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GenomicsChromosome MappingSequence Analysis, DNAMolecular Sequence DataBase SequenceGenomeGenome, HumanComparative Genomic HybridizationQuantitative Trait LociPhylogenyGenomic InstabilityGenetic VariationPolymorphism, Single NucleotideEvolution, MolecularGenomic LibraryGenetic MarkersModels, GeneticGenome, BacterialGenomic IslandsChromosomes, Artificial, BacterialGenetic LinkageGenome, PlantPennisetumGenotypeSyntenyCloning, MolecularPhenotypeGenome, ViralGenome-Wide Association StudyLinkage DisequilibriumAmino Acid SequenceDNAMultigene FamilyRecombination, GeneticGenetic LociPolymerase Chain ReactionHaplotypesAllelesSequence AlignmentGene DosageOligonucleotide Array Sequence AnalysisGene DuplicationSequence Homology, Nucleic AcidSelection, GeneticMutationPhysical Chromosome MappingExonsSpecies SpecificityNucleic Acid HybridizationMicrosatellite RepeatsSoftwareChromosomes, PlantOpen Reading FramesConserved SequenceGenomic ImprintingCenchrusComputational BiologyGenome, InsectGene Expression ProfilingIntronsDNA Transposable ElementsDNA Copy Number VariationsDatabases, GeneticGenetics, PopulationTranscription, GeneticPolymorphism, GeneticContig MappingIn Situ Hybridization, FluorescenceGene OrderRestriction MappingAlgorithmsCrosses, GeneticDNA PrimersChromosomes, MammalianPromoter Regions, GeneticChromosomes, HumanGenetic Predisposition to DiseaseHigh-Throughput Nucleotide SequencingGenotyping TechniquesSegmental Duplications, GenomicRepetitive Sequences, Nucleic AcidBlotting, SouthernDNA, PlantDNA, IntergenicCluster AnalysisDNA, BacterialBase CompositionDNA MethylationChromatin ImmunoprecipitationGene LibraryExpressed Sequence TagsGene DeletionSequence Homology, Amino AcidGene FrequencyChromosome AberrationsDrosophila melanogasterGenes, PlantCpG IslandsGenome, FungalPseudogenes
Imprinted genesLociFragmentsGenomesNucleotide sequenceSequenceSequencesPlasmidWhole-genomeStrainDatasetsProbesComparativePromoterGene expressionChromosomePhenomenonNucleaseSNPsDifferentially methylatedProteinAdvancesGeneticHumanStudiesPromotersComplexMeansBasisFeatureLevelsPotentialDataDistributionTargetTypeStudyActiveFound
Imprinted genes1
  • Despite the global nature of this process, there are certain sequences that avoid it, such as differentially methylated regions (DMRS) associated with imprinted genes, retrotransposons and centromeric heterochromatin. (wikipedia.org)
Loci4
  • Based on a previous GWAS study, 14 DA associated loci and flanking regions were selected for NGS (6,996,180 base pairs). (cdc.gov)
  • The Streptococcus pyogenes Cas9 (SpCas9) nuclease can be efficiently targeted to genomic loci by means of singleguide RNAs (sgRNAs) to enable genome editing 1 - 10 . (cdc.gov)
  • 100 predicted genomic off-target loci in 293T and 293FT cells. (cdc.gov)
  • Following crRNA and tracrRNA hybridization, SpCas9 is targeted to genomic loci matching a 20-nt guide sequence within the crRNA, immediately upstream of a required 5′-NGG protospacer adjacent motif (PAM) 11 . (cdc.gov)
Fragments5
  • 72% GC rich) was achieved by capturing long genomic DNA (gDNA) fragments and reading into regions that flank the capture regions. (pacb.com)
  • A complex system of genomic encryption was discovered that enable the decoding of these 225,000 plus fragments. (icr.org)
  • This process uses specialized pointer sequences that flank the macronucleus-designated fragments as a type of encryption and addressing system. (icr.org)
  • MicroSyn searches for conserved, flanking colinear homologous gene pairs between two genomic fragments to determine the relationship between two members in a gene family. (biomedcentral.com)
  • Direct evidence for the presence of these viruses in human genital tumours is the finding that a small proportion (about 10%) retain fragments of virus DNA from different regions of the virus genomes. (microbiologyresearch.org)
Genomes1
  • Due to the phenomenon of genomic imprinting, maternal and paternal genomes are differentially marked and must be properly reprogrammed every time they pass through the germline. (wikipedia.org)
Nucleotide sequence1
  • The nucleotide sequence of the gene and its flanking regions was determined and analyzed. (caltech.edu)
Sequence4
  • The inserted sequence M27PP1 is identical to a prophage-like genomic island in E. coli PCN033 chromosome (GenBank accession no. (cdc.gov)
  • It requires knowledge of only a short sequence within or flanking the target region for efficient target selection. (genomeweb.com)
  • A DNA fragment containing 101 base pairs of the 5′-flanking sequence showed strong promoter activity in the macrophage cell line RAW264 but was inactive in the non-monocytic cell lines HUT-78 and NIH-3T3. (uni-frankfurt.de)
  • Site-directed mutagenesis of the proximal promoter region showed that two GC-rich sequence elements are essential for transcriptional activity in myeloid cells. (uni-frankfurt.de)
Sequences3
  • These noncoding regions contain a wealth of regulatory sequences and non-coding RNAs whose role in cancer has been neglected until now 3 . (nature.com)
