AnatomyOrganismsDiseasesChemicals and DrugsAnalytical, Diagnostic and Therapeutic Techniques and EquipmentPhenomena and ProcessesDisciplines and OccupationsTechnology, Industry, AgricultureInformation ScienceHealth Care
Oligonucleotide Array Sequence AnalysisOligonucleotide ProbesGene Expression ProfilingSequence Analysis, DNAOligonucleotidesBase SequenceMolecular Sequence DataNucleic Acid HybridizationDNA ProbesComparative Genomic HybridizationPolymerase Chain ReactionAmino Acid SequenceReproducibility of ResultsDNA, Ribosomal SpacerGene DosageRNA, MessengerReverse Transcriptase Polymerase Chain ReactionSensitivity and SpecificityCluster AnalysisDNAAlgorithmsDNA, BacterialCloning, MolecularOligonucleotides, AntisenseGenome, HumanSequence AnalysisRNATranscription, GeneticGene Expression RegulationDNA PrimersPhylogenyChromosome MappingSpecies SpecificityGene ExpressionChromosomes, Artificial, BacterialIn Situ Hybridization, FluorescenceRNA, ComplementaryRNA, Ribosomal, 16SGlassSequence Homology, Nucleic AcidMicroarray AnalysisFixativesGene Expression Regulation, NeoplasticDNA, ComplementaryOligodeoxyribonucleotidesExonsMutationGenetic VariationModels, GeneticDNA Copy Number VariationsPolymorphism, Single NucleotideSoftwareDNA, RibosomalMultigene FamilyComputational BiologyGenomicsGenotypeNucleic Acid Amplification TechniquesExpressed Sequence TagsTranscription FactorsModels, StatisticalData Interpretation, StatisticalSequence Homology, Amino AcidRNA, NeoplasmGenes, NeoplasmChromosome AberrationsGenes, BacterialSequence AlignmentAllelesDNA-Binding ProteinsBlotting, NorthernReference StandardsRestriction MappingCell LineDNA Mutational AnalysisGene DeletionPhenotypePromoter Regions, GeneticGenomeOligoribonucleotidesDatabases, GeneticQuality ControlUp-RegulationEscherichia coliBase CompositionGenome, PlantGene DuplicationNucleic Acid ConformationCell Line, TumorTumor Cells, CulturedBacterial ProteinsRNA, BacterialPolymorphism, GeneticPlasmidsComputer SimulationProteinsDNA, NeoplasmPhosphorothioate OligonucleotidesOpen Reading FramesOligodeoxyribonucleotides, Antisense
GenesGenomeExomeProteinTranscriptomeComplementaryGenotypeGeneticsTumorFunctionalCandidateProbabilityDiagnosisVariant analysisHumanDataResultsFamilySpecificMicroarraysCDNA arraysMethylationProteinsMultiplexAffymetrixAmino AcidPolymerase Chain ReNucleotide sequenceProteinNucleic acidsProbesDepositionFluorescentGene expressionMethodsBeadCancerHybridizationHighTargetsTargetDirectlyShortChipGlassLaboratorySurfaceIncreasinglyMeansTerms
Genes4
  • We observed peaks in the density of ACSs at the transcriptional start sites of known genes at non-gene-associated CpG islands, and, to a lesser degree, at evolutionarily conserved noncoding sequences. (uea.ac.uk)
  • This gene shares high sequence identity with three other gene members and is clustered with those three genes at chromosome 10p15-p14. (cancer-genetics.org)
  • PCR-amplified mycobacterial genes are sequence-specifically captured on microspheres, labeled by magnetic nanoprobes, and detected by nuclear magnetic resonance. (cdc.gov)
  • The method is based on a magnetic barcoding strategy: PCR-amplified target MTB genes are captured and magnetically labeled by a pair of complementary oligonucleotides conjugated to microspheres and magnetic nanoprobes. (cdc.gov)
Genome7
  • Comprehensive identification of sequences that regulate transcription is one of the major goals of genome biology. (uea.ac.uk)
  • We developed an approach for genome-scale identification of DNaseI hypersensitive sites (HSs) via isolation and cloning of in vivo DNaseI cleavage sites to create libraries of active chromatin sequences (ACSs). (uea.ac.uk)
  • The results permit a quantitative approximation of the distribution of HSs and classical cis-regulatory sequences in the human genome. (uea.ac.uk)
  • To further characterize pathways involved in naphthalene degradation in NaphS2, the draft genome was sequenced, and gene and protein expression examined. (elsevierpure.com)
  • RESULTS: Draft genome sequencing, gene expression analysis, and proteomic analysis revealed that NaphS2 degrades naphthoyl-CoA in a manner analogous to benzoyl-CoA degradation. (elsevierpure.com)
  • The genome sequence also suggests that NaphS2 may degrade other monoaromatic compounds. (elsevierpure.com)
  • The variety of instrumentation allows for capabilities ranging from highly focused analysis of candidate SNPs and mRNAs to whole genome, exome, epigenome and transcriptome sequencing. (psu.edu)
Exome1
  • Standardized phenotypic data were collected, and exome sequencing and microarray analyses were performed to investigate novel genetic causes. (dspace-express.com)
