Analysis nucleic comparative genomic hybridization. Medical search. Frequent questions

A short introduction how cytogenetics and molecular cytogenetics were established is followed by technical aspects of fluorescence in situ hybridization (FISH). (frontiersin.org)
This review is about "molecular cytogenetics" including 1) the historical perspective of its development from cytogenetics, 2) technical aspects, 3) available probe sets, and 4) variants and applications of the basic fluorescence in situ hybridization (FISH) approach. (frontiersin.org)
The complex marker chromosome, der(14)t(14;16)(q11.2;p13.13), was initially identified by routine chromosomal analysis and subsequently characterized by array-comparative genomic hybridization (array CGH) and confirmed by fluorescence in situ hybridization (FISH). (biomedcentral.com)
Empire Genomics provides microarrays and fluorescence in situ hybridization probes. (biosciregister.com)

Nucleic Acids Res. (idtdna.com)

Three specific biomolecular techniques are addressed: polymerase chain reaction, microarray comparative genomic hybridization, and whole-genome sequencing. (umd.edu)
Whole-genome sequencing (WGS) can lead to whole-genome analysis (WGA), in which the meaning of the raw data obtained during sequencing is fleshed out. (nature.com)
Whole-genome screening creates a personal genomic database (personal genome) that can subsequently be used to deliver 'personalised medicine' to individual patients. (nature.com)
GenomePlex ® Whole Genome Amplification (WGA) provides a means to decrease the amount of required DNA for aCGH, which could expand the application of the technology to analysis of nanogram quantities of DNA, or even single cells. (sigmaaldrich.com)

In Situ Hybridization" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus, MeSH (Medical Subject Headings) . (uams.edu)
This graph shows the total number of publications written about "In Situ Hybridization" by people in UAMS Profiles by year, and whether "In Situ Hybridization" was a major or minor topic of these publications. (uams.edu)
Below are the most recent publications written about "In Situ Hybridization" by people in Profiles over the past ten years. (uams.edu)
Whole mount in situ hybridization methodology for Schistosoma mansoni. (rush.edu)
A type of IN SITU HYBRIDIZATION in which target sequences are stained with fluorescent dye so their location and size can be determined using fluorescence microscopy. (wakehealth.edu)
Genetic analysis included karyotyping, X inactivation studies, fluorescent in situ hybridization, microsatellite marker genotyping, and array comparative genomic hybridization. (biomedcentral.com)

Comparative genomic hybridization (CGH) has been developed to elucidate genome-wide sequence copy number variation (CNV) between different genomes, such as the differential amplification or deletion of genetic regions between tumor DNA and normal DNA from neighboring unaffected tissue [ 7-10 ]. (idtdna.com)
Array comparative genomic hybridization, with a genome-wide resolution of approximately 1 Mb, has been used to investigate copy number changes in 48 colorectal cancer (CRC) cell lines and 37 primary CRCs. (ox.ac.uk)
Ploidy and MYCN amplification have been used as genetic markers for risk stratification and therapeutic decision making, and, more recently, gene expression profiling and genome-wide DNA copy number analysis have come into the picture as sensitive and specific tools for assessing prognosis. (biomedcentral.com)
genome-wide analysis of copy number variants (CNVs) in 2,824 cases and 21,498 controls. (123dok.org)

High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays. (idtdna.com)

The samples were divided for analysis according to the type of genomic instability that they exhibit, microsatellite instability (MSI) or chromosomal instability (CIN). (ox.ac.uk)
In recent years, array-based Comparative Genomic Hybridization (aCGH) has been refined to determine chromosomal changes at progressively higher resolutions 1 . (sigmaaldrich.com)

Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors. (idtdna.com)

The Integrated Archive of Short-Read and Array (TIARA) database contains personal genomic information obtained from next generation sequencing techniques and ultra-high-resolution comparative genomic hybridization. (wikipedia.org)

These validated assemblies provide the ultimate nucleic acid diagnostic, revealing the entire sequence of a genome. (umd.edu)
The Gentra products are very complimentary to QIAGEN s product and technology portfolio providing additional solutions to enable large-scale research in biomedical, genomic and molecular diagnostic laboratories. (webwire.com)
Scholars@Duke publication: Comparative genetic patterns of glioblastoma multiforme: potential diagnostic tool for tumor classification. (duke.edu)

For generating a comparable rhesus macaque CNV dataset, we designed a rhesus macaque-specific array comparative genomic hybridization (aCGH) platform containing 950,843 unique 60-mer oligonucleotide probes. (biomedcentral.com)
The experiment described here was designed to demonstrate that GenomePlex WGA can be used to generate high-quality aCGH data across a range of genomic DNA inputs (1-100 ng). (sigmaaldrich.com)

