gene ontology analyses highlighted some important biological processes that might be associated with placental insufficiency and fetal growth restriction in PS, such as fatty acid catabolism, coagulation, regulation of growth, and response to steroid hormone stimulus. (nih.gov)

By analyzing specific genetic alterations within tumors, biologists can tailor treatments to individual patients for better outcomes. (freescience.info)
RNA sequencing followed by differential expression analysis was used to identify genes with high expression in DGASTs vs. other GI tumors. (biochain.com)
Once target genes were identified, IHC, qPCR and DSP were performed to explore differential expression in BG vs. DGAST tumors. (biochain.com)
This was possible by comparing expression patterns in stromal cells surrounding the tumors with cells of similar tissues to identify unique patterns. (biochain.com)
The expression of genes involved in the migration of T cells and myeloid cells, T cell activation and costimulation, interferon (IFN)-γ signaling, cytotoxicity and apoptosis was higher than in low infiltrated tumors. (bmj.com)
1 VSCC comprise three molecularly defined subtypes: HPV-associated tumors (HPVpos VSCC), HPV-independent tumors with wildtype p53 expression (HPVneg/p53wt VSCC), and those with mutant p53 expression (HPVneg/p53mut VSCC). (bmj.com)
16/23462-8 - Epigenetic mechanisms in liver tumors: expression modulation of epigenetic gene regulators and gene expression analysis by RNAseq in hepatoblastoma. (fapesp.br)
In a series of 175 human adult tumors, gene expression was highest in ovarian serous carcinomas. (nature.com)
In brief, frozen sections of profiled tumors were examined by hematoxylin-and-eosin, and areas rich in neoplastic cells were cut from the frozen blocks. (nature.com)

microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. (cancerindex.org)
Because the regulation of gene expression has been found to be a common mechanism underlying ASD, the team will analyze gene expression patterns in the brains of mutants. (sfari.org)
As genome-scale measurements lead to increasingly complex models of gene regulation, systematic approaches are needed to validate and refine these models. (biomedcentral.com)
The duplicated gene expression results in combination with the genome analysis suggest the possibility of long-range regulation of H2-T gene expression and/or important, but as yet unidentified nucleotide changes in the promoter or enhancer regions of the genes. (edu.au)

However, genes which show highly correlated patterns of expression in one biological state, but not in another, may not be highly correlated across the entire dataset, and therefore would not be associated with one another if a clustering algorithm is used. (biomedcentral.com)
Here, we examined the expression profile of 108 patients with MDS from the GSE58831 dataset, and identified 22 genes that were significantly associated with overall survival. (frontiersin.org)
The PCL files generated for each dataset are used to populate the expression analysis tool SPELL . (yeastgenome.org)
The correlation coefficient is calculated between every pair of genes in every dataset, then the number of datasets in which the pair of genes has a significant correlation with one another is determined. (yeastgenome.org)
This resource, combining a unique new dataset and novel application of analysis methods to multiple relevant datasets, identifies numerous potential drug targets for manipulating circuit function, reveals neuron subtype-specific roles for disease-linked genes, and is useful for understanding gene expression changes observed in human patient brains. (jneurosci.org)

Scope includes mutations and abnormal protein expression. (cancerindex.org)
Hoffman's team aims to extend this work by investigating zebrafish with mutations in nine strong ASD candidate genes, previously identified from whole-exome sequencing of the Simons Simplex Collection (SSC) . (sfari.org)
Behavioral profiles arising after exposure to psychoactive compounds will be compared in zebrafish containing mutations in ASD genes and in wildtype zebrafish. (sfari.org)
By studying genes, proteins, and other molecules within cells, biologists can identify genetic mutations responsible for inherited disorders. (freescience.info)
By unraveling the complex interactions between genes and their regulatory elements, researchers can identify disease-causing mutations more accurately. (freescience.info)
Considering the spatial proximity of cells within a tissue sample alongside differential expression analysis offers a more comprehensive picture of disease development, key driver mutations, and possible therapeutic targets. (biochain.com)
Although the utility of these prognostic assessment systems has been confirmed in clinical practice, they do not take gene mutations into account ( 13 ). (frontiersin.org)
Multiple gene mutations have been identified and considered as important substrates for the development of MDS, such as RNA splicing, histone manipulation, DNA methylation, transcription factors, kinase signaling, DNA repair, cohesin proteins, and other signal transduction elements. (frontiersin.org)