Protein1
  • The development of sequencing techniques in 1977 by Gilbert and Sanger (working separately) enabled researchers to directly read the genetic codes that provide instructions for protein synthesis. (wikipedia.org)
Transcriptome1
  • Transcriptome analysis of peach (Prunus persica L. Batsch) during the late stage of fruit ripening. (geneticsmr.com)
Complementary1
  • This research showed how hybridization of complementary single oligonucleotide strands could be used as a basis for DNA sensing. (wikipedia.org)
Genotype1
  • Integrative analysis of sequencing and array genotype data for discovering disease associations with rare mutations. (unc.edu)
Genetics1
  • METHODS: We conducted a large-scale sequencing study involving more than 13,500 families with probands with severe, probably monogenic, difficult-to-diagnose developmental disorders from 24 regional genetics services in the United Kingdom and Ireland. (dspace-express.com)
Tumor1
  • Combined analyses including FISH, coding sequence analysis, high-density single nucleotide polymorphism-based oligonucleotide arrays, and multiplex ligation-dependent probe amplification enable the identification of biallelic, inactivating perturbations of SMARCB1 in nearly all MRTs, consistent with the 2-hit model of tumor formation. (medscape.com)
Functional3
  • mRNA from the specimens was profiled using Agilent's Functional ID v2.0 array (Agilent, Santa Clara, CA) containing 23,720 sequences. (nih.gov)
  • In a digital microfluidic biochip, a group of (adjacent) cells in the microfluidic array can be configured to work as storage, functional operations, as well as for transporting fluid droplets dynamically. (wikipedia.org)
  • We conduct sequence read alignment, secondary analysis (quantitation, variant calling, functional annotation, visualization, etc) and follow-up with the interpretation of the results. (psu.edu)
Candidate1
  • We developed an iterative variant analysis pipeline and reported candidate variants to clinical teams for validation and diagnostic interpretation to inform communication with families. (dspace-express.com)
Probability1
  • Multiple regression analyses were performed to evaluate factors affecting the probability of diagnosis. (dspace-express.com)
Diagnosis1
  • CONCLUSIONS: Among probands with severe, probably monogenic, difficult-to-diagnose developmental disorders, multimodal analysis of genomewide data had good diagnostic power, even after previous attempts at diagnosis. (dspace-express.com)
Variant analysis1
  • On the substructure controls in rare variant analysis: Principal components or variance components? (unc.edu)
Human1
  • Transduction must be done to translate the actual sensing event (DNA binding, oxidation/reduction, etc.) into a format understandable by a computer (voltage, light intensity, mass, etc.), which then enables additional analysis and processing to produce a final, human-readable output. (wikipedia.org)
Data1
  • The analysis of NHANES laboratory data must be conducted using the key survey design variables and basic demographic variables. (cdc.gov)
Results1
Family2
  • Exhibiting high consistence in sequence and structure, S100 family members are interchangeable in function and they show a wide spectrum of biological processes, including proliferation, apoptosis, migration, inflammation and differentiation and the like. (cancerindex.org)
  • Family of retrovirus-associated DNA sequences (myc) originally isolated from an avian myelocytomatosis virus. (edu.au)
Specific2
  • Exons 2 and 3 of the HLA-B locus were amplified with locus specific primers and the amplified DNA was arrayed onto seven replicate nylon membranes and immobilized by UV cross-linking. (cdc.gov)
  • The cross-linked sample DNA was hybridized with sequence-specific oligonucleotide probes to identify HLA-B27 allele sequences. (cdc.gov)
Microarrays12
  • Direct syntheses (in situ) of oligonucleotides on the chip surface following conventional or photolithographic methods and immobilization of presynthesized oligonucleotides on selected substrates (the deposition method) are two predominant methods for fabrication of oligonucleotide microarrays (6)(7) (8) (9)(10)(11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21). (researchgate.net)
  • The in situ synthesis protocol, which allows the preparation of high-density oligonucleotide microarrays, suffers from certain drawbacks (6)(7)(8)17). (researchgate.net)
