Gc rich sequence. Medical search

A nucleic acid sequence that contains an above average number of GUANINE and CYTOSINE bases.

The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.

A nucleic acid sequence that contains an above average number of ADENINE and THYMINE bases.

The relative amounts of the PURINES and PYRIMIDINES in a nucleic acid.

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.

A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).

The biosynthesis of RNA carried out on a template of DNA. The biosynthesis of DNA from an RNA template is called REVERSE TRANSCRIPTION.

DNA sequences which are recognized (directly or indirectly) and bound by a DNA-dependent RNA polymerase during the initiation of transcription. Highly conserved sequences within the promoter include the Pribnow box in bacteria and the TATA BOX in eukaryotes.

Sensitivity of an epstein-barr virus-positive tumor line, Daudi, to alpha interferon correlates with expression of a GC-rich viral transcript. (1/287)

The exquisite sensitivity of the Burkitt's lymphoma (BL)-derived cell line Daudi to type I interferons has not previously been explained. Here we show that expression of an Epstein-Barr virus (EBV) transcript, designated D-HIT (Y. Gao et al., J. Virol. 71:84-94, 1997), correlates with the sensitivity of different Daudi cell isolates (or that of other EBV-carrying cells, where known) to alpha interferon (IFN-alpha). D-HIT, transcribed from a GC-rich repetitive region (IR4) of the viral genome, is highly structured, responding to RNase digestion in a manner akin to double-stranded RNA. Comparing EBV-carrying BL cell lines with differing responses to IFN-alpha, we found the protein levels of the dsRNA-activated kinase, PKR, to be similar, whereas the levels of the autophosphorylated active form of PKR varied in a manner that correlated with endogenous levels of D-HIT expression. In a classical in vitro kinase assay, addition of either poly(I)-poly(C) or an in vitro-transcribed D-HIT homolog stimulated the autophosphorylation activity of PKR from IFN-alpha-treated cells in both EBV-positive and EBV-negative B lymphocytes. By transfection experiments, these RNAs were shown to reduce cell proliferation and to sensitize otherwise relatively insensitive Raji cells to IFN-alpha. The data lead to a model wherein the D-HIT viral RNA also serves as a possible transcriptional activator of IFN-alpha or cellular genes regulated by this cytokine. (+info)

Two new members of the emerging KDWK family of combinatorial transcription modulators bind as a heterodimer to flexibly spaced PuCGPy half-sites. (2/287)

Initially recognized as a HeLa factor essential for parvovirus DNA replication, parvovirus initiation factor (PIF) is a site-specific DNA-binding complex consisting of p96 and p79 subunits. We have cloned and sequenced the human cDNAs encoding each subunit and characterized their products expressed from recombinant baculoviruses. The p96 and p79 polypeptides have 40% amino acid identity, focused particularly within a 94-residue region containing the sequence KDWK. This motif, first described for the Drosophila homeobox activator DEAF-1, identifies an emerging group of metazoan transcriptional modulators. During viral replication, PIF critically regulates the viral nickase, but in the host cell it probably modulates transcription, since each subunit is active in promoter activation assays and the complex binds to previously described regulatory elements in the tyrosine aminotransferase and transferrin receptor promoters. Within its recognition site, PIF binds coordinately to two copies of the tetranucleotide PuCGPy, which, remarkably, can be spaced from 1 to 15 nucleotides apart, a novel flexibility that we suggest may be characteristic of the KDWK family. Such tetranucleotides are common in promoter regions, particularly in activating transcription factor/cyclic AMP response element-binding protein (ATF/CREB) and E-box motifs, suggesting that PIF may modulate the transcription of many genes. (+info)

Warm-blooded isochore structure in Nile crocodile and turtle. (3/287)

The genomes of warm-blooded vertebrates are characterized by a strong heterogeneity in base composition, with GC-rich and GC-poor isochores. The GC content of sequences, especially in third codon positions, is highly correlated with that of the isochore they are embedded in. In amphibian and fish genomes, GC-rich isochores are nearly absent. Thus, it has been proposed that the GC increase in a part of mammalian and avian genomes represents an adaptation to homeothermy. To test this selective hypothesis, we sequenced marker protein genes in two cold-blooded vertebrates, the Nile crocodile Crocodylus niloticus (10 genes) and the red-eared slider Trachemys scripta elegans (6 genes). The analysis of base composition in third codon position of this original data set shows that the Nile crocodile and the turtle also exhibit GC-rich isochores, which rules out the homeothermy hypothesis. Instead, we propose that the GC increase results from a mutational bias that took place earlier than the adaptation to homeothermy in birds and before the turtle/crocodile divergence. Surprisingly, the isochore structure appears very similar between the red-eared slider and the Nile crocodile than between the chicken and the Nile crocodile. This point questions the phylogenetic position of turtles as a basal lineage of extant reptiles. We also observed a regular molecular clock in the Archosauria, which enables us, by using a more extended data set, to confirm Kumar and Hedges's dating of the bird-crocodile split. (+info)

Assembly and functional expression of murine glutathione reductase cDNA: a sequence missing in expressed sequence tag libraries. (4/287)