The Human Cell Atlas relies, to a great extent, on the use of transcriptome sequencing to profile the gene expression of individual cells. (genengnews.com)
Such global gene expression patterns can be represented by a "transcriptome", which reveals the identity and the level of expression of each expressed gene in a defined population of cells (Velculescu et al. (scite.ai)
1997). The transcriptome can be modulated by both external and internal factors, and thereby provide not only information useful for the understanding of the basic cellular biology but also a global view of biological responses over environmental stimuli.Gene expression profiles can be obtained and compared by various methods, such as RNA-DNA hybridization measurements, subtractive hybridization, subtraction libraries, and differential display. (scite.ai)
The transcriptome of embryos produced in serum-free conditions showed a greater resemblance to that of in vivo derived embryos, although genes involved in lipid metabolism were altered. (biomedcentral.com)
To extend our knowledge on molecular effects of tobacco smoke exposure in pregnancy, we analyzed transcriptome alterations in passive smokers (PS) and compared them to those in active smokers (AS). (nih.gov)
However, our understanding of the transcriptome-when and where genes are turned on-in the developing brain has been limited. (blogspot.com)

By profiling sensory ganglia at single-cell resolution we show that this demyelination induces transcriptional reprogramming preferably in proprioceptive and Aβ RA-LTMR neurons. (biorxiv.org)
Many of these models contain transcriptional interactions for which the regulatory effects (inducer versus repressor) are ambiguous and cannot be determined from publicly available expression profiles. (biomedcentral.com)
SIGNIFICANCE STATEMENT Understanding the basis of functional specialization of neuron subtypes and identifying drug targets for manipulating circuit function requires comprehensive information on cell-type-specific transcriptional profiles. (jneurosci.org)
MicroRNAs (miRNAs) are an integral part of the post-transcriptional machinery of gene expression and have been implicated in the carcinogenic cascade. (cdc.gov)

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)

Some plant miRNA families have many members, and their mature miRNAs often have multiple target genes having similar complementary sequence. (biomedcentral.com)
Here we examined 145 SNPs in 6 miRNA processing genes and in 78 miRNAs which target genes known to be important in breast cancer among 906 African American (AA) and 653 European American (EA) cases and controls enrolled in the Women's Circle of Health Study (WCHS). (cdc.gov)

Dec. 16, 2020 Researchers have measured hepatic organohalogen (OHC) concentrations and gene expression profiles in Atlantic salmon collected from three areas in the Baltic Sea. (sciencedaily.com)

A subset of highly regulated genes was validated using quantitative PCR. (stanford.edu)
For a one-step quantitative detection method for gene expression, consider BioChain's QCell-Eva One-Step qRT-PCR SuperMix Kit . (biochain.com)
The recent DNA microarray technique allows large-scale quantitative gene expression analysis. (scite.ai)
Here, we used quantitative real-time PCR, profiling the expression of 93 genes in single-cells from three different cell lines. (frontiersin.org)
We investigated the expression of genes of interest using quantitative reverse transcription PCR. (molvis.org)

coXpress can be used to find groups of genes that display differential co-expression patterns in microarray datasets. (biomedcentral.com)

ATAA-related changes were then examined by comparing the proportions of each cell type and the gene expression profiles between ATAA and control tissues. (nih.gov)
Differential gene expression data suggested the presence of extensive mitochondrial dysfunction in ATAA tissues. (nih.gov)
Most maize CDPK genes exhibited different expression levels in different tissues and developmental stages. (biomedcentral.com)
BioChain offers a wide selection of FFPE TMAs and FFPE Tissues to be used for control samples in multiomics profiling studies. (biochain.com)
We need to be able to prepare cells from complex tissues, get them into a suspension, and analyze them," Dr. Hindson explained. (genengnews.com)
We previously disclosed a pattern of low-level hypomethylation in non-repetitive sequences of hepatoblastomas in comparison to control liver tissues, evidencing a crucial role for epigenetic dysregulation in this type of cancer. (fapesp.br)
however, the expression in normal and malignant adult tissues has not been examined in detail. (nature.com)
Here, we examined the expression of the HE4 gene and protein in a large series of normal and malignant adult tissues by oligonucleotide microarray and tissue microarray, respectively. (nature.com)
Using tissue microarrays and full tissue sections of normal and 448 neoplastic tissues, HE4 immunoreactivity was found in normal glandular epithelium of the female genital tract and breast, the epididymis and vas deferens, respiratory epithelium, distal renal tubules, colonic mucosa, and salivary glands, consistent with HE4 gene expression. (nature.com)
Here, we used oligonucleotide and tissue microarrays to survey HE4 gene and protein expression in a large group of malignant and normal tissues from adults. (nature.com)
Our findings form the basis for further functional validation studies of the Mhc class Ib gene expression profiles in specific tissues, such as the brain. (edu.au)
We reviewed published microarray and RNA sequencing studies in which gene expression profiles were compared between human RB and normal retina tissues. (molvis.org)
Expression of DCT was absent or barely detected in retina tissues, various human ocular cells, and major organs. (molvis.org)

