Aptamer coding sequence. Medical search. Frequent questions

Synthetic antisense DNAs are used to hybridize to complementary sequences in target RNAs or DNAs to effect the functioning of specific genes for investigative or therapeutic purposes. (genomicglossaries.com)
They include coding mRNAs and non-coding (nc) RNAs among them antisense oligonucleotides (ASOs), small interfering RNAs (siRNAs), micro-RNAs (miRNAs), small activating RNAs (saRNAs), RNA aptamers and RNA guides. (frontiersin.org)
There are currently several products containing RNA on the market, and many are under development, among them mRNA, antisense oligonucleotides (ASOs), small interfering RNAs (siRNAs), small activating RNAs (saRNAs), micro-RNAs (mi-RNAs), RNA aptamers and RNA guides. (frontiersin.org)
The recent years have seen an explosion in the discovery of non-coding RNAs associated with many different and surprising functions. (biomedcentral.com)
Non-coding RNAs are involved in most regulatory processes, e.g. via interactions with proteins and other nucleotide sequences (DNA and RNA), or act as protein assembly platforms for complex ribonucleic particles. (biomedcentral.com)
In addition to these natural non-coding RNAs, new techniques have been evolved to artificially generate RNAs as novel cancer diagnostic, prognostic and therapeutic agents. (blogspot.com)
Here we review some of these new discoveries and technologies, including long noncoding RNAs, microRNAs and RNA aptamers, and how they are being applied to prostate cancer research at the Brady Urological Institute. (blogspot.com)
One class of genes which do not code for protein products are called noncoding RNAs (ncRNAs) . (blogspot.com)
MicroRNAs, on the other hand, are smaller RNAs which primarily function as RNA interference agents, to block the synthesis of proteins encoded by specific coding genes. (blogspot.com)
MicroRNAs (miRNAs) are endogenous single-stranded non-coding RNAs consisting of 16-23 nucleotides. (turkupetcentre.net)
The review also outlines the vast applications of UBPs as novel information storage components as well as in creation of semi-synthetic organisms expressing non canonical amino acids, high affinity aptamer generation, PCR based diagnostics and sitespecific labelling of RNAs. (fortuneonline.org)
The length limitation for this technique could prevent the isolation of novel ribozymes that may reside among the numerous long non-coding RNAs (greater than 200 nt) encoded in bacterial genomes [ 17 ]. (biomedcentral.com)

Aptamers are single-stranded oligonucleotides which can bind to target cells specifically by distinct tertiary structures even without knowledge of characteristic protein profiles on cell surface. (edu.hk)
Oligonucleotides can also be designed to specifically bind to other molecular targets ( aptamer oligonucleotides ). (turkupetcentre.net)

Moreover, as the word 'coding' refers to the relationship between nucleic acids and proteins, rather than the mere transcription of DNA into RNA, it is logical to call the strand with the mRNA sequence the coding strand, as in the first example. (genomicglossaries.com)
Here, we assayed the abundance levels of proteins in plasma from 96 elderly Europeans using a new aptamer-based proteomic technology and performed genome-wide local (cis-) regulatory association analysis to identify protein quantitative trait loci (pQTL). (ox.ac.uk)
This is the first large-scale genetic association study of proteins in plasma measured using a novel, highly multiplexed slow off-rate modified aptamer (SOMAmer) proteomic platform. (ox.ac.uk)
Previous analysis of the salivary gland transcriptome of Culex quinquefasciatus showed the potential presence of an endonuclease with sequence similarities to shrimp, crab and two tsetse salivary proteins. (silverchair.com)
It is estimated that coding genes (the genes which code for the ~20,000 human proteins) only account for ~1.5% of the three BILLION nucleotides of sequence information in the human genome. (blogspot.com)
The genetic code in the genes and dna tell the body how to make proteins. (adaliasfamilyfarm.com)
Amino acid sequences found in transported proteins that selectively guide the distribution of the proteins to specific cellular compartments. (umassmed.edu)
Fig. 1: Photochemistry of light-oxygen-voltage receptors and sequences of proteins under study. (nature.com)
Using a number of diverse protein families as test cases, we investigate the ability of the recently developed iterative sequence database search method, PSI-BLAST, to identify subtle relationships between proteins that originally have been deemed detectable only at the level of structure-structure comparison. (embl.de)
All life on Earth today uses a triplet RNA code to make proteins from DNA, and these experiments showed how RNA triplets might have helped RNA sustain early life forms. (elifesciences.org)

We hypothesize that L6 aptamer could facilitate selectively targeting osteoblast for osteogenic siRNAs (encapsulated in LNPs) and subsequently promoting bone formation in established osteoporotic rodents. (edu.hk)
The S1 aptamer selectively bound the S1 protein with high binding affinity. (trentu.ca)

