Cdna tissue array analysis. Medical search. Frequent questions

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)
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 may be used to assay gene expression within a single sample or to compare gene expression in 2 different cell types or tissue samples, such as in healthy versus diseased tissue. (medscape.com)
The 2 most common microarray technologies in use are the oligonucleotide microarrays and the robotically spotted complementary DNA (cDNA) microarrays. (medscape.com)
Our early gene expression studies were performed on cDNA microarrays, bead-arrays, but we recently transitioned to next-generation sequencing for global analyses. (hmh-cdi.org)
The report provides a complete analysis of the market, including historical data on the market for RT-PCR and microarrays, instruments, and reagents. (kaloramainformation.com)
In what follows we limit ourselves to the analysis of gene expression measurements obtained using microarrays with small spots of DNA fixed to glass slides. (lu.se)

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)
One group of symbiosis-specific transcripts identified by the in silico analysis encodes eight genes with similarity to putative plant disease resistance (R) genes. (usda.gov)
Reverse Northern and Northern blot analyses revealed that 50% of those genes were differentially expressed in pepper leaves during non-host resistance response. (ppjonline.org)
Among them, independent genes without redundancy were micro-arrayed for further analysis. (ppjonline.org)
Compared with non-tumorous tissues, both mRNA expression and protein product of ROR2 and Wnt5a genes were significantly increased in NSCLC. (oncotarget.com)
By analyzing three distinct and technically replicated datasets with either ratio- or intensity-based models, we determined that, when applied to the same dataset, intensity-based analysis of dual-color gene expression experiments yields 1) more reproducible results, and 2) is more sensitive in the detection of differentially expressed genes. (biomedcentral.com)
Analysis of variance (ANOVA) is a widely used tool to analyze and rank genes in both one- and dual-color comparative gene expression experiments [ 5 ]. (biomedcentral.com)
Genome-wide analysis of gene expression provides insight into the transcriptional state of a cell or tissue sample, measuring RNA levels for thousands of genes in parallel. (biomedcentral.com)
The introduction of complementary DNA (cDNA) microarray technology in 1995 has helped to facilitate the identification and classification of DNA sequence information and the assignment of functions to these new genes by allowing investigators to analyze expression of thousands of genes simultaneously in a single experiment. (medscape.com)
The microarray analysis included 715 genes and was conducted in triplicate. (cdc.gov)
Clustering analysis based on expression profiles and gene function revealed sets of genes differentially regulated between proliferating and differentiating C2CI2 cells. (cdc.gov)
The expression of selected genes was validated by real time RT -PCR, for both the direction and magnitude of the gene expression observed by the cDNA array. (cdc.gov)
Background: Expression analysis of estrogen response genes (ERGs) may help to predict the effectiveness of endocrine therapies in breast cancer patients. (iiarjournals.org)
Pathway overrepresentation analysis was then performed in each group of genes. (biomedcentral.com)
The number of genes showing differential expression between nasal polyp and control tissues as well as the genes and pathways differentially regulated after stimulation with S. aureus enterotoxin B in each of the groups is described in Table 1. (biomedcentral.com)
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)
Mathematical Vector analysis implied a number of BAC-clones in tumor DNA with genes of potential importance for death or survival. (lu.se)
List of genes screened by whole mount in situ hybridization that did not meet the 1.5 fold decrease threshold in Foxa2 mutants, as detected by the Affymetrix U74Av2 array. (mindunwindart.com)
List of genes screened by whole mount in IDH2 situ hybridization that were significantly reduced in Foxa2 mutants, as detected by the buy 1201898-17-0 Affymetrix MOE430v2 array. (mindunwindart.com)
Gene Ontology (GO) terms significantly enriched (p 0.01) among genes expressed in the primary tissues affected in Foxa2 mutants. (mindunwindart.com)
Since genes are composed of a given alphabet (A, T, C, G) with fixed pairing properties A-T and C-G, probes can be constructed that attract gene transcripts extracted from cell tissues and cultures. (lu.se)