Prognostic models based on immune-related genes help to improve the prognosis prediction and clinical treatment of breast cancer patients. (techscience.com)
In the study, we used weighted gene co-expression network analysis to construct a co-expression network to screen out highly prognostic immune-related genes. (techscience.com)
Subsequently, the prognostic immune-related gene signature was successfully constructed from highly immune-related genes through COX regression and LASSO COX analysis. (techscience.com)

Using a high-throughput in vivo approach, Hoffman and her team previously identified dysfunction of excitatory and inhibitory systems in zebrafish lacking a functional autism risk gene, CNTNAP2 . (sfari.org)
For example, gene therapy offers promising solutions by delivering functional genes or gene-editing tools directly into affected cells. (freescience.info)
However, future functional studies are required to understand the role of the EBV gene expression profile in the onset/progression of prostate cancer. (researchsquare.com)
The present project intends to expand the analysis of these candidate genes, which have been identified in previous studies from our group in Brazilian hepatoblastoma patients, in other hepatoblastoma cohorts, as well as to perform functional studies of the most promising gene, focusing on epigenetic changes in this tumor type. (fapesp.br)
Functional classification of the expressed genes reveals that those involved in cellular biogenesis such as polygalacturonase, pectate lyase, and pectin methylesterase make up more than 40% of the total transcripts. (scite.ai)
Our results strongly suggest that poor accumulation of proteins that play a role in stress tolerance may be why Arabidopsis pollen is cold sensitive.The functional and biochemical features of specific cell types are determined by their particular gene expression profiles. (scite.ai)
To understand the molecular-genetic basis of functional specialization and identify potential drug targets specific to each neuron subtype, we performed a genome wide assessment of both gene expression and splicing across EXC, PV, SST and VIP neurons from male and female mouse brains. (jneurosci.org)
These results reveal numerous examples where neuron subtype-specific gene expression, as well as splice-isoform usage, can explain functional differences between neuron subtypes, including in presynaptic plasticity, postsynaptic receptor function, and synaptic connectivity specification. (jneurosci.org)

We also examined which genes may be critical for ATAA by performing the integrative analysis of our single-cell RNA sequencing data with publicly available data from genome-wide association studies. (nih.gov)
In addition, integrative analysis of our single-cell RNA sequencing data with public genome-wide association study data and promoter capture Hi-C data suggested that the erythroblast transformation-specific related gene( ERG ) exerts an important role in maintaining normal aortic wall function. (nih.gov)
In rice, studies on miR159 were either based upon genome-wide expression analyses focused upon responses to different nitrogen forms and abiotic stress or upon phenotypic studies of transgenic plants overexpressing its precursor. (biomedcentral.com)
The team identified six chemical cocktails that can restore a youthful genome-wide transcript profile and reverse transcriptomic age in less than a week without compromising cellular identity to a similar extent as OSK overexpression. (news-medical.net)
We used a genome-wide analysis which not only examined differential gene expression levels but could also detect differences in splice isoform usage. (jneurosci.org)