Glutathione reductase (GR) is a chemotherapeutic target. Murine GRcDNA, which contains 85% GC in the 38 codons following the start codon, was assembled from the PCR-amplified exon 1 and a downstream cDNA prior to expression in Escherichia coli as a His(6)-tagged protein. Recombinant GR, an FAD-containing homodimer, corresponds in its enzymic and spectral properties to GR isolated from murine Ehrlich ascites tumor cells. Another cDNA, representing GR with a mitochondrial targeting sequence, yielded two distinct enzymically active expression products. (+info)

Phosphorothioate oligodeoxynucleotides promote the in vitro development of human allergen-specific CD4+ T cells into Th1 effectors. (5/287)

DNA vaccination is an effective approach in inducing the switch of murine immune responses from a Th2 to a Th1 profile of cytokine production that has been related to the activity of unmethylated CpG motifs present in bacterial, but not mammalian, DNA. We report here that some synthetic phosphorothioate, but not phosphodiester, oligodeoxynucleotides (ODNs) were able to induce B cell proliferation and to shift the in vitro differentiation of Dermatophagoides pteronyssinus group 1-specific human CD4+ T cells from atopic donors into Th cell effectors showing a prevalent Th1, instead of Th2, cytokine profile. This latter effect was completely blocked by the neutralization of IL-12 and IFN (alpha and gamma) in bulk culture, suggesting that the Th1-inducing activity of phosphorothioate ODNs was mediated by their ability to stimulate the production of these cytokines by monocytes, dendritic, and NK cells. Cytosine methylation abolished the Th1-inducing activity of ODNs; however, CpG dinucleotide-containing ODNs exhibited the Th1-shifting effect independently of the presence or the absence of CpG motifs (5'-pur-pur-CpG-pyr-pyr-3'). Moreover, the inversion of CpG to GpC resulted only in a partial reduction of this activity, suggesting that the motif responsible for the Th1-skewing effect in humans is at least partially different from that previously defined in mice. These results support the concept that the injection of allergens mixed to, or conjugated with, appropriate ODNs may provide a novel allergen-specific immunotherapeutic regimen for the treatment of allergic disorders. (+info)

Mouse BTEB3, a new member of the basic transcription element binding protein (BTEB) family, activates expression from GC-rich minimal promoter regions. (6/287)

Members of the three-zinc-finger family of transcription factors play an important role in determining basal transcription. We have cloned mouse BTEB3 (mBTEB3), a new member of the basic transcription element binding protein (BTEB) family, which is expressed in a wide variety of tissues. mBTEB3 activates transcription of the simian virus 40 early promoter (4-fold) and of the tissue-specific SM22alpha promoter (100-fold), suggesting that, like BTEB1 and Sp1, mBTEB3 is a basal transcription factor. (+info)

Two classes of genes in plants. (7/287)

Two classes of genes were identified in three Gramineae (maize, rice, barley) and six dicots (Arabidopsis, soybean, pea, tobacco, tomato, potato). One class, the GC-rich class, contained genes with no, or few, short introns. In contrast, the GC-poor class contained genes with numerous, long introns. The similarity of the properties of each class, as present in the genomes of maize and Arabidopsis, is particularly remarkable in view of the fact that these plants exhibit large differences in genome size, average intron size, and DNA base composition. The functional relevance of the two classes of genes is stressed by (1) the conservation in homologous genes from maize and Arabidopsis not only of the number of introns and of their positions, but also of the relative size of concatenated introns; and (2) the existence of two similar classes of genes in vertebrates; interestingly, the differences in intron sizes and numbers in genes from the GC-poor and GC-rich classes are much more striking in plants than in vertebrates. (+info)

Nature and structure of human genes that generate retropseudogenes. (8/287)

The human genome is estimated to contain 23,000 to 33,000 retropseudogenes. To study the properties of genes giving rise to these retroelements, we compared the structure and expression of genes with or without known retropseudogenes. Four main features have emerged from the analysis of 181 genes associated to retropseudogenes: Reverse-transcribed genes are (1) widely expressed, (2) highly conserved, (3) short, and (4) GC-poor. The first two properties probably reflect the fact that genes giving rise to retropseudogenes have to be expressed in the germ-line. The two latter points suggest that reverse-transcription and transposition is more efficient for short GC-poor mRNAs. In addition, this analysis allowed us to reject previous hypotheses that widely expressed genes are GC rich. Rather, globally, genes with a wide tissue distribution are GC poor. (+info)

A "GC-rich sequence" in molecular biology refers to a region within a DNA molecule that has a higher than average concentration of guanine (G) and cytosine (C) nucleotides. The term "GC content" is used to describe the proportion of G and C nucleotides in a given DNA sequence. In a GC-rich sequence, the GC content is significantly higher than the overall average for that particular genome or organism.

The significance of GC-rich sequences can be quite varied. For instance, some viruses and bacteria have high GC contents in their genomes as an adaptation to survive in high-temperature environments. Additionally, certain promoter regions of genes are often GC-rich, which can influence the binding of proteins that regulate gene expression. Furthermore, during DNA replication and repair processes, mismatch repair enzymes specifically target AT base pairs within GC-rich sequences to correct errors.