Accounting for such an array effect in the analysis of dual-color arrays was initially necessary due to the relatively poor quality of array platforms: researchers were confronted with different levels of background signals across arrays, and the process of spotting cDNAs yielded probes with different shapes and probe concentrations. (biomedcentral.com)
The latest generations of commercial dual-color platforms however use synthesized oligonucleotide probes instead of cDNA probes, and are of much higher and consistent quality and concentration. (biomedcentral.com)
To compare experiments that are performed on these different platforms, array probes and sequence tags need to be linked. (biomedcentral.com)
Array probes are produced by polymerase chain reaction (PCR) amplification of selected cDNAs or designed on the basis of cDNA or gene sequence information. (biomedcentral.com)
Cross-referencing array probes allows comparison of studies carried out using different technologies, and facilitates validation of gene expression. (biomedcentral.com)
In addition, the database can be used to annotate array probes with reference sequences and updated gene descriptions from UniGene. (biomedcentral.com)
The array consisted of exon probes and thermodynamically balanced junction probes. (biomedcentral.com)
Suboptimal probes were tagged and considered in the final analysis. (biomedcentral.com)
These arrays contain oligonucleotide probes that span exon-exon junctions, and probes positioned within exons to determine individual exon levels and overall transcript expression. (biomedcentral.com)
The aRNAs were applied to the infrastructure of a 3DMS with spotted cDNA probes to 36 ERGs. (iiarjournals.org)

Microarray studies undertaken in neuropsychiatric disorders such as schizophrenia and substance abuse by the use of postmortem brain tissue indicate that transcriptional changes relating to synaptic function and plasticity, cytoskeletal function, energy metabolism, oligodendrocytes, and distinct intracellular signaling pathways are generally present. (johnshopkins.edu)
Despite its biological importance, transfer RNA (tRNA) could not be adequately sequenced by Author Manuscript standard methods due to abundant post-transcriptional modifications and stable structure, which interfere with cDNA synthesis. (cdc.gov)
Significant obstacles for the sequencing of tRNA include the presence of numerous post-transcriptional modifications and its stable and extensive secondary structure, which interfere with cDNA synthesis and adapter ligation. (cdc.gov)

A conventional PCR strategy was employed using virus-specific primers to screen EBV in 99 formalin-fixed paraffin-embedded (FFPE) prostate cancer and 33 BPH samples received for histopathological analysis during the years 2019-2020. (researchsquare.com)
Background: Formalin fixed, paraffin embedded tissues are most commonly used for routine pathology analysis and for long term tissue preservation in the clinical setting. (elsevierpure.com)
Many institutions have large archives of Formalin fixed, paraffin embedded tissues that provide a unique opportunity for understanding genomic signatures of disease. (elsevierpure.com)
These metrics are applied to a study involving 1618 formalin-fixed, paraffin-embedded HER2-positive breast cancer samples from the N9831 adjuvant trial processed with Illumina's cDNA-mediated Annealing Selection extension and Ligation assay. (elsevierpure.com)
The laboratory initially developed technologies and received patents for both extraction of nucleic acids and gene expression analyses of formalin-fixed paraffin-embedded (FFPE) specimens. (hmh-cdi.org)
For example, a considerable and continuing problem in the art is to find better methods for removing degraded rRNA from formalin-fixed paraffin-embedded (FFPE) tissue sections. (justia.com)

The use of splice-junction oligonucleotides to analyze splice events was proposed as early as 1986, when Morgan and Ward used them to identify differential splice forms of minute virus in mice cDNA [ 14 ]. (biomedcentral.com)

mRNA expression of ROR2 and Wnt5a was examined in 20 pairs of NSCLC and matched adjacent normal tissues by real-time PCR. (oncotarget.com)
In PE, median TNF mRNA expression in visceral adipose tissue was higher than controls (1.94 [1.13-4.14] versus 0.8 [0.00-1.27] TNF / PPIA ratio, P =0.006). (silverchair.com)
EDN3 mRNA expression was assessed by Northern blotting in normal human tissues (n = 9) as well as in matched pairs of normal and tumourous tissues from breast specimens (n = 50). (biomedcentral.com)
Furthermore, EDN3 promoter hypermethylation was detected in 70% of primary breast carcinomas with significant association to loss of EDN3 mRNA expression ( P = 0.005), whilst normal matched breast tissues revealed no EDN3 promoter methylation. (biomedcentral.com)