Despite having an identical genome, cells can be regulated differently via epigenetic mechanisms that result in cell specific gene expression patterns. (ccmb.res.in)
Aiming to explore the underlying mechanisms related to hepatoblastoma hypomethylation, we have analyzed the expression profile of a set of genes engaged in the epigenetic machinery related to DNA methylation, as well as the 5-hydroxymethylcytosine (5hmC) global level. (fapesp.br)
Loss of epigenetic information is a characteristic of cellular aging in eukaryotes, resulting in changes in gene expression, loss of cellular identity, mitochondrial malfunction, inflammation, and cellular senescence, which contribute to aging and age-related illnesses. (news-medical.net)
The researchers discovered that OSK expression in cells, such as murine and human fibroblasts, may significantly repair the epigenetic environment and patterns of gene expression of aged cells. (news-medical.net)

Gene expression profiles from 128 adult patients with newly diagnosed ALL were characterized using high-density oligonucleotide microarrays. (aacrjournals.org)
From each culture, AV leaflets were pooled by force condition and RNA expression evaluated using microarrays. (stanford.edu)
18 With the exception of the ovarian neoplasms, the same carcinomas analyzed for gene expression were also examined for HE4 by immunohistochemistry on tissue microarrays (see below). (nature.com)
Microarrays have become a standard tool for the exploration of global gene expression changes at the cellular level [ 1 ]. (biomedcentral.com)
Custom microarrays revealed gene expression levels in laser-microdissected brain regions. (blogspot.com)

To characterize gene expression signatures in acute lymphocytic leukemia (ALL) cells associated with known genotypic abnormalities in adult patients. (aacrjournals.org)
Cells extracted from aortic tissue were analyzed and categorized with single-cell RNA sequencing data to perform cluster identification. (nih.gov)
One particular gene of interest ( NKX6.3 ) was found by IHC and qPCR to be expressed in DGAST cells but not in normal tissue - suggesting it plays a role in tumorigenesis or precursor events in the tissue prior to tumor formation. (biochain.com)
We developed a fast way of profiling tens of thousands of cells, where for each cell, we capture gene expression in an unbiased way," says Benjamin J. Hindson, Ph.D., CSO, president, and cofounder of 10x Genomics. (genengnews.com)
Methods The type, location, and infiltration pattern of T cells were studied in 109 patients with primary VSCC FIGO stage I-III. (bmj.com)
The study assessed the genetic expression patterns of chemically treated cells compared to aged human-origin cells and OSK(MYC)-induced murine and human iPSC. (news-medical.net)
By applying the random forests algorithm, a supervised machine learning approach, we show how a multi-gene signature that classifies individual cells into their correct cell cycle phase and cell size can be generated. (frontiersin.org)
Detailed analysis of cell cycle predictive genes allowed us to define subpopulations with distinct gene expression profiles and to calculate a cell cycle index that illustrates the transition of cells between cell cycle phases. (frontiersin.org)
Mar. 20, 2019 As an organism grows and responds to its environment, genes in its cells are constantly turning on and off, with different patterns of gene expression in different cells. (sciencedaily.com)
The Drosophila CNS midline cells are an excellent system for studying these issues because they consist of a small population of diverse cells with well-defined gene expression profiles. (biologists.com)
In collaboration with co-senior author Rahul Satija , core faculty member of the New York Genome Center, Fishell and colleagues analyzed brain regions in developing mice known to contain precursor cells that give rise to interneurons. (harvard.edu)
Using Drop-seq , a single-cell sequencing technique created by researchers at HMS and the Broad, the team profiled gene expression in thousands of individual cells at multiple time points. (harvard.edu)
This approach overcomes a major limitation in past research, which could analyze only the average activity of mixtures of many different cells. (harvard.edu)
In the current study, the team found that the precursor state of all interneurons had similar gene expression patterns despite originating in three separate brain regions and giving rise to 14 or more interneuron subtypes alone-a number still under debate as researchers learn more about these cells. (harvard.edu)
As they profiled cells at later stages in development, the team observed the initial emergence of four interneuron "cardinal" classes, which give rise to distinct fates. (harvard.edu)
By developing a novel computational strategy to link precursors with adult subtypes, the researchers identified individual genes that were switched on and off when cells began to diversify. (harvard.edu)
To investigate the effects of changing the composition of TFIID in a simple system we depleted TAF1 from Drosophila cells and determined the consequences on metal induced transcription at an inducible gene, Metallothionein B (MtnB). (refine.bio)
Using Illumina Expression Beadchip with 24,526 transcript probes, gene expression patterns were assayed in placentas from PS (N=25) exposed to environmental tobacco smoke (ETS) throughout pregnancy and non-exposed (NS) counterparts (N=35), and in cord blood cells from their newborns. (nih.gov)
Classical markers for hematopoietic stem cells (HSCs), such as CD90 and CD49F, were largely preserved, whereas CD135 (FLT3) and CD123 (IL3R) had a ubiquitous expression pattern capturing heterogenous populations. (lu.se)
Anna Konturek-Ciesla, a researcher at Lund Stem Cell Center and the lead author of the study explains, "In our research, which focuses on hematopoiesis, or blood cell formation, many studies have attempted to analyze the changes associated with aging in blood stem cells using gene expression profiling. (lu.se)
Studying gene expression is essential for understanding how cells function and respond to different stimuli. (lu.se)
Today, performing gene expression analysis on young and aged hematopoietic stem cells is a common practice, used to understand the changes associated with aging. (lu.se)
Despite this wealth of knowledge, Anna Konturek-Ciesla noted that there is still no consensus about the molecular profile of aged hematopoietic stem cells. (lu.se)
Suspecting that experimental procedures used during gene expression analysis might be influencing the results, they examined how stress-related genes behaved in cells collected under different conditions. (lu.se)
When we looked at our data, we noticed a pattern of stress-induced changes in gene activity, especially in cells exposed to higher temperatures during isolation," explains David Bryder, Professor of Molecular Hematology at Lund University, and research group leader at Lund Stem Cell Center. (lu.se)
Anaplastic large cell lymphomas (ALCLs) are distinguished from other lymphomas by their anaplastic cytology and constant membrane expression of the CD30 antigen (an activation marker for B or T cells). (medscape.com)