This dissertation focuses on computational methods for improving the accuracy of commonly used nucleic acid tests for pathogen detection and diagnostics. (umd.edu)
Gentra is a privately held leading developer, manufacturer and supplier of non-solid phase nucleic acid purification products, providing both consumables and automated platforms. (webwire.com)
Gentra is focused on the niche market of nucleic acid purification from large scale blood samples up to 10 ml. (webwire.com)
In addition, Gentra has developed the Purescript , VersageneTM and Generation line of nucleic acid purification consumables. (webwire.com)
Gentra is a well established leader in nucleic acid purification consumables and automation for important niche markets such as biobanking and DNA archiving, where larger sample volumes and long term stability are important for customers, said Peer M. Schatz, QIAGEN s Chief Executive Officer. (webwire.com)
Gentra s portfolio of consumables and instruments for nucleic acid purification, as well as its strong reputation in an increasingly important market niche are a perfect fit for QIAGEN, he continued. (webwire.com)
A technique that localizes specific nucleic acid sequences within intact chromosomes, eukaryotic cells, or bacterial cells through the use of specific nucleic acid-labeled probes. (uams.edu)
Both technologies use hybridization of labeled nucleic acid transcripts to measure the gene expression. (medscape.com)

In the present article, a review and new processed data have allowed to obtain a high-density BAC-based cytogenetic map of beside the analysis of the sequences of such BAC clones to achieve integrative data. (metasystems-international.com)
Comparative genomic hybridization (CGH) is a powerful technique capable of identifying both gains and losses of DNA sequences. (duke.edu)
Hybridization can take place between two complimentary DNA sequences, between a single-stranded DNA and a complementary RNA, or between two RNA sequences. (bvsalud.org)

Following this, the differentially expressed genes (DEGs) were included in Gene Ontology enrichment, and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, protein‑protein interaction network and survival analyses. (cancerindex.org)
Different variants of FISH can be used to retrieve information on genomes from (almost) base pair to whole genomic level, as besides only second and third generation sequencing approaches can do. (frontiersin.org)

Scanning and image analysis were conducted according to Agilent's Oligonucleotide Array-based CGH for Genomic DNA analysis Protocol (version 4.0). (sigmaaldrich.com)
The frequencies of CNVs in these populations were analyzed by oligonucleotide array comparative genome hybridization, quantitative PCR, PCR, DNA sequencing across breakpoints, and single-worm PCR. (biomedcentral.com)

Introduction Recently, genomic research in livestock is focused on genomic variation and its effect on phenotypic performance in economic traits. (ac.ir)
Copy number variants (CNVs), defined as losses and gains of segments of genomic DNA, are a major source of genomic variation. (biomedcentral.com)
These effects were most pronounced in experiments with large biological variation and complex hybridization designs. (biomedcentral.com)
Many bacteria display substantial intra-specific genomic diversity that produces significant phenotypic variation between strains of the same species. (inra.fr)

Expression profiles analysis identifies the values of carcinogenesis and the prognostic prediction of three genes in adrenocortical carcinoma. (cancerindex.org)

Survival analysis was performed using each gene in the clinical transcriptomic data, and gene set enrichment analysis was used to determine pathways related to model performance in predicting survival and recurrence. (bvsalud.org)
Furthermore, we compared performance of both ratio- and intensity-based analyses in terms of reproducibility and sensitivity for differential gene expression. (biomedcentral.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)
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)
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)
Although array CGH has provided a higher resolution compared to conventional CGH, it has not yet become a widely applied method for the analysis of gene dose alterations in individuals with idiopathic mental retardation. (bmj.com)
The present study compares the CGH evaluation of 22 GBM with classic cytogenetics, loss of heterozygosity by allelotyping, and gene amplification by Southern blot analysis to determine the reliability of CGH in the genetic characterization of GBM. (duke.edu)
Genomic amplifications were observed by CGH in 5 of the 10 cases where gene amplification was detected by Southern blot analysis. (duke.edu)
Gene and genome duplications are the primary source of new genes and have played a pivotal role in the evolution of genomic and organismal complexity [ 1 - 4 ]. (biomedcentral.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)

This staining is sufficiently distinct that the hybridization signal can be seen both in metaphase spreads and in interphase nuclei. (wakehealth.edu)

To identify CNVs, we required a minimum of five consecutive probes with log 2 ratios significantly deviating from 0 (Figure S1 in Additional file 2 ), and conducted extensive supporting analyses (Supporting methods in Additional file 3 and Figure S2 in Additional file 2 ). (biomedcentral.com)
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)