Examination of 48 human breast cancer tissues revealed that GNA13 mRNA levels were inversely correlated to miR-31 levels. (biomedcentral.com)
We produced a custom-made, 3-dimensional microarray system (3DMS), using previously identified ERGs, and analyzed expression of ERGs on breast cancer tissues. (iiarjournals.org)

In silico analysis of the Medicago truncatula gene index release 8.0 at The Institute for Genomic Research identified about 530 putatively symbiosis-specific tentative consensus sequences (TCs) clustered from 2,700 expressed sequence tags (ESTs) derived solely from Sinorhizobium meliloti-inoculated root and nodule tissues. (usda.gov)
Expressed sequence tag (EST) sequencing projects have generated millions of cDNA sequences for human, mouse and other organisms that are identified by an accession number in databases such as GenBank. (biomedcentral.com)
This cDNA can then be fluorescently labeled and hybridized to the target gene sequences on the microarray. (medscape.com)

Levels of gene expression are measured using a preparation of fluorescently labeled tissue RNA (copies of DNA), together with reference RNA labeled with a different fluorochrome, hybridized onto the slides. (lu.se)

RNA sequencing and KEGG analysis uncovered 583 differentially expressed transcripts and pathways enriched in collagen formation and ECM-receptor interaction after treatment with isoliensinine. (bvsalud.org)
A cDNA filter array was constructed using putative symbiosis-specific ESTs as well as ESTs representing selected carbon and nitrogen metabolic pathways. (usda.gov)
The term "oncotarget" encompasses all molecules, pathways, cellular functions, cell types, and even tissues that can be viewed as targets relevant to cancer as well as other diseases. (oncotarget.com)
In conclusion, our study demonstrates dysregulation of inflammatory pathways predominantly in visceral adipose tissue in PE. (silverchair.com)
Stem cell chemo-attractant cytokines are thought to be released from the heart in response to injury, in an attempt to stimulate endogenous tissue repair pathways. (biomedcentral.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)

The scanner that records the intensity value is linked to digital image analysis software, which produces a color-coded image of the array, and a quantitative value is recorded for each target gene. (medscape.com)
Photostable nanoparticles arrayed on glass slides for calibration of fluorescence imaging systems and quantitative analysis. (gracebio.com)
The expression of miR-133a in 125 pairs of tissue samples was analyzed by quantitative real-time polymerase chain reaction (qRT-PCR) and correlated with patient's clinicopathological data by statistical analysis. (hindawi.com)

Here, we used circRNA microarray sequencing technology to analyze the different circRNAs between CRC tissues and normal tissues and explore the role of circIFT80 in progression of colorectal cancer. (hindawi.com)
In this present study, we found that circIFT80 was abnormally overexpression in colorectal cancer tissues and tumor cells. (hindawi.com)
Genome wide DNA alterations were evaluated by array CGH in addition to RNA expression profiling in colorectal cancer from patients with excellent and poor survival following primary operations. (lu.se)
The genomic variation in colorectal cancer cells is tremendous and emphasizes that BAC array CGH is presently more powerful than available statistical models to discriminate DNA sequence information related to outcome. (lu.se)

Using clinical breast tissue specimens, we determined that the expression of miRNA expression deregulation can be detected in non-invasive stages and that specific miRNAs may play pivotal roles in the development of breast cancer. (hmh-cdi.org)