  • The core principle behind microarrays is hybridization between two DNA strands, the property of complementary nucleic acid sequences to specifically pair with each other by forming hydrogen bonds between complementary nucleotide base pairs. (wikipedia.org)
  • Microarrays can be fabricated using a variety of technologies, including printing with fine-pointed pins onto glass slides, photolithography using pre-made masks, photolithography using dynamic micromirror devices, ink-jet printing, or electrochemistry on microelectrode arrays. (wikipedia.org)
  • In spotted microarrays, the probes are oligonucleotides, cDNA or small fragments of PCR products that correspond to mRNAs. (wikipedia.org)
  • Relative to conventional two- dimensional microarrays , the bead arrays have larger surface- to- volume ratios, providing faster hybridization kinetics, and they also offer much more flexibility and scalability in assay design. (genomicglossaries.com)
  • Small scale specialty or 'boutique' array, where large proportions of the genes on the microarrays are expected to be highly differentially expressed. (genomicglossaries.com)
  • spotted cDNA microarrays , spotted oligonucleotide microarrays , and Affymetrix GeneChips , which are sufficiently unique to warrant their own grouping. (genomicglossaries.com)
  • The general categories we describe are macroarrays, microarrays , high- density oligonucleotide array s (e.g. (genomicglossaries.com)
  • As the clinical laboratory evolves to ward increased automation and the genomics era provides abundant nucleic acid target sequences, DNA chips and microarrays will become important research and diagnostic tools during the next decade. (houstonmethodist.org)
  • Increasingly, this question is being addressed through the simultaneous analysis of hundreds to thousands of unique genetic elements with microarrays. (biomedcentral.com)
  • Presently, two technologies dominate the field of high-density microarrays: cDNA arrays and oligonucleotide arrays. (biomedcentral.com)
CDNA arrays1
  • cDNA arrays A microscopic, ordered array of nucleic acids, proteins, small molecules , cells or other substances that enables parallel analysis of complex biochemical samples. (genomicglossaries.com)
Methylation1
  • However, many challenges of the technology remain -- quality control, expression arrays and pharmacokinetics will be addressed as well as new developments in the field, such as microRNA arrays and DNA methylation. (genomicglossaries.com)
Proteins2
  • Amino acid sequences found in transported proteins that selectively guide the distribution of the proteins to specific cellular compartments. (lookformedical.com)
  • Recombinant proteins produced by the GENETIC TRANSLATION of fused genes formed by the combination of NUCLEIC ACID REGULATORY SEQUENCES of one or more genes with the protein coding sequences of one or more genes. (lookformedical.com)
Multiplex1
  • Combined analyses including FISH, coding sequence analysis, high-density single nucleotide polymorphism-based oligonucleotide arrays, and multiplex ligation-dependent probe amplification enable the identification of biallelic, inactivating perturbations of SMARCB1 in nearly all MRTs, consistent with the 2-hit model of tumor formation. (medscape.com)
Affymetrix1
Amino Acid1
  • Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories. (lookformedical.com)
Polymerase Chain Re1
Nucleotide sequence2
  • A high number of complementary base pairs in a nucleotide sequence means tighter non-covalent bonding between the two strands. (wikipedia.org)
  • It is also called nucleotide sequence. (lookformedical.com)
Protein2
  • Scholars@Duke publication: Regulation of the germinal center gene program by interferon (IFN) regulatory factor 8/IFN consensus sequence-binding protein. (duke.edu)
  • RNA sequences that serve as templates for protein synthesis. (lookformedical.com)
Nucleic acids1
  • The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. (lookformedical.com)
Probes7
  • Each DNA spot contains picomoles (10−12 moles) of a specific DNA sequence, known as probes (or reporters or oligos). (wikipedia.org)
  • Many types of arrays exist and the broadest distinction is whether they are spatially arranged on a surface or on coded beads: The traditional solid-phase array is a collection of orderly microscopic "spots", called features, each with thousands of identical and specific probes attached to a solid surface, such as glass, plastic or silicon biochip (commonly known as a genome chip, DNA chip or gene array). (wikipedia.org)
  • Arrays from commercial vendors may have as few as 10 probes or as many as 5 million or more micrometre-scale probes. (wikipedia.org)