It's important to note that the definition of a "GC-rich sequence" can be relative and may depend on the specific context. For example, if we consider the human genome, which has an average GC content of around 41%, a region with 60% GC content would be considered GC-rich. However, in organisms like Streptomyces coelicolor, which has an average GC content of 72%, a region with 60% GC content might not be considered particularly GC-rich.

A base sequence in the context of molecular biology refers to the specific order of nucleotides in a DNA or RNA molecule. In DNA, these nucleotides are adenine (A), guanine (G), cytosine (C), and thymine (T). In RNA, uracil (U) takes the place of thymine. The base sequence contains genetic information that is transcribed into RNA and ultimately translated into proteins. It is the exact order of these bases that determines the genetic code and thus the function of the DNA or RNA molecule.

An "AT-rich sequence" in genetics refers to a region within DNA or RNA that has a high concentration of adenine (A) and thymine (T) base pairs. In DNA, adenine pairs with thymine via two hydrogen bonds, whereas cytosine (C) pairs with guanine (G) via three hydrogen bonds. Therefore, AT-rich sequences tend to have lower melting temperatures (the temperature at which the double-stranded structure separates into single strands) compared to GC-rich sequences. This property is exploited in various molecular biology techniques such as polymerase chain reaction (PCR), where increasing the AT content can lower the annealing temperature and make the reaction more efficient. However, AT-rich regions can also pose challenges in sequencing and assembly of genomic data due to their repetitive nature and lower complexity.

Base composition in genetics refers to the relative proportion of the four nucleotide bases (adenine, thymine, guanine, and cytosine) in a DNA or RNA molecule. In DNA, adenine pairs with thymine, and guanine pairs with cytosine, so the base composition is often expressed in terms of the ratio of adenine + thymine (A-T) to guanine + cytosine (G-C). This ratio can vary between species and even between different regions of the same genome. The base composition can provide important clues about the function, evolution, and structure of genetic material.

Molecular sequence data refers to the specific arrangement of molecules, most commonly nucleotides in DNA or RNA, or amino acids in proteins, that make up a biological macromolecule. This data is generated through laboratory techniques such as sequencing, and provides information about the exact order of the constituent molecules. This data is crucial in various fields of biology, including genetics, evolution, and molecular biology, allowing for comparisons between different organisms, identification of genetic variations, and studies of gene function and regulation.

Deoxyribonucleic acid (DNA) is the genetic material present in the cells of organisms where it is responsible for the storage and transmission of hereditary information. DNA is a long molecule that consists of two strands coiled together to form a double helix. Each strand is made up of a series of four nucleotide bases - adenine (A), guanine (G), cytosine (C), and thymine (T) - that are linked together by phosphate and sugar groups. The sequence of these bases along the length of the molecule encodes genetic information, with A always pairing with T and C always pairing with G. This base-pairing allows for the replication and transcription of DNA, which are essential processes in the functioning and reproduction of all living organisms.

Genetic transcription is the process by which the information in a strand of DNA is used to create a complementary RNA molecule. This process is the first step in gene expression, where the genetic code in DNA is converted into a form that can be used to produce proteins or functional RNAs.

During transcription, an enzyme called RNA polymerase binds to the DNA template strand and reads the sequence of nucleotide bases. As it moves along the template, it adds complementary RNA nucleotides to the growing RNA chain, creating a single-stranded RNA molecule that is complementary to the DNA template strand. Once transcription is complete, the RNA molecule may undergo further processing before it can be translated into protein or perform its functional role in the cell.

Transcription can be either "constitutive" or "regulated." Constitutive transcription occurs at a relatively constant rate and produces essential proteins that are required for basic cellular functions. Regulated transcription, on the other hand, is subject to control by various intracellular and extracellular signals, allowing cells to respond to changing environmental conditions or developmental cues.

Promoter regions in genetics refer to specific DNA sequences located near the transcription start site of a gene. They serve as binding sites for RNA polymerase and various transcription factors that regulate the initiation of gene transcription. These regulatory elements help control the rate of transcription and, therefore, the level of gene expression. Promoter regions can be composed of different types of sequences, such as the TATA box and CAAT box, and their organization and composition can vary between different genes and species.

20. Two-step "hot" PCR amplification of GC-rich avian c-myc sequences. (nih.gov)
Note that this may disfavor amplification of gc rich targets. (civicbio.com)

B. The human transcription factor SP1 binds to a GC rich consensus sequence. (uni-frankfurt.de)
The protein encoded by this gene is a zinc finger transcription factor that binds to GC-rich motifs of many promoters. (nih.gov)
Bioinformatic analysis indicated that miR2911 potentially binds to the sequence of HPV. (bvsalud.org)
Transcription factors bind to certain sequences in the DNA alphabet (A, C, G, and T). Typically, SP7 binds to AT-rich regions of DNA. (nih.gov)
The researchers found that the SP7 mutant instead binds to GC-rich regions, causing gene expression changes that lead to abnormal bone formation. (nih.gov)
Initiation marks the beginning of transcription, where RNA polymerase, the enzyme responsible for transcription, recognizes specific DNA sequences known as promoters and binds to them. (microbiologynote.com)