The authors of the present study previously demonstrated that ectopically induced transcription factors, Octamer-binding transcription factor 4 (OCT-4), sex-determining region Y-box 2 (SOX2), and Kruppel-like factor 4 ( KLF-4) (collectively known as OSK factors) among mammals can reverse aging by restoring youthful patterns of deoxyribonucleic acid (DNA) methylation, transcriptomic profiles, and tissue functioning without cell identity loss. (news-medical.net)

Supervised analysis of kinase genes revealed a high-level FLT3 expression in a subset of cases without molecular rearrangements. (aacrjournals.org)
Thanks to molecular biology techniques like DNA sequencing and gene expression analysis, biologists have made significant strides in understanding genetics and genomics. (freescience.info)
Further analysis from the RNA-seq data showed that the decreased cell divisions in STTM159 transgenic plants may result, at least partly from the lower expression of the genes involved in cell cycle and hormone homeostasis, which provides new insights of rice miR159-specific functions. (biomedcentral.com)
In this study, we performed a bioinformatics analysis of the entire maize genome and identified 40 CDPK genes. (biomedcentral.com)
Cell Ranger is a set of analysis pipelines that processes Chromium single-cell 3′ RNA-Seq output to align reads, generate gene-cell matrices, and perform clustering and gene-expression analysis. (genengnews.com)
In this study, prostate cancer and benign prostatic hyperplasia (BPH) samples were screened for the presence of EBV, followed by the characterization of the EBV latency profile and analysis of histopathological parameters in EBV-positive and EBV-negative groups. (researchsquare.com)
We have characterized the global gene expression patterns of Arabidopsis pollen using Serial Analysis of Gene Expression (SAGE). (scite.ai)
The expression patterns of the cold-responsive transcripts identified by SAGE were confirmed by microarray analysis. (scite.ai)
Another technology, Serial Analysis of Gene Expression (SAGE), in part overcomes this limitation. (scite.ai)
Eisen et al used hierarchical cluster analysis to determine groups of co-expressed genes, and found that genes within those groups were functionally related [ 4 ], and the use of hierarchical cluster analysis is now a standard technique for analysing microarray data [ 2 , 6 ]. (biomedcentral.com)
Analysis of global gene expression in bovine embryos produced under different conditions can provide valuable information to optimize culture media for in vitro embryo production. (biomedcentral.com)
The system was designed to be efficient, allowing for high-throughput analysis of cellular health and youthful gene expression patterns. (news-medical.net)
Datasets are used to populate the expression analysis tool SPELL and may contain data for more than one unique experimental condition. (yeastgenome.org)
In the present study, a total of 13, 12, 8 and 8 candidate fatty acid desaturases genes were identified in the Aspergillus oryzae , Aspergillus flavus , Aspergillus fumigatus and Aspergillus nidulans genomes through database searches, which were classified into five different subfamilies based on phylogenetic analysis. (springeropen.com)
Furthermore, a comprehensive analysis was performed to characterize conserved motifs and gene structures, which could provide an intuitive comprehension to learn the relationship between structure and functions of the fatty acid desaturases genes in different Aspergillus species. (springeropen.com)