  • Because even the protein-coding regions of genes (called exons) are also fragmented, the authors state 'Most IESs [internal eliminated sequences] interrupt exons (84.7%), making their removal a strict requirement for gene expression. (icr.org)
  • SINE sequences are approximately 70-700 base pairs (bp) averaging about 250 bp [ 1 ] with most organized into an RNA gene-derived region, a di-nucleotide repeat region and terminating in a poly A or poly A/T tail [ 2 - 4 ]. (biomedcentral.com)
Plasmid4
  • We developed permissR, an R package to identify permissive sites for chromosomal integration, which can be used in conjunction with pSelAct-Express, a non-replicating integrative plasmid that enables recombination into a permissive genomic location. (biorxiv.org)
  • 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)
  • This fusion protein gene was combined in a plasmid with the promoter and 5′ and 3′ flanking regions of the polyhedrin gene. (microbiologyresearch.org)
  • The resulting plasmid and the wild-type BmNPV genomic DNA were cotransfected into BM-N cells, and a recombinant virus was isolated by the limiting dilution method. (microbiologyresearch.org)
Whole-genome1
Strain1
  • We sequenced and constructed the complete genome of an environmental strain CR1 of P. aeruginosa and performed the comparative genomic analysis. (frontiersin.org)
Datasets1
  • Analysis of transcription factor (TF) and ChIP- seq datasets identified overlap of 70 SNPs with TF binding regions of relevant lung cell lines (e.g. (cdc.gov)
Probes1
  • This set of tracks shows the genomic positions of probes and targets from a full suite of in-solution-capture target enrichment exome kits for Next Generation Sequencing (NGS) applications. (ucsc.edu)
Comparative4
  • To investigate the comparative genomics, ecology, and physiological potential of the SAR324 clade, we examined the distribution and variability of key genomic features and metabolic pathways in this group from surface waters to the abyss in the North Pacific Subtropical Gyre, one of the largest biomes on Earth. (biomedcentral.com)
  • We detected CNVs in rice by array-based comparative genomic hybridization. (biomedcentral.com)
  • CNVs can be detected using cytogenetic techniques such as fluorescent in situ hybridization, array-based comparative genomic hybridization, and SNP genotyping arrays. (biomedcentral.com)
  • Array comparative genomic hybridization in patient one and patient two revealed copy-number variant (CNV) deletions, respectively, ~ 1.45 Mb in size involving FOXF1 and an ~ 0.7 Mb in size involving FOXF1 enhancer and leaving FOXF1 intact. (researchgate.net)
Promoter3
  • To elucidate the molecular basis of the differential HCK gene expression, the genomic region containing the HCK promoter was isolated and functionally characterized. (uni-frankfurt.de)
  • Expression of a reporter gene linked to the −101HCK promoter region was up-regulated by Sp1, but not by other members of the Sp1 family of transcription factors, in Drosophila Schneider cells. (uni-frankfurt.de)
  • Proliferation is initiated via recognition of promoter boxes residing in the tRNA-related region of the genomic "master-copy" by host-derived RNA polymerase III and eventually results in novel retrotransposed copies [ 6 ]. (biomedcentral.com)
Gene expression1
  • Direct phenotypic variation is possible by altering gene expression via insertion into coding regions or interference from the internal RNA polymerase promoters in SINEs [ 29 ]. (biomedcentral.com)
Chromosome2
  • The M27PP2 includes a total of 15,555-bp region (genes shown in orange arrows), which was 88.9% similar to a prophage-like region in γ proteobacterium HdN1 chromosome (GenBank accession no. (cdc.gov)
  • The largest regions showing copy gain and loss are of 37.4 kb on chromosome 4, and 180.7 kb on chromosome 8. (biomedcentral.com)
Phenomenon1
Nuclease1
  • It was shown that the H19 ICR displays unique chromatin conformation features with nuclease hypersensitive sites in linker elements flanked by positioned nucleosomes on the maternally derived allele. (kb.se)
SNPs1
  • The massive efforts to systematically find and catalog single nucleotide polymorphisms (SNPs) bear witness to the conviction that small genomic changes may provide clues to the origins of such things as heart problems, obesity, and pharmacologic responses. (the-scientist.com)
Differentially methylated1
  • These features are governed by a 2.2 kb differentially methylated domain, hereafter termed imprinting control region (ICR) in the 5'-flank of the H19 gene. (kb.se)
Protein2
  • BmNPV genomic DNA codes polyhedrin which is a major protein of inclusion bodies and is mass- produced in infected silkworm larvae. (microbiologyresearch.org)
  • The coding region of the carboxy- terminal half of polyhedrin was removed and the remainder was ligated with the IGF II gene in phase to create a fusion protein gene consisting of the coding region of the amino-terminal half of polyhedrin and the IGF II gene. (microbiologyresearch.org)
Advances1
  • Researchers in Human Genetics and Genomics Advances report that how researchers describe genomic studies may alienate potential participants. (genomeweb.com)
Genetic3
  • Genetic environments of the C1-M27 clade-specific region of Escherichia coli . (cdc.gov)