Incorporating Locked Nucleic Acid into oligonucleotides increases thermal duplex stability 2 and improves the specificity of oligonucleotide hybridization to target sequences. (sigmaaldrich.com)
The bold letters in the sequences denote Locked Nucleic Acid bases. (sigmaaldrich.com)
Specifically, Locked Nucleic Acid oligonucleotides can be designed to address traditionally problematic target sequences, such as AT- or GC-rich regions. (sigmaaldrich.com)
This is desirable for applications such as amplification and sequencing of GC-rich nucleic acid sequences. (trilinkbiotech.com)
A nucleic acid sequence that contains an above average number of GUANINE and CYTOSINE bases. (bvsalud.org)

Recent advances in the cost and utility of second generation, high-throughput sequencing technologies have made it possible for ten conifer reference genomes to be assembled ( http://www.pinegenome.org/pinerefseq ). (plos.org)
It becomes an alternative for high-throughput sequencing by demonstrating comparable output. (biomedcentral.com)
In support of any type of high-throughput DNA sequencing, the core offers 96-Well Plasmid DNA Preparation as well as 96-Well PCR Product Purification as add-on services (please refer to section Supporting Sanger Services for more details). (harvard.edu)

Approaches used for the identification of the SVs are shallow whole-genome sequencing (sWGS) combined with quantitative polymerase chain reaction (PCR) and long-range PCR, or ExomeDepth analysis on whole-exome sequencing (WES) data. (frontiersin.org)

Over 60% of the repetitive sequence consists of full or partial LTR (long terminal repeat) retrotransposons. (plos.org)
Les isolats de Mycobacterium tuberculosis issus de patients précédemment traités (n = 88) provenant de toutes les régions de la République arabe syrienne ont été caractérisés en termes de sensibilité aux antibiotiques et en fonction de leur génotype au moyen de la méthode de PCR d'éléments répétitifs doubles (DRE-PCR) pour la proximité des éléments d'ADN IS6110 répétés (élément génétique mobile) et des séquences répétées PGRS (Polymorphic GC-rich repetitive sequence). (who.int)

The genome also contains an unusual distribution of tracts of 5 to 11 successive A or T nucleotides in intergenic domains between the mostly much higher GC content protein coding regions. (nih.gov)
Adaptor molecule 2 was synthesized to redirect this protein to a non-cognate site rich in AT. (uni-frankfurt.de)
The structure of the 3'-5' exonuclease domain of protein N388 closely resembles the corresponding region in the Klenow fragment despite minimal sequence identity. (embl.de)
METHODS The APC gene was analysed in 190 unrelated FAP and 15 non-FAP colorectal cancer patients using denaturing gradient gel electrophoresis, the protein truncation test, and direct sequencing. (bmj.com)
Analyses of the human AHR proximal promoter in MCF-7 human breast cancer cells using luciferase assays and electrophoretic mobility shift assays revealed multiple specificity protein (Sp) 1 binding sequences that are transcriptional activators in vitro. (umn.edu)
Analysis of the escherichia coli proba locus by dna and protein sequencing. (microbiologyresearch.org)
One sequence motif of HPV 16, for which UV cross-linking studies revealed interaction with four protein molecules, is a strong modulator of HPV 16 enhancer function in vivo and shares 100% homology to a sequence motif, GTTTTAA in the tissue-specific enhancer of the c-mos oncogene. (mun.ca)
The eIF4A1-dependent translatome of MCF7 cells was defined by polysome profiling, and was shown to be highly enriched for several classes of oncogenic genes, including G-protein constituents, cyclins and protein kinases, and for mRNAs with G/C-rich 5′UTRs with potential to form G-quadruplexes and with 3′UTRs containing microRNA target sites. (nature.com)

[ 5 ] This genetic heterogeneity makes it almost impossible to perform comprehensive genetic testing using Sanger sequencing, underlining the need for new technical solutions. (medscape.com)
It offers more than 18 years of solid experience in conventional Sanger DNA sequencing, including specialty sequencing and specific supporting services, and reliably provides high-quality services with rapid turnaround and competitive pricing. (harvard.edu)
Our Sanger sequencing process begins with a cycle sequencing reaction using the Applied Biosystems BigDye v3.1 Cycle Sequencing Kit which employs a fluorescently-labeled dideoxy-nucleotide chain termination method to generate extension products from DNA templates. (harvard.edu)

The complete 180-kb genomes of prototype strains from three AT-rich branch viruses, EEHV1A, EEHV1B, and EEHV5, have been published. (nih.gov)
Although it is not clear why this tiny genome lacks the low GC content typical of other small bacterial genomes, these observations support a role of genome reduction rather than base composition as a driver of codon reassignment. (nih.gov)
We've sequenced both arms of chromosome 7 from each of the three genomes now, and each one is the size of a rice genome," he said. (genengnews.com)
Large-scale sequencing studies in vertebrates have thus far focused primarily on the genomes of a few model organisms. (cancer-pictures.org)
A paucity of long simple-sequence repeats and retroelements is consistent with emerging rules of chicken genomics, and a pictorial analysis of the genomic signature of this sequence, the first of its kind for birds, bears strong similarity to mammalian signatures, suggesting common higher-order structures in these homeothermic genomes. (cancer-pictures.org)
Rabbit Polyclonal to MGST3 The house finch sequence is among a very few of its kind from nonmodel vertebrates and provides insight into the evolution of the avian and of avian genomes generally. (cancer-pictures.org)
Nonetheless, the full diversity of genomic structures will not be appreciated until a much larger number of genomes and DNA sequences from nonmodel species are investigated. (cancer-pictures.org)
The concept of a genomic signature has emerged in recent years as one way to describe the higher-order structure, mutational biases, and Saikosaponin B manufacture selection pressures underlying genomes as revealed in the frequencies of DNA words of different length observed in long DNA sequences (Karlin and Burge 1995). (cancer-pictures.org)