Our software identifies several groups of genes that are highly correlated under one set of biologically related experiments, but which show little or no correlation in a second set of experiments. (biomedcentral.com)
Filter similar genes by adjusting the number of datasets in which their expression profiles are highly correlated with the gene of interest by clicking anywhere on the slider bar or dragging the tab to the desired filter number. (yeastgenome.org)

Interestingly, many genes thought to be responsible for cold acclimation such as COR, lipid transfer protein, and ␤-amylase, that are highly induced in Arabidopsis leaves, were only expressed at their normal level or weakly induced in the pollen. (scite.ai)

5) qPCR for confirmation of differential gene expression. (biochain.com)
Subsequently, cDNA samples were used in a qPCR array to analyze the expression of EBV latency-associated genes to map the latency profile EBV maintains in the samples. (researchsquare.com)
The selection of only a few genes to check embryo quality was based on the fact that the evaluation of expression of all the genes in the genome by qPCR was a daunting task. (biomedcentral.com)

We recently reported a procedure for inferring gene-regulatory network models by integrating gene-expression profiles with high-throughput measurements of protein interactions [ 18 ]. (biomedcentral.com)
However, with the development of gene expression profile and new high-throughput technology, the understanding of the pathogenesis of MDS is getting further and better. (frontiersin.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)

We used RNA sequencing to examine the effect of in vitro embryo production, in either serum-containing or serum-free media, on the global gene expression pattern of individual bovine blastocysts. (biomedcentral.com)

We found that the total transcript level per cell and the expression of most individual genes correlated with progression through the cell cycle, but not with cell size. (frontiersin.org)

Ribonucleic acid (RNA) sequencing (to analyze transcriptomic profiles), signature association, transcriptomic clock, and iPSC profiling analyses were performed. (news-medical.net)

The immune-related gene signature effectively predicts the survival and immune infiltration of breast cancer patients and is expected to provide more effective immunotherapy targets for the prognosis prediction of breast cancer. (techscience.com)
Conclusion An active immune signaling profile is present in 35% of primary FIGO I-III VSCCs, suggesting potential responsiveness to neoadjuvant PD-1/PD-L1 immunotherapy. (bmj.com)

Cord blood of newborns of PS displayed differential expression of 116 genes encoding mainly neuronal factors, regulators of immunologic response, and protooncogenes. (nih.gov)

HE4 is one of more than 8900 different human genes represented on U95a GeneChips (Affymetrix, Santa Clara, CA, USA), which we used previously to develop a molecular classification of 175 human carcinomas based on patterns of gene expression. (nature.com)
Because miRNAs may regulate approximately 60% of human genes [ 11 ], the relationship between miRNAs and human diseases has been extensively explored in the last decade. (cdc.gov)

The present work highlights that DCT is one of the most RB-specific genes. (molvis.org)

We present previous work from the group that led to this project, as well as preliminary results that provide a basis for modulation of candidate genes in hepatoblastoma tumor cell lines. (fapesp.br)

Here, we employed single-cell gene expression profiling to describe the dynamic transition between cell proliferative states in three different cell lines using a panel consisting of 93 marker genes. (frontiersin.org)
here, we use a combination of single-cell gene expression mapping and time-lapse imaging to identify individual MPs, their locations, movements and stereotyped patterns of division. (biologists.com)

Psychoactive medications in water affect the gene expression profiles of fathead minnows in a way that mimics the gene expression patterns associated with autism spectrum disorder in genetically susceptible humans, according to new research. (sciencedaily.com)
Psychoactive medications in water affect the gene expression profiles of fathead minnows in a way that mimics the gene expression patterns associated with autism spectrum disorder in genetically susceptible humans, according to research published June 6 in the open access journal PLoS ONE . (sciencedaily.com)
Although the many genes associated with autism and schizophrenia don't show a clear relationship to each other in the adult brain, the BrainSpan Atlas reveals how these diverse genes are connected in the developing brain," says NIMH Director Dr. Thomas R. Insel. (blogspot.com)