Array-based technologies measure hybridization signal intensities in one or two channels for each array feature or probe, resulting in absolute or relative information about the expression levels of the corresponding transcripts in the samples. (biomedcentral.com)
Moreover, the FD10 microarray system automates and integrates pumping of the sample solution for hybridization, solution-driven incubation, and image acquisition and analysis functions ( 8 ). (iiarjournals.org)
Hybridization time in this system is 2 hours, an improvement over the 16 hours required with a standard glass array. (iiarjournals.org)

To examine the therapeutic impact on hypertensive renal injury, fibrosis, and its underlying mechanisms, multiple techniques were employed, including hematoxylin and eosin staining, Masson trichrome staining, RNA sequencing, gene ontology (GO) function and pathway enrichment analysis and immunohistochemistry. (bvsalud.org)

We examined the acute effects of different dietary protein sources (0.19 g, dissolved in 1 ml of water) on skeletal muscle, adipose tissue and hypothalamic satiety-related markers in fasted, male Wistar rats (~250 g). (biomedcentral.com)
Higher amounts of whey versus egg protein stimulate the greatest post-treatment anabolic skeletal muscle response, though test proteins with higher amounts of WPH more favorably affected post-treatment markers related to adipose tissue lipolysis. (biomedcentral.com)

PCR analysis of exon utilization reveals massive alternative mRNA splicing of Sec31B, with just 16 exons being constitutively utilized in all transcripts. (biologists.com)
Expression analysis was conducted by estimating the relative abundance of over 45,000 transcripts in the prefrontal cortex in response to ethanol or saline and transforming these data using the S-score method to compare ethanol vs. saline expression from pairs of arrays for each strain (Kerns et al. (genenetwork.org)

Expression analysis of miRNAs predicted to bind the 3′-UTR of GNA13 revealed that miR-31 exhibited an inverse correlation to GNA13 protein expression in breast cancer cells. (biomedcentral.com)
an effect which may be explained by an increased expression of adipose tissue lipolysis-related gene expression patterns following chronic supplementation [ 12 ], an increase in protein-induced thermogenesis (reviewed in [ 15 ]), and/or a consistent reduction in food intake given its satiety-stimulatory effects as discussed above. (biomedcentral.com)
A tissue microarray was used to study EDN3 protein expression in breast carcinoma (n = 150) and normal breast epithelium (n = 44). (biomedcentral.com)

Although our studies demonstrated that mRNAs could be quantified in FFPE tissues, we identified microRNAs as robust targets for expression profiling and as potential biomarkers. (hmh-cdi.org)

This study aims to explore its mechanism by defining changes in gene expression between neoplastic and normal tissue samples before and after treatment. (karger.com)

Adipose tissue inflammation may contribute to the clinical syndrome of PE. (silverchair.com)
We compared adipose tissue macrophage infiltration and release of pro-inflammatory adipokines in PE and healthy pregnancy. (silverchair.com)
Subcutaneous and visceral adipose tissue biopsies were collected from healthy ( n =13) and PE ( n =13) mothers. (silverchair.com)
Adipose tissue cell densities of activated (cfms + ) and total (CD68 + ) macrophages were determined. (silverchair.com)
In PE only, visceral adipose tissue TNFα release was increased after LPS stimulation (57 [76] versus 81 [97] pg/ml/µg DNA, P =0.030). (silverchair.com)
Inflammation of visceral adipose tissue may mediate many of the adverse metabolic effects associated with PE. (silverchair.com)