Furthermore, an extremely high GC-rich bias in the third wobble position of codons clearly delineates the coding regions for many but not all proteins. (nih.gov)
The reactive form of Glu-P-1, N-acetoxy-Glu-P-1 (N-OAc-Glu-P-1), reacts preferentially at the C8 position of guanine residues in G-C-rich regions of DNA. (nih.gov)
This unique polymerase amplifies DNA with high processivity in highly TA- or GC-rich regions. (merckmillipore.com)
The unique buffer and enzyme system used in the QIAseq targeted DNA panels has been optimized to achieve high coverage of GC-rich genomic regions. (qiagen.com)
Universality: The chemistry used in the QIAseq Targeted DNA Panels and workflow is compatible with both regular and GC-rich genomic regions, allowing one to achieve 100% coverage of genes rich in GC content such as CEBPA and CCND1. (qiagen.com)
Homopolymer regions are segments of DNA that consist of a single nucleotide type-either adenine (A), cytosine (C), guanine (G), or thymine (T). These sequences are notorious for causing complications during DNA synthesis and sequencing due to their repetitive nature. (nunabio.com)
A substantial portion of the regulatory interactions in the higher eukaryotic cell are mediated by simple sequence motifs in the regulatory segments of genes and (pre-)mRNAs, and in the intrinsically disordered regions of proteins. (biomedcentral.com)
Additional protection in four regions, each containing sequences with homology to the NF-1 motif, was observed in the two differentiated cell types. (mun.ca)

Standard single read sequencing service for plasmids or PCR fragments. (seqme.eu)
Rapid sequencing service for plasmids or PCR fragments with automatic data analysis. (seqme.eu)
The customer will submit a premix of DNA template (purified plasmids or purified PCR product) and sequencing primer, prepared in a tube as described in our Sample Submission section. (harvard.edu)

Among a total of 119 genes with an overall colinear organization similar to those of the AT-rich EEHVs, major features of EEHV4 include a family of 26 paralogous 7xTM and vGPCR-like genes plus 25 novel or missing genes. (nih.gov)
Together, this sequence represents 280 Mbp (roughly 1% of the loblolly pine genome) and one of the most comprehensive studies of repetitive elements and genes in a gymnosperm species. (plos.org)
BLASTX analysis of these unique sequences suggested that ∼131 kb (45% of the unique sequence) had matches to either known genes, or database ORFs of hypothetical or unknown function (dORFs). (microbiologyresearch.org)
These data suggest that CII contains genes which are functionally as diverse as those found on any other bacterial chromosome and also contains sequences (pORFs) which may prove to be unique to this organism. (microbiologyresearch.org)
1994). The complete sequence of the chicken (B complex) is an order of magnitude smaller and much more densely packed with genes than mammalian is thought to reflect similar flight-induced genomic streamlining (Parham 1999). (cancer-pictures.org)

Circular dichroism spectroscopy revealed the ability of sequences of this GC-rich region to form guanine-quadruplex structures in vitro. (umn.edu)

While large, well-established suppliers may lack the flexibility to tackle complex DNA synthesis, our multi-patented technology empowers us to amplify substantial amounts of DNA rapidly, including homopolymers, GC-rich sequences, and modifications. (nunabio.com)
However, challenges persist in synthesizing complex sequences, such as homopolymers and GC-rich DNA. (nunabio.com)

Here, we determined the complete 206-kb genome of EEHV4(Baylor) directly from trunk wash DNA by next-generation sequencing and de novo assembly procedures. (nih.gov)
HiFi reads는 de novo assembly를 포함한 whole genome sequencing, variant detection, epigenetic 특성 분석, RNA sequencing 등 다양한 응용 분야에서 사용할 수 있습니다. (mdxk.co.kr)

In this study, we tested MGISEQ-2000 Sequencer's capability of DNA methylation sequencing with a published non-invasive pancreatic cancer detection assay, using NovaSeq6000 as the benchmark. (biomedcentral.com)
We sequenced a series of synthetic cell-free DNA (cfDNA) samples with different tumor fractions and found MGISEQ-2000 yielded data with similar quality as NovaSeq6000. (biomedcentral.com)
As to evaluate the clinical performance of MGISEQ-2000, we sequenced 24 clinical samples and predicted the pathology of the samples with a clinical diagnosis model, PDACatch classifier. (biomedcentral.com)

The most striking feature was the conserved GC-rich domain in Cestrum, which is recognized as a signature trait of the proximal region of chromosome pair 8. (uchile.cl)