BCR/ABL + gene expression pattern was more heterogeneous and was most similar to ALL without known molecular rearrangements. (aacrjournals.org)
Molecular biology techniques are instrumental in designing safe and effective gene delivery systems for the manipulation of DNA and genome. (freescience.info)
Using CITE-seq (cellular indexing of transcriptomes and epitopes by sequencing), the molecular profile of established immunophenotype-gated progenitors was analyzed in the fetal liver (FL). (lu.se)

In conclusion, we provide useful experimental approaches and bioinformatics to identify informative and predictive genes at the single-cell level, which opens up new means to describe and understand cell proliferation and subpopulation dynamics. (frontiersin.org)

LEAFY plant-specific transcription factors, which are key regulators of flower meristem identity and floral patterning, also contribute to meristem activity. (researchgate.net)
Plant microRNAs (miRNAs) are 20-24 nucleotides (nt) long and widely exist as gene regulators. (biomedcentral.com)

A total of 196 genes were significantly deregulated in placentas of PS compared to NS. (nih.gov)

Among the results, the researchers identified transcription patterns reflecting differences in cortical development between humans, nonhuman primates, and rodents. (blogspot.com)

To investigate the adult tissue, embryonic and placental expressions of these genes, we performed RT-PCR gene expression profiling using gene-specific primers. (edu.au)
In addition we will address important areas of modern epidemiology such as the influence of early life factors on adult health and disease, but also the importance of the gene-diet-microbiota interaction for body function and health. (lu.se)

For example, embryos produced in serum-containing conditions had a lower expression of genes related to metabolism while embryos produced in serum-free conditions showed aberrations in genes involved in lipid metabolism. (biomedcentral.com)

Variation may exist in the expression of a gene in different groups of individuals due to the presence of sub-populations, and this may lead to that gene being grouped incorrectly. (biomedcentral.com)
Transcriptomic profiling of T-cell populations in non-muscle invasive and muscle invasive bladder cancer. (lu.se)

Dot-plot and phylogenetic analyses implied that the genes were generated by monogenic and/or multigenic duplicated events. (edu.au)

Immune escape is mainly caused by histocompatibility complex (MHC) class I, abnormal antigen signaling mechanism, immunosuppressive components (such as HLA-G), Fas and its ligands to activate apoptosis and overexpression of other immunosuppressive molecules, such as lymphocyte activation gene 3 (LAG-3), T cell immunoglobulin and mucin domain 3 (TIM-3) ( Steven and Seliger, 2018 ). (techscience.com)
While several checkpoint molecules were overexpressed, only PD-L1 expression displayed discriminatory ability and clinical usefulness. (bmj.com)
To better understand the roles of class Ib molecules, we have characterized their gene duplication, organization and expression patterns within the H2 region of the mouse strain C57BL/6. (edu.au)

40 Open group genes with progression toward disease.Failure of AV to close initiates an extensive response characterized by expression changes common to progression to calcific aortic valve disease. (stanford.edu)

Knowledge of the expression patterns of HE4 in our survey is useful for application in histopathologic diagnosis, and should be taken into consideration in future studies that examine the role of HE4 as a serological tumor biomarker or as a target for gene-based therapy. (nature.com)

This antimicrobial gene encodes a chemokine of the CXC subfamily and ligand for the receptor CXCR3. (cancerindex.org)
The HE4 (WFDC2) gene encodes a WAP-type four disulphide core domain-containing protein with a presumptive role in natural immunity. (nature.com)
Gene ID: 5925, OMIM 614041 ) gene, which encodes a tumor suppressor protein. (molvis.org)

Comparison of dyskinesia profiles after L-DOPA dose challenges with or without dopamine agonist coadministration (Neuropharmacology, 2023). (lu.se)

Interplay of pericentromeric genome organization and chromatin landscape regulates the expression of Drosophila melanogaster heterochromatic genes. (ccmb.res.in)

We used a novel flow bioreactor culture to investigate alteration of AV opening or closure on leaflet genes.Culture of rat AV was conducted in a flow bioreactor for 7 days at 37°C under conditions approximating the normal stroke volume. (stanford.edu)