  • The probes are synthesized prior to deposition on the array surface and are then "spotted" onto glass. (wikipedia.org)
  • A common approach utilizes an array of fine pins or needles controlled by a robotic arm that is dipped into wells containing DNA probes and then depositing each probe at designated locations on the array surface. (wikipedia.org)
  • These arrays may be easily customized for each experiment, because researchers can choose the probes and printing locations on the arrays, synthesize the probes in their own lab (or collaborating facility), and spot the arrays. (wikipedia.org)
  • These arrays can contain hundreds of thousands to millions of individual probes , making them perhaps the most promising technology for the vast number of tests that will be needed for applications such as drug discovery and for diagnosis and treatment of patients. (genomicglossaries.com)
Deposition1
  • The deposition method, on the other hand, offers flexibility, in the sense that a variety of biomolecules can be immobilized on a surface of choice but is limited to generation of low-to-medium-density arrays. (researchgate.net)
Fluorescent2
  • The alternative bead array is a collection of microscopic polystyrene beads, each with a specific probe and a ratio of two or more dyes, which do not interfere with the fluorescent dyes used on the target sequence. (wikipedia.org)
  • These arrays are made up of small beads containing capture oligonucleotides encoded with fluorescent dye combinations or through some equivalent means. (genomicglossaries.com)
Gene expression1
Methods2
  • The biomedical community is developing new methods of data analysis to more efficiently process the massive data sets produced by microarray experiments. (biomedcentral.com)
  • MATERIAL AND METHODS: Whole-exome sequencing (WES) data from 324 oral cancer patients were obtained from The Cancer Genome Atlas. (bvsalud.org)
Bead1
Cancer1
  • An example of its application is in SNPs arrays for polymorphisms in cardiovascular diseases, cancer, pathogens and GWAS analysis. (wikipedia.org)
Hybridization2
  • Probe-target hybridization is usually detected and quantified by detection of fluorophore-, silver-, or chemiluminescence-labeled targets to determine relative abundance of nucleic acid sequences in the target. (wikipedia.org)
  • Fluorescently labeled target sequences that bind to a probe sequence generate a signal that depends on the hybridization conditions (such as temperature), and washing after hybridization. (wikipedia.org)
High1
  • Here, we demonstrate a protocol that employs coating of SU-8 (glycidyl ether of bisphenol A) onto glass microslides to obtain high density of epoxy functions for efficient immobilization of aminoalkyl-, thiophosphoryl-, and phosphorylated oligonucleotides with uniform spot morphology. (researchgate.net)
Targets1
  • Microarray technology has become an important tool for detection and analysis of nucleic acid targets. (researchgate.net)
Target2
  • Current DNA array formats can be categorized into various groups based on the type of matrix, the probe number and/or density , the physical size of the array, and the type of target labeling. (genomicglossaries.com)
  • Finally, SNVs and INDELs were identified by target enrichment sequencing. (bvsalud.org)
Directly1
Short2
  • Short synthetic oligonucleotides are finding wide variety of applications in area of genomics and medicinal chemistry. (researchgate.net)
  • Recently developed microarray technology, which refers to attachment of short oligonucleotides on a solid/polymeric surface, has proved to be useful for screening of genetic mutations, study of polymorphism, as diagnostics, etc. (researchgate.net)
Chip1
  • Although DNA chip platforms are not currently used for routine clinical testing nor FDA approved for specific applications, the emerging importance of arrays in basic and clinical microbiology is apparent. (houstonmethodist.org)
Glass1
Laboratory1
  • In the spotted- array categories, we include both traditional arrays produced using contact printing in the style of Pat Brown (Stanford University), and ones produced using the newer ink- jet technology pioneered in the laboratory of Lee Hood of the University of Washington and developed to commercial fruition by Rosetta Inpharmatics and Agilent Technologies. (genomicglossaries.com)
Surface1
Increasingly1
  • Applications include: Specialised arrays tailored to particular crops are becoming increasingly popular in molecular breeding applications. (wikipedia.org)
Means1
  • MRT is definitively diagnosed by means of histologic analysis. (medscape.com)
Terms1