The genetic code relates nucleotide sequence to amino acid sequence and is shared across all organisms, with the rare exceptions of lineages in which one or a few codons have acquired novel assignments. (nih.gov)
Targeted or whole-genome nanopore long-read sequencing (LRS) was used to delineate breakpoint junctions at the nucleotide level. (frontiersin.org)
These splice regulatory elements are short nucleotide sequences that are often bound by RNA-binding proteins (RBPs) that can either facilitate or inhibit the splice site recognition. (nature.com)
In many cases, LNA-enhanced oligonucleotides can be used to distinguish between sequences differing by only a single nucleotide, a feature that can be critical for the success of many experiments. (qiagen.com)

Designed for fast amplification speed, IsoFast™ Bst Polymerase gives rapid and consistent results across different target sequences (see Figure 1, 2 & 3). (pcrbio.com)

Interpretation of Human Genome Sequence Data--Dr. Eric Lander. (nih.gov)
BAC end sequences (BES) are important resources for genome research on BAC-anchored genetic marker development, linkage map and physical map integration, and whole genome sequence assembling and scaffolding. (biomedcentral.com)

The 5S rDNA unit is composed of a conserved 120 bp length coding region and an intergenic spacer (IGS) containing potential regulatory motifs (Poly-T, AT-rich and GC-rich) differing in number, redundancy and position along the IGS. (uchile.cl)
Comparison of seventy-one IGS sequences in plants revealed several conserved motifs with potential regulatory function. (uchile.cl)
Another interesting aspect was the ability of AT- and GC-rich motifs to produce non-heterochromatic CMA/DAPI signals. (uchile.cl)
While the length of the 5S rDNA IGS region varied in size between the Cestrum species, the individual sequence motifs seem to be conserved suggesting their regulatory function. (uchile.cl)
Sequences that predispose the DNA to non-canonical conformations are known as non-B DNA motifs, and they have been characterised with respect to their roles in gene regulation. (nature.com)

Special sequencing protocol for hairpins, GC-rich and other problematic templates. (seqme.eu)

In this paper, two sets of loblolly pine genomic sequence, 103 previously assembled BACs and 90,954 newly sequenced and assembled fosmid scaffolds, were analyzed. (plos.org)

The genetic complexity underlying inherited diseases can be addressed by the emerging next-generation sequencing (NGS) technologies. (medscape.com)
지금까지의 short read data를 통한 long repeat variation의 잘못된 mapping과 GC-rich region의 variant 분석상의 PCR-bias에 의한 충분하지 않은 coverage, rare SNPs, indels, copy number variation 등의 불완전한 해석에 대하여 PacBio의 single molecule long read sequencing 결과를 이용하여 다양한 genetic variation의 full spectrum을 얻으실 수 있습니다. (mdxk.co.kr)
Using genetic sequencing, they identified a unique mutation in SP7 , a transcription factor critical for bone formation. (nih.gov)

The minimal promoter was identified as a GC-rich region between nts -374 and +28 with respect to the putative transcriptional start site. (nih.gov)

This finding high- to sequence rpoB , katG , and pncA gene mutations that con- lights the epidemic potential of this prevalent genotype. (cdc.gov)
Sequencing analysis of the human glucocorticoid receptor (NR3C1) gene in multiple sclerosis patients. (cdc.gov)

The JCV enhancer demonstrated three retinoic acid differentiated cell type specific footprints, each containing sequences with homology to the nuclear factor-1 (NF-1) binding motif. (mun.ca)
One sequence motif of the HPV 18 enhancer has three repeats of a TTTTA sequence contained within the c-mos sequence motif and interacts with at least four different polypeptides, as judged by UV cross-linking experiments. (mun.ca)

Birds are also known to posses a higher frequency of GC-rich isochores than mammals (Bernardi et al. (cancer-pictures.org)

The AT- and GC-rich domains appeared highly conserved in Cestrum chromosomes. (uchile.cl)
The 5S genic and the GC-rich IGS probe produced FISH signals in both A (pair 8) and B chromosomes. (uchile.cl)
One of Dr. Edwards' collaborators isolates individual arms of chromosomes in microgram quantities, dissecting this complex genome into manageable pieces, reducing the complexity of assembling sequence data. (genengnews.com)

Electrophoresis of ready sequencing products in our sequencers. (seqme.eu)

Subsequently, fragment separation and sequence detection is carried out by capillary electrophoresis on the 96-well capillary matrix of an ABI3730XL DNA Analyzer, followed by post-detection processing. (harvard.edu)

The high affinity of an LNA-enhanced oligonucleotide to its complementary sequence results in dramatically improved specificity and sensitivity, when compared with traditional DNA or RNA oligos. (qiagen.com)

GC-rich DNA sequences tend to form secondary structures, such as hairpins, which can cause the DNA polymerase to detach during synthesis, resulting in errors and truncated sequences. (nunabio.com)

Digital DNA sequencing is a unique approach to detect low-frequency variants with high confidence by overcoming the issues of PCR duplicates, false positives and library bias. (qiagen.com)

the PNA part (peptide nucleic acids) ensures sequence specific hybridization with the target and the quinone methide (highlighted in yellow) as a potent electrophile reversibly alkylates nucleophilic sites within the RNA (RNA nucleotides shown in black, PNA nucleotides in magenta). (uni-frankfurt.de)

Upon further examination of the GC-rich Sp1-binding region, we confirmed that it contains a polymorphic (GGGGC) n repeat. (umn.edu)
With the BKV enhancer, a GC rich region was protected in all three cell types. (mun.ca)