Towards this goal, we describe an automated procedure for prioritizing genetic perturbations in order to discriminate optimally between alternative models of a gene-regulatory network. (biomedcentral.com)
Using this procedure, we evaluate 38 candidate regulatory networks in yeast and perform four high-priority gene knockout experiments. (biomedcentral.com)
Recent advances in genomics and computational biology are enabling construction of large-scale models of gene-regulatory networks. (biomedcentral.com)
These data have spawned a variety of methods to infer the structure of gene-regulatory networks or to study their high-level properties, as recently reviewed [ 5 ]. (biomedcentral.com)
First, we use the previously described modeling procedure to generate a library of models corresponding to different gene-regulatory systems in yeast. (biomedcentral.com)
These properties arise during a sequence of developmental events that require numerous gene regulatory and signaling processes. (biologists.com)
The regulatory elements required for this cell-specific gene expression are likely located within its proximal promoter. (molvis.org)

Through an unbiased screen, they identified a novel role for compounds with estrogenic activity in the rescue of an autism gene-associated mutant behavioral phenotype. (sfari.org)
They found that the only gene expression patterns affected were those associated with idiopathic autism spectrum disorders, caused by genetic susceptibility interacting with unknown environmental triggers. (sciencedaily.com)

However, these methods may miss groups of genes which form differential co-expression patterns under different subsets of experimental conditions. (biomedcentral.com)

T-lineage ALL was characterized by a homogeneous gene expression pattern, whereas several subgroups of B-lineage ALL were evident. (aacrjournals.org)
The core gene set could separate subgroups of acute lymphoblastic leukemia by age, suggesting that a fetal program may be partially retained in specific subgroups of pediatric leukemia. (lu.se)

We provide a searchable web resource for exploring differential mRNA expression and splice form usage between excitatory, PV, SST, and VIP neurons ( http://research-pub.gene.com/NeuronSubtypeTranscriptomes ). (jneurosci.org)
We sorted excitatory neurons and key inhibitory neuron subtypes from mouse brains and assessed differential mRNA expression. (jneurosci.org)

demonstrates the power of multiomics profiling. (biochain.com)

By investigating nucleic acids like DNA and RNA, as well as proteins and other biomolecules, scientists gain insights into gene expression, protein synthesis, gene transfer, and more. (freescience.info)
However, genes involved in energy and protein synthesis, which are prevalent in leaves, were expressed at a relatively low level. (scite.ai)

The transcript profiles of pollen reflect accurately the characteristics of pollen as a reproductive organ. (scite.ai)

Altering expression of miRNAs can result in multiple visible phenotypes of a plant. (biomedcentral.com)
We found a number of SNPs in miRNAs and processing genes in association with breast cancer overall or stratified by estrogen receptor (ER) status. (cdc.gov)
MicroRNAs (miRNAs) are small, noncoding RNAs that bind to the 3' UTR of target mRNAs, and silence gene expression by inducing degradation of target mRNAs or inhibition of protein translation [ 10 ]. (cdc.gov)

Anatomy24

Organisms12

Diseases27

Chemicals and Drugs53

Analytical, Diagnostic and Therapeutic Techniques and Equipment55

Phenomena and Processes82

Disciplines and Occupations6

Technology, Industry, Agriculture2

Information Science10

Health Care10

Genomic9

Differentially13

Pathways12

Ontology3

Tumors9

Regulation4

Dataset5

Mutations8

Transcriptome6

Transcriptional4

Enrichment analysis1

Target genes2

20201

Quantitative5

Microarray datasets1

Tissues13

Prognostic3

Functional8

Genome-wide5

Epigenetic4

Microarrays5

Cells26

Methylation1

Analysis15

Highly correlated2

Arabidopsis1

QPCR3

High-throughput2

Subsequently1

Global gene expression1

Individual genes1

Analyses were performed1

Immunotherapy2

Differential expression1

Human genes2

Specific genes1

Candidate genes1

Single-cell gene expression2

Associated with autism3

Molecular3

Conclusion1

Regulators2

Significantly1

Researchers1

Adult2

Aberrations1

Populations2

Phylogenetic1

Molecules3

Progression1

Serological1

Encodes3

20231

Chromatin1

Leaflet1

Regulatory7

Autism2

Subsets1

Subgroups2

MRNA2

Demonstrates1

Protein synthesis2

Transcript1

MiRNAs3