DNA purified with from such large scale blood samples with Gentra products is well suited for applications such as QIAGEN s PCR-based genotyping, molecular testing products or comparative genomic hybridization (CGH). (webwire.com)
Amid the COVID-19 crisis, the global market for Molecular Cytogenetics estimated at US$1.6 Billion in the year 2020, is projected to reach a revised size of US$2.5 Billion by 2026, growing at a CAGR of 7.7% over the analysis period. (fintechnews.org)
Standard chromosome analysis by G-banding has a limited resolution, but molecular cytogenetic techniques, such as multi-subtelomeric FISH, microdeletion FISH, multicolour FISH and comparative genomic hybridisation (CGH), have played an important role for the diagnosis of MR during the past decade. (bmj.com)

These methods are potentially the future of diagnostics, but each requires sophisticated computational design or analysis to operate effectively. (umd.edu)
For microarray, novel pan-genomic design and analysis methods are presented for the characterization of unknown microbial isolates. (umd.edu)
To demonstrate the effectiveness of these methods, pan-genomic arrays are applied to the study of multiple strains of the foodborne pathogen, Listeria monocytogenes, revealing new insights into the diversity and evolution of the species. (umd.edu)

We identified eight new regions of genomic plasticity and a plasmid pCR1 with a VirB/D4 complex followed by trimeric auto-transporter that can induce virulence phenotype in the genome of strain CR1. (frontiersin.org)

Routine chromosome analysis (450-500 bands) had failed to detect the rearrangements in all cases. (bmj.com)
Despite the large chromosome fragments involved in the unbalanced translocation in this case, repeated standard G-band analysis could not reveal this rearrangement due to the similarity in the banding pattern of the chromosome fragments involved. (bmj.com)
Comparative genomic hybridisation (CGH) was used to screen 76 vestibular schwannomas from 76 patients (66 sporadic and 10 NF2 related) to identify other chromosome regions that may harbour genes involved in the tumorigenesis. (bmj.com)

Array comparative genomic hybridization analysis of colorectal cancer cell lines and primary carcinomas. (ox.ac.uk)
An integrated bioinformatics analysis based on the array data from the GEO database was conducted to view the differential expression of CMTM4 across multiple cancers and their corresponding control tissues. (biomedcentral.com)
Limiting amounts of starting template can inhibit array CGH analyses of certain precious samples such as laser capture microdissected cells or needle biopsies. (sigmaaldrich.com)

Transcriptomic and behavioural analyses were performed. (bvsalud.org)

To ensure a homogeneous dataset in which to compare tumor behavior, analyses were restricted to tumors of the serous histological subtype and four normal whole ovary specimens collected from women having surgery for other benign gynecological conditions. (biomedcentral.com)
Forty-two tumors (7 benign cystadenomas/cystadenofibromas, 7 LMP and 28 invasive (moderate and poorly differentiated or G2 and G3) tumors) and four normal ovarian samples were initially selected for analysis (Table 1 , see Additional file 1 for detailed information on tissues analyzed by microarray analysis). (biomedcentral.com)

In the specimens selected for CGH analysis, the proportion of tumor cells were estimated after hematoxylin-eosin staining of tissue sections preceding to DNA extraction. (biomedcentral.com)
For some of the genomic regions that are deleted in some neuroblastomas, on 1p, 3p and 11q, candidate tumor suppressor genes have been identified. (biomedcentral.com)

The genomic DNA was extracted using the same genomic DNA isolation kit as described above and used in MilliporeSigma's samples. (sigmaaldrich.com)

The neurocognitive phenotype was measured as a quantitative trait, the Turner Syndrome Cognitive Summary (TSCS) score, derived from discriminant function analysis. (biomedcentral.com)

sig-nificant burden of rare exonic (that is, affecting coding regions) CNVs and were enriched for known genomic disorders (GD). (123dok.org)

Increasing data, based on progeny analysis, suggest the existence of a link between the perception of biotic stress and the production of genetic diversity in the offspring. (metasystems-international.com)
Filters may be used to selectively examine certain parts of the genome (targeted analysis), for example when diagnosing diseases with a known genetic substrate. (nature.com)
WGA (complete sequence analysis) is also expected to play a role in healthcare, specifically in the diagnosis of diseases for which the genetic background is not yet (or insufficiently) clear. (nature.com)
What about the analysis findings (genetic information): should all unsought for findings also be saved? (nature.com)