T m of duplex between an oligonucleotide and its complementary sequence. (sigmaaldrich.com)

however, few studies have generated enough sequence to fully evaluate and catalog their non-genic content. (plos.org)
The common carp genome contains over 17.3% of repetitive elements with GC content of 36.8% and 518 transposon ORFs. (biomedcentral.com)

Telomerase recognizes a telomere-specific GC rich sequence and adds telomeric repeats by using and RNA template. (nih.gov)

While significant strides have been made in the technology of DNA synthesis, there are still specific sequences that pose challenges. (nunabio.com)
GC-rich sequences also pose difficulties in synthesis due to the formation of three hydrogen bonds between the G and C bases, in contrast to the two bonds formed between A and T. This triple bond renders these sequences more stable and harder to separate during the synthesis process. (nunabio.com)
These challenges in synthesis and isolation contribute to higher costs for customers seeking GC-rich DNA products. (nunabio.com)
Customers in need of these sequences must consider bespoke synthesis, which incurs additional costs, to ensure a reliable source of complex DNA. (nunabio.com)

With the tidal wave of next-generation sequencing sweeping through the landscape of biomedical sciences and technology, researchers are inundated with a flood of data. (genengnews.com)
The advantage is that it's essentially dial-able, you only need a very small amount of sequence data if you're doing trait association," he explained. (genengnews.com)
However, Skittle is also more generally useful for analysis of any genomic data, allowing users to correlate published annotations and observable visual patterns, and allowing for sequence and construct quality control. (biomedcentral.com)
We also tested the model's robustness with MGISEQ-2000's data when reducing the sequencing depth. (biomedcentral.com)
The sequence data described in this paper have been submitted to the GenBank data library under accession nos. (cancer-pictures.org)
Upon successful completion of the analysis, automated email notifications are sent to our customers who are then able to access their sequencing data securely through our website by logging into our LIMS and downloading the results (chromatograms, text files, and quality files are returned to the customer). (harvard.edu)
Our in-house Laboratory Information Management System (LIMS) tracks each individual sample (or 'order') from sample entry and reception through the entire sequencing pipeline, and it allows our customers to submit orders online, check the status of their order(s),and finally to retrieve their data. (harvard.edu)
Our support includes but is not limited to assistance in template and sample preparation, in the selection of the appropriate sequencing protocol, and in data interpretation and troubleshooting if needed. (harvard.edu)

An accurate and reproducible next-generation sequencing platform is essential to identify malignancy-related abnormal DNA methylation changes and translate them into clinical applications including cancer detection, prognosis, and surveillance. (biomedcentral.com)

For example, AT-rich native-state DNA oligonucleotides often need to be over 30 bases long (sometimes over 40 bases) to satisfy amplicon design guidelines but may still perform poorly. (sigmaaldrich.com)
Custom LNA Oligonucleotides are ideal for studies involving short or very similar sequences. (qiagen.com)

Base sequence-specific binding to DNA of 2-amino-6-methyl-dipyrido[1,2-a:3',2'-d]imidazole (Glu-P-1). (nih.gov)

Accuracy: Innovative digital sequencing (incorporating molecular barcodes) eliminates PCR duplication and amplification artifacts to detect low-frequency variants with high confidence. (qiagen.com)
Sensitivity: Digital DNA sequencing approach is optimized to deliver high confidence in calling low-frequency DNA variants. (qiagen.com)

It is compatible with the workflows of other sequencing platforms such as the Applied Biosystems' 5500 Series SOLiD and Roche 454 platforms that use single-base TA overhangs as well, "although the sequences of the actual adapters are different between the different platforms," she said. (genengnews.com)
However, MGI platforms' performances on sequencing low-complexity libraries such as DNA methylation remain to be assessed. (biomedcentral.com)

Despite their prevalence and importance, the genome sequences of loblolly pine, Norway spruce, and white spruce, three ecologically and economically important conifer species, are just becoming available to the research community. (plos.org)
To confirm the Nannaethiops Günther, 1872 and Neolebias Steindachner, 1894 species identification, mt-DNA sequences of the two markers (COI and 16S rRNA) were obtained from karyotyped specimens and compared with the relevant sequences accessible from GenBank. (journaltocs.ac.uk)

The identified the Prism Ready Reaction Dye Deoxy Terminator Cycle strain is MDR and has rapidly expanded within immuno- sequencing kit on an ABI Prism 377 DNA sequencer competent and nonhospitalized patients. (cdc.gov)

At NunaBio, we employ groundbreaking methods to produce DNA sequences that are unavailable elsewhere. (nunabio.com)
METHODS: The potential targets of miR2911 on the HPV sequence were predicted and confirmed by using RNAhybrid and dual-luciferase reporter assays. (bvsalud.org)

The remaining 160 kb of DNA sequence which did not yield database matches was then analysed using CODONPREFERENCE from the GCG package. (microbiologyresearch.org)
However, high-quality DNA methylation sequencing has been challenging because poor sequence diversity of the bisulfite-converted libraries severely impairs sequencing quality and yield. (biomedcentral.com)
This easy-to-use and flexible system will synthetize high yield of first-strand cDNA, even from difficult RNA sequences (including AU and GC rich sequences. (anygenes.com)