They can also be used for the investigation of tissues from which RNA was extracted for cDNA array analysis, thus script fly hack overwatch 2 a direct comparison of expression profiles obtained from both techniques. (pgdue.com)
however, the expression in normal and malignant adult tissues has not been examined in detail. (nature.com)
Tissue microarray-based immunohistochemical analysis was performed to determine the expression of ROR2 and Wnt5a in 219 patients. (oncotarget.com)
c 2 analysis revealed that high ROR2 or Wnt5a expression in NSCLC was significantly associated with advanced TNM stage. (oncotarget.com)
Furthermore, we compared performance of both ratio- and intensity-based analyses in terms of reproducibility and sensitivity for differential gene expression. (biomedcentral.com)
Intensity-based analysis of dual-color datasets results in more reproducible results and increased sensitivity in the detection of differential gene expression than the analysis of the same dataset with ratio-based analysis. (biomedcentral.com)
Dual-color gene expression platforms are very efficient in directly comparing two conditions, by hybridizing the two conditions together on the same array. (biomedcentral.com)
Here, we aimed at a first comprehensive analysis on EDN3 expression and its implication in human breast cancer. (biomedcentral.com)
Global gene-expression analysis is carried out using different technologies that are either array- or sequence-tag-based. (biomedcentral.com)
Gene microarray analyses represent potentially effective means for high-throughput gene expression profiling in non-human primates. (gene-quantification.de)
Through database analysis, we found that PAK3 was highly expressed in HCC patients and was positively correlated with tumor stage and grade, suggesting that PAK3 expression was closely related to HCC occurrence and development. (jcancer.org)
We hypothesized that analysis of GPCR expression would identify clear subsets of medulloblastoma and suggest distinct GPCRs that might serve as molecular targets for both imaging and therapy. (biomedcentral.com)
The S-score is a method developed for Affymetrix oligonucleotide arrays that is particularly suited to comparing expression on 2 or a small number of chips (Zhang et al. (genenetwork.org)
2002). The S-score output for each probeset is not an indication of expression magnitude but rather, the change in expression between compared arrays. (genenetwork.org)
2002. A new algorithm for analysis of oligonucleotide arrays: application to expression profiling in mouse brain regions. (genenetwork.org)
Higher miR-133a expression in tumor tissues was associated with development of distant metastasis, advanced Dukes and TNM staging, and poor survival. (hindawi.com)
In conclusion, miR-133a was downregulated in CRC tissues, but its higher expression correlated with adverse clinical characteristics and poor prognosis. (hindawi.com)
However, the exact mechanism of miRNA dysregulation in CRC pathogenesis is not fully understood, but unique sets of miRNA expression profiles have been identified in a vast array of cancers, for example, ovarian, breast, and prostate. (hindawi.com)
This system has already been used successfully in several studies for gene expression and mutation analysis ( 8 , 9 ). (iiarjournals.org)
Parts of the gene expression analysis market continue to develop in a somewhat predictable manner, whereas other segments are becoming increasingly complex and volatile. (kaloramainformation.com)
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)
Global RNA expression was determined by 44K arrays. (lu.se)
Click here for file(27K, xls) Additional file 5:Analysis of Foxa expression data by Heiko Lickert. (mindunwindart.com)

Our clinical and experimental analyses demonstrated that molecularly distinct GBM subtypes have distinct epigenetic and immune signatures that may lead to different immunosuppressive mechanisms. (elifesciences.org)
If such interaction patterns can be measured for various kinds of tissues and the corresponding data can be interpreted, potential clinical benefits are obvious and novel tools for diagnostics, identification of candidate drug targets, and predictions of drug effectiveness for e.g. cancer diseases will emerge. (lu.se)
In clinical applications, which is of most relevance here, each slide corresponds to a tissue or blood sample, e.g. a biopsy. (lu.se)

Widely used RNA-seq methods start with adapter ligation and cDNA synthesis of biological RNA samples followed by PCR amplification to generate sequencing libraries1. (cdc.gov)

The metrics proposed in this paper have direct biological interpretations and can be used to identify arrays that should either be removed from analysis all together or down-weighted to reduce their influence in downstream analyses. (elsevierpure.com)

Multivariate analyses suggested that ROR2, Wnt5a and TNM stage were independent prognostic factors in NSCLC. (oncotarget.com)

Prefrontal cortex tissue was isolated by microdissection using a wedge-shaped slice taken from a 4 mm thick brain slice extending rostrally from the optic chiasm. (genenetwork.org)