  • The vector pSelAct-KO is a recombination based, markerless knockout system that uses dual selection to engineer seamless deletions of a region of interest, providing opportunities for repeated higher-order genetic knockouts. (biorxiv.org)
  • Identification of Novel Microsatellite Markers Flanking the SMN1 and SMN2 Duplicated Region and Inclusion Into a Single-Tube Tridecaplex Panel for Haplotype-Based Preimplantation Genetic Testing of Spinal Muscular Atrophy. (cdc.gov)
Human2
  • Xdrop enriches genomic regions longer than 100 kb from as little as 1 ng of human genomic DNA and with single-molecule resolution. (genomeweb.com)
  • To study the genomic divergences among hominoids and to estimate the effective population size of the common ancestor of human and chimpanzee we selected 53 autosomal intergenic noncoding DNA segments from the human genome and sequenced them in a human, chimpanzee, gorilla, and orangutan. (ncl.edu.tw)
Studies1
  • It is one of the most important food crops in the world, and a model plant for genomic studies of monocots. (biomedcentral.com)
Promoters1
  • Mechanisms responsible for oxygen-dependent regulation act at the level of transcription initiation from two overlapping promoters within the region upstream of the VHb gene. (caltech.edu)
Complex1
  • Danish company Samplix has launched a comprehensive service program granting laboratories access to its Xdrop technology for complex genomic research including gap closing, sequencing of repeat elements, viral insertion site detection, revealing unintended CRISPR edits, and more. (genomeweb.com)
Means3
  • This study highlighted the effectiveness of model transfer as a means of identifying and evaluating the management of regions facing significant salinity-related challenges. (researchgate.net)
  • By means of laser-dissection and bisulfite genomic sequencing, it was observed that de novo methylation of CTCF target sites occurred in BORIS-expressing spermatocytes that exhibit repression of CTCF gene. (kb.se)
  • We introduce MicroSyn software as a means of detecting microsynteny in adjacent genomic regions surrounding genes in gene families. (biomedcentral.com)
Basis2
  • With the emergence of CRISPR/Cas9, an unprecedented variety of novel approaches and possibilities for genomic engineering are unveiled on a regular basis. (mdpi.com)
  • The IBDsite is compliant with all Galaxy installations (in particular, it can be accessed from our custom version of Galaxy, http://www.itb.cnr.it/galaxy ), in order to facilitate high-throughput data integration and to enable evaluations of the genomic basis of these diseases, complementing the tools embedded in the IBDsite. (biomedcentral.com)
Feature1
  • Phylogenomic subclade delineation, environmental distributions, genomic feature similarities, and metabolic capacities revealed strong congruence. (biomedcentral.com)
Levels2
  • Thereafter, Multinomial Logistic Regression (MNLR) and Gradient Boosting Algorithm (GBM), were utilized to spatially classify the salinity levels in the region. (researchgate.net)
  • 2014. The Architecture of a Scrambled Genome Reveals Massive Levels of Genomic Rearrangement during Development. (icr.org)
Potential1
  • Combining pangenomic and both metagenomic and metatranscriptomic profiling revealed a striking divergence in the vertical distribution, genomic composition, metabolic potential, and predicted lifestyle strategies of geographically co-located members of the SAR324 bacterial clade. (biomedcentral.com)
Data2
  • NGS was performed in 91 workers with DA (cases) and in 293 subjects from the 1,000 genomic (1KG) control data set. (cdc.gov)
  • The data revealed substantial genomic diversity throughout the SAR324 clade, with distinct depth and temporal distributions that clearly differentiated ecotypes. (biomedcentral.com)
Distribution1
  • A comprehensive understanding of soil salinity distribution in arid regions is essential for making informed decisions regarding agricultural suitability, water resource management, and land use planning. (researchgate.net)
Target2
  • Descriptive statistical parameters were computed for the values of the eight chosen digital covariates within both the reference and target regions. (researchgate.net)
  • It was found that the subsoils in the middle and northwest regions of both the reference and target areas had a higher salinity level compared to the topsoil. (researchgate.net)
Type1
  • KUN5781 and Ec 24 had the type D structure, of which an additional 19,352-bp region (M27PP2) is inserted into the type B structure by creating the same 7-bp direct repeat (yellow triangle). (cdc.gov)
Study1
  • This study differs from previous ones in that it demonstrates an approach to efficiently obtain authentic genomic divergences without sacrificing accuracy or reliability. (ncl.edu.tw)
Active1
  • In epipelagic SAR324 ecotypes, we observed the presence of two types of proton-pumping rhodopsins, as well as genomic, transcriptomic, and ecological evidence for active photoheterotrophy, based on xanthorhodopsin-like light-harvesting proteins. (biomedcentral.com)
Found1
  • The opacities were relatively dominant at the peripheral region of the cornea, yet were found throughout the entire cornea. (molvis.org)