PureGenome™ High Efficiency Next Generation Sequencing (NGS) Library Preparation is a uniquely optimized system of three library preparation reagent sets, collectively requiring less hands-on time than similar existing protocols. (merckmillipore.com)
The development of next-generation sequencing (NGS) largely reduced the cost of genome sequencing, taking biological and medical research into a new era [ 1 ]. (biomedcentral.com)

To accelerate larger sequencing projects (typically between 1,000-20,000 samples), operational flexibility combined with rapid changes in production scheduling allows for an even higher daily throughput. (harvard.edu)
10 96-well plates), we usually recommend a pilot experiment (1-2 plates typically) to determine optimal template and primer concentration and to select the most appropriate sequencing protocol. (harvard.edu)

Elongation is the stage where RNA polymerase moves along the DNA template, synthesizing an RNA molecule that is complementary to the DNA sequence. (microbiologynote.com)

Frequency analysis of DNA sequences has already revealed important discoveries. (biomedcentral.com)
This analysis suggested that 122 kb (42% of the total unique DNA sequence) could encode putative ORFs (ports), with the remaining 38 kb (13%) possibly representing non-coding intergenic DNA. (microbiologyresearch.org)
Bst DNA polymerase permits rapid sequence analysis from nanogram amounts of template. (pcrbio.com)

Uniformity: The QIAseq Targeted DNA Panel workflow has been optimized to deliver highly uniform sequencing results, to ensure sequencing capacity is utilized very efficiently. (qiagen.com)

Long DNA sequences provide one source of the genomic information that will revolutionize biology, yet cosmid-scale (25C40 kb) or longer DNA sequences are still almost exclusively confined to model organisms and microbial pathogens. (cancer-pictures.org)

HiFi read는 PacBio long-read system에서 circular consensus sequencing (CCS) 모드를 사용하여 생성됩니다. (mdxk.co.kr)

The adaptor consists of a DNA duplex (SP1 consensus sequence highlighted in yellow) and a DNA-binding hairpin polyamide. (uni-frankfurt.de)

This will favor the amplification of less stable molecules including AT rich sequences. (civicbio.com)

Chemicals and Drugs1

Phenomena and Processes6

Information Science2

Sensitivity of an epstein-barr virus-positive tumor line, Daudi, to alpha interferon correlates with expression of a GC-rich viral transcript. (1/287)

Two new members of the emerging KDWK family of combinatorial transcription modulators bind as a heterodimer to flexibly spaced PuCGPy half-sites. (2/287)

Warm-blooded isochore structure in Nile crocodile and turtle. (3/287)

Assembly and functional expression of murine glutathione reductase cDNA: a sequence missing in expressed sequence tag libraries. (4/287)

Phosphorothioate oligodeoxynucleotides promote the in vitro development of human allergen-specific CD4+ T cells into Th1 effectors. (5/287)

Mouse BTEB3, a new member of the basic transcription element binding protein (BTEB) family, activates expression from GC-rich minimal promoter regions. (6/287)

Two classes of genes in plants. (7/287)

Nature and structure of human genes that generate retropseudogenes. (8/287)

No images available that match "gc rich sequence"

GC Rich Sequence

Base Sequence

AT Rich Sequence

Base Composition

Molecular Sequence Data

DNA

Transcription, Genetic

Promoter Regions, Genetic

Sensitivity of an epstein-barr virus-positive tumor line, Daudi, to alpha interferon correlates with expression of a GC-rich viral transcript. (1/287)

Two new members of the emerging KDWK family of combinatorial transcription modulators bind as a heterodimer to flexibly spaced PuCGPy half-sites. (2/287)

Warm-blooded isochore structure in Nile crocodile and turtle. (3/287)

Assembly and functional expression of murine glutathione reductase cDNA: a sequence missing in expressed sequence tag libraries. (4/287)

Phosphorothioate oligodeoxynucleotides promote the in vitro development of human allergen-specific CD4+ T cells into Th1 effectors. (5/287)

Mouse BTEB3, a new member of the basic transcription element binding protein (BTEB) family, activates expression from GC-rich minimal promoter regions. (6/287)

Two classes of genes in plants. (7/287)

Nature and structure of human genes that generate retropseudogenes. (8/287)

Amplification of GC-rich2

Binds6

Nucleic acid5

High-throughput3

Whole-exome1

Repetitive sequence2

Protein8

Sanger3

Genomes8

Regions8

Plasmids3

Genes5

Guanine1

Homopolymers2

Novo assembly2

20003

Chromosome1

Nucleotide4

Target sequences1

Genome Sequence2

Motifs5

Problematic1

Genomic sequence1

Genetic3

Promoter1

Gene2

Motif2

Isochores1

Chromosomes3

Sequencers1

Electrophoresis1

Specificity1

Hairpins1

Bias1

Hybridization1

Region2

Complementary sequence1

Content2

Recognizes1

Synthesis4

Data8

Detection1

Oligonucleotides2

Base Sequence1

Variants2

Platforms2

Species2

Rapidly1

METHODS2

Yield3

Next-generation2

Typically2

Molecule1

ANALYSIS3

Workflow1

Organisms1

Circular1

Consensus1

Stable1

No images available that match "gc rich sequence"