Fluorescence-activated cell sorting and cDNA-microarray analyses revealed that each subclone was composed of distinct populations of cells. (nature.com)
The microtubule cytoskeleton is critical for muscle cell differentiation and undergoes reorganisation into an array of paraxial microtubules, which serves as template for contractile sarcomere formation. (elifesciences.org)
EDN3 promoter methylation was analysed by methylation-specific PCR in breast cell lines (n = 6) before and after demethylating treatment, normal breast tissues (n = 17) and primary breast carcinomas (n = 128). (biomedcentral.com)
The quality and specificity of information obtained from human postmortem tissue is rapidly increasing with the maturation and refinement of array-related methodologies and analysis tools, and with the use of focused cell populations. (johnshopkins.edu)
We selected the ERGs for this study from our previously developed custom-made breast cancer cell cDNA glass array ( 6 ). (iiarjournals.org)
MSCs can promote host tissue repair through several different mechanisms including donor cell engraftment, release of cell signaling factors, and the transfer of healthy organelles to the host. (frontiersin.org)

Total RNA was isolated from each of 30 single mouse sclera (n=30, 6 sclera each from 1-, 2-, 3-, 6-, and 8-week-old mice) and reverse-transcribed into cDNA using a T7-N 6 primer. (molvis.org)
A pool of dissected tissue from 3 mice of the same strain/treatment group was used to generate RNA samples. (genenetwork.org)

A possible pathway that contributes to the postnatal development of the sclera was investigated using Ingenuity Pathway Analysis software. (molvis.org)

These include cDNA clone libraries, Affymetrix GeneChips, and oligonucleotide sets for human, mouse and rat (Table 1 ). (biomedcentral.com)
Initial annotation of the rhesus genome array was based on Affymetrix human GeneChips. (gene-quantification.de)

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)
Finally, statistical analyses were performed to determine the correlation between EBV and several histopathological features of the samples. (researchsquare.com)
Tissue samples were taken from the tumor and from normal adjacent mucosa during both colonoscopy and surgery. (karger.com)
The platform was then applied to the analysis of differential splice forms in lung cancer samples compared to matched normal lung tissue. (biomedcentral.com)
Standard Affymetrix reagents and protocols were used for generation of cDNA and biotinylated cRNA from total RNA samples. (genenetwork.org)
Tissue samples. (iiarjournals.org)
For the microarray analysis, we surgically obtained 27 breast cancer tissue samples from patients undergoing treatment at the Saitama Cancer Center Hospital (Saitama, Japan) from 25/8/2003 - 6/11/2003. (iiarjournals.org)
In particular, the present invention provides methods for generating compositions comprising affinity-tagged antisense rRNA molecules, kits comprising such compositions, and methods for using such compositions to generate rRNA-depleted samples or to isolate rRNA from a sample (e.g., for further analysis and use). (justia.com)

Currently, GeneHopper contains the most commonly used array resources for human, mouse and rat. (biomedcentral.com)
We review some of the unique methodological constraints related to the use of human postmortem brain tissue in addition to the generally applicable requirements for microarray experiments. (johnshopkins.edu)
Then total RNA was isolated, transcribed to cDNA and used for microarray analysis using the Affymetrix Human Gene 2.1 ST Array. (biomedcentral.com)
Use of the Affymetrix Human GeneChip array and genomic. (cambridge.org)
GUTSS: An Alignment-Free Sequence Comparison Method for Use in Human Intestinal Microbiome and Fecal Microbiota Transplantation Analysis. (cdc.gov)

The array was used to analyze transcript abundance of M. truncatula roots and nodules following inoculation by a wild-type S. meliloti strain, a mutant strain that forms ineffective nodules, an uninoculated root control as well as roots following nitrate or ammonium treatments. (usda.gov)

Because of the complexity of the data sets generated by microarray experiments, the use of data-analysis software is essential. (medscape.com)

The problems caused by rRNA are especially difficult for analyses of RNA molecules of interest that are fragmented. (justia.com)