Genomic information for outlier strains of Pseudomonas aeruginosa is exiguous when compared with classical strains. (frontiersin.org)
It clustered with the outlier group, hence we scaled up the analyses to understand the differences in environmental and clinical outlier strains. (frontiersin.org)
Virulence genotype analysis revealed that strain CR1 lacked hemolytic phospholipase C and D, three genes for LPS biosynthesis and had reduced antibiotic resistance genes when compared with clinical strains. (frontiersin.org)

Unlocking clinically translatable genomic information, including copy number alterations (CNA), from formalin-fixed paraffin-embedded (FFPE) tissue is challenging due to low yields and degraded DNA. (biomedcentral.com)

This feature may enable CGH analysis of formalin-fixed, paraffin-embedded (FFPE) samples that were previously thought to be unusable due to their high level of DNA degradation. (sigmaaldrich.com)

According to comparative genomic hybridization (CGH) data published in the literature, the simple and complex karyotypes show a correlation between the prognosis and clinical outcome. (biomedcentral.com)

For this reason, we performed a fine-tuned interpretation of our DNA ploidy results and compared these to high-resolution comparative genomic hybridization (HR-CGH) outcome, by using the same samples. (biomedcentral.com)
The outcome of comparative microarray experiments is a ranked list of significant genes, possibly involved in the process under investigation. (biomedcentral.com)

BioDiscovery Inc. offers products for microarray data analysis and microarray analysis software. (biosciregister.com)
These genomic regions appear to have an elevated likelihood of positive selection, based on nucleotide level conservation and transcriptional data. (biomedcentral.com)
Here, we show, based on genomic, morphometric, ecophysiological and mating compatibility data, an example of ecotypic differentiation and speciation within an endemic pelagic inhabitant, the diatom Fragilariopsis kerguelensis. (metasystems-international.com)
Ratio-based analysis is the current standard for the analysis of dual-color microarray data. (biomedcentral.com)
By omic data analysis, we found a substantial downregulation of CMTM4 in ccRCC. (biomedcentral.com)
Analysis of Large and Complex Data. (uni-ulm.de)
Agilent's Feature Extraction software (v9.1.3) was used to extract data from raw microarray image files in preparation for analysis. (sigmaaldrich.com)
Because of the complexity of the data sets generated by microarray experiments, the use of data-analysis software is essential. (medscape.com)
Several commercial and public data-analysis tools have been developed for this purpose. (medscape.com)

Consumables, one of the segments analyzed in the report, is projected to record a 7.8% CAGR and reach US$1.6 Billion by the end of the analysis period. (fintechnews.org)

He thanked the regional and global specialized laboratories for their efforts to provide timely results of the genomic sequencing of wild polioviruses, and for their help in planning and monitoring polio eradication activities in the Region. (who.int)

We sequenced and constructed the complete genome of an environmental strain CR1 of P. aeruginosa and performed the comparative genomic analysis. (frontiersin.org)
The average nucleotide identity and digital DNA-DNA hybridization values between strain 1KV19 T and related species of the genus Lutibacter were 76.4-79.1 and 19.9-22.3 %, respectively. (microbiologyresearch.org)

Our human Accuarray™ provides a high resolution platform for CGH-based analysis of the entire human genome. (biosciregister.com)

Variants were frequently familial, and genotype-phenotype analyses demonstrated striking interfamilial and intrafamilial variability. (springer.com)

Nucleic acids research, 34 (8). (lincoln.ac.uk)

These hotspots of primate CNV formation provide a novel perspective on divergence and selective pressures acting on these genomic regions. (biomedcentral.com)

Anatomy34

Organisms2

Diseases75

Chemicals and Drugs18

Analytical, Diagnostic and Therapeutic Techniques and Equipment46

Psychiatry and Psychology4

Phenomena and Processes115

Disciplines and Occupations4

Anthropology, Education, Sociology and Social Phenomena1

Information Science10

Named Groups1

Health Care6

Fluorescence in situ hybr4

Acids Res1

Whole-genome4

Situ Hybridization6

Genome-wide4

Microarrays1

Chromosomal2

Cytogenetic analysis1

Personal genomic1

Diagnostic3

ACGH2

Acid8

Sequences3

Genomes2

Oligonucleotide2

Variation4

Carcinogenesis1

Gene10

Metaphase1

Probes2

Molecular3

Methods3

Plasmid1

Chromosome3

Array3

Transcriptomic1

Tumors2

Tumor2

Isolation1

Quantitative1

CNVs1

Genetic4

Strains3

Alterations1

Formalin-fixed1

Clinical1

Outcome2

Data9

Segments1

Results1

Strain2

Human genome1

Variants1

Research1

Regions1