In general, a sequence-specific identifier (GenBank accession number) serves as a reference to the array probe sequence. (biomedcentral.com)

Random EST sequence database were also generated from various cDNA libraries including pepper tissue specific libraries and leaves showing non-host hypersensitive response against X. campestris pv. (ppjonline.org)

In 2018, we collected a blood sample, a pool of lung and kidney tissues, and a pool of liver and spleen tissues from each animal. (cdc.gov)

As a primary stage, thousands of cDNA clones were sequenced and EST data were analyzed. (ppjonline.org)
Ratio-based analysis is the current standard for the analysis of dual-color microarray data. (biomedcentral.com)
Because of the significant heterogeneity in tissue quality, normalization and analysis of these data presents particular challenges. (elsevierpure.com)
whether a highly skewed array will unduly influence initial normalization of the data and whether outlier arrays can be reliably identified. (elsevierpure.com)
Conclusion: Proper assessment of array quality within a research study is crucial for controlling unwanted variability in the data. (elsevierpure.com)
This article focuses on effective experimental design while the companion article focuses on methodology and data analysis. (gene-quantification.de)
Several commercial and public data-analysis tools have been developed for this purpose. (medscape.com)
Data were analyzed by cluster analysis. (iiarjournals.org)
Report and details of Affymetrix MOE430v2 GeneChip data analysis. (mindunwindart.com)
Typically when data are presented, the fluor- escent intensity from the tissue is pseudo-colored red and the intensity from the reference green, and the logarithmic ratio of background corrected red and green intensities for each gene (spot) is subject to analysis (see Fig. 1 ). (lu.se)

Mesenchymal stem cells (MSCs) are the most commonly used cells in tissue engineering and regenerative medicine. (frontiersin.org)

C. Peterson, M. Ringne´r / Artificial Intelligence in Medicine 28 (2003) 59-74 structure and function, cellular metabolism, development of cells and tissues, and response of organisms to their environments. (lu.se)

However, no sheep-specific Affymetrix GeneChip is currently available and the bovine array is fairly limited in its coverage and annotation. (cambridge.org)

These large-scale high-throughput analytical methods have been applied to the identification of differential splicing events in cancer tissues [ 8 ]. (biomedcentral.com)

The ANOVA model incorporates factors such as treatment, tissue and age to estimate the effect of interest per gene. (biomedcentral.com)

The rat HMGCS2 gene contains elements that control its multihormonal regulation and tissue specificity ( 11 - 14 ). (aacrjournals.org)

However, as cancer tissue at the early stage probably constitutes less than 1% of the normal tissue in the relevant organ, only 1% of the relevant glycoproteins in the serum should have altered glycan structures. (gene-quantification.de)

In recent years, powerful techniques for genome-wide identification and analysis of alternative splicing isoforms have been developed. (biomedcentral.com)

Anatomy5

Organisms1

Diseases10

Chemicals and Drugs14

Analytical, Diagnostic and Therapeutic Techniques and Equipment28

Phenomena and Processes34

Disciplines and Occupations1

Information Science4

Health Care4

Geographicals1

Microarrays8

Genes22

Probes10

Transcriptional3

Paraffin embedded6

Oligonucleotides1

MRNA expression4

Breast cancer tissues2

Sequences3

Fluorescently labeled1

Pathways5

Oligonucleotide microarray1

Quantitative3

Colorectal cancer4

Specimens1

Hybridization3

Immunohistochemistry1

Skeletal muscle2

Transcripts2

Protein3

FFPE1

Neoplastic1

Adipose tissue6

Expression23

Clinical3

Amplification1

Biological1

Multivariate1

Prefrontal1

Cell6

Mice2

Pathway1

GeneChips2

Samples8

Human5

Analyze1

Microarray experiments1

Molecules1

Probe sequence1

Libraries1

Lung1

Data10

Commonly1

Organisms1

Affymetrix1

Methods1

ANOVA1

Specificity1

Normal tissue1

Genome-wide1