The most highly significant single nucleotide polymorphism detected was rs7021589 (false discovery rate, 2.5 × 10(-12)), mapped within the gene coding sequence of Tenascin C (TNC). (ox.ac.uk)
We established a ribozyme reporter system in Escherichia coli in which a significant reduction of reporter activity is manifest when an active ribozyme sequence is fused to the reporter gene and the expression of a foreign Bacillus subtilis RNaseJ1 5′ exonuclease is induced from a chromosomally-integrated gene in the same cell. (biomedcentral.com)
In these assays, the ribozyme sequence is fused to a reporter gene which modulates its activity when expressed as RNA. (biomedcentral.com)
LDLR variants were identified using an exon-targeted gene sequencing strategy, considering its cost-effective to increase accuracy in the identification step of the most likely FH-related variants in a less laborious process. (bvsalud.org)
Genetic analyses of larger cohorts using gene panels, exome sequencing (ES), or genome sequencing (GS) have further defined the frequency of individuals with deleterious variants in PAH risk genes and have identified novel candidate risk genes. (biomedcentral.com)

The tRNA recognizes a specific three nucleotide codon in the mRNA with a complementary sequence called the anticodon on one of its loops. (wikipedia.org)
The sense strand has the same sequence as the mRNA transcript. (genomicglossaries.com)
The RNAi approach conscripts a subset of microRNA (miRNA) processing machinery, allowing exogenously supplied RNA of specific sequence to stimulate turnover of accordingly-specific mRNA [6]. (chromatographytoday.com)
Då kan en annan typ av arvsmassa, mrna (eller. (adaliasfamilyfarm.com)
However, there exists another kind of RNA, which consists of the 3â UTR alone, without all other elements in mRNA such as 5â UTR and coding region. (omicsonline.org)
Our studies indicate that the independent 3â UTR RNA is a novel non-coding RNA species whose function should be the regulation not of the expression of their original mRNA, but of some essential life activities of the cell as a whole. (omicsonline.org)

Gold nanoparticle-DNA aptamer-assisted delivery of antimicrobial peptide effectively inhibits Acinetobacter baumannii infection in mice. (nih.gov)
python main.py --run_num=1 --mode='free aptamer' --aptamerSeq='TAATGTTAATTG' --ligand='False' --ligandType='' --ligandSeq='' python main.py --run_num=2 --mode='full dock' --aptamerSeq='TAATGTTAATTG' --ligand='YQTQ.pdb' --ligandType='peptide' --ligandSeq='YQTQTNSPRRAR' # --ligand='False' # if no ligand. (pythonawesome.com)
E2EDNA 2.0 takes in a DNA aptamer sequence in FASTA format, and optionally a short peptide or other small molecule, and returns details of the aptamer structure and binding behaviour. (pythonawesome.com)

In fact, much of our understanding about cancer biology today stems from the discovery of mutations (or alterations) in protein-coding genes, and how the resulting protein products can drive cancer development, progression, and metastasis [ 2] . (blogspot.com)
Currently, there are over 1,000 known human microRNAs, each of which is predicted to regulate hundreds to thousands of protein coding genes [ 12] . (blogspot.com)
Classically, the 3â untranslated region (3â UTR) is that region in eukaryotic protein-coding genes from the translation termination codon to the polyA signal. (omicsonline.org)

For biosensing applications, aptamers are suitable high-affinity and cost-effective binding partners for their specific targets. (trentu.ca)

Oligonucleotide can hybridize to another chain if their sequences can form G☰C and A⚌T or A⚌U pairs. (turkupetcentre.net)

endonuclease (CuquEndo) produced in mammalian cells showed no sequence specificity for DNA substrate except that it only cleaves double-stranded DNA. (silverchair.com)
However,some nucleases showing little sequence specificity do recognize certain structural features of their respective DNA substrates other than ss/ds DNA. (silverchair.com)

Molecular biologists describing DNA sequences or referring to one of the two strands of double- stranded DNA frequently use complementary pairs of terms, such as coding/ non- coding, sense/ nonsense or transcribing/ non- transcribing. (genomicglossaries.com)
In contrast to phosphate groups, the phosphorodiamidate groups are uncharged in physiological pH, which leads to faster and tighter duplex formation with their complementary DNA or RNA sequence. (turkupetcentre.net)
Exploring the interactions between signal sequences and E. coli SRP by two distinct and complementary crosslinking methods. (umassmed.edu)

We use these engineered Cas9 activation complexes to investigate sgRNA targeting rules for effective transcriptional activation, demonstrate multiplexed activation of 10 genes simultaneously, and upregulate long intergenic non-coding RNA (lincRNA) transcripts. (cdc.gov)
We also synthesize a library consisting of 70,290 guides targeting all human RefSeq coding isoforms to screen for genes which, upon activation, confer resistance to a BRAF inhibitor. (cdc.gov)
To identify new risk genes, we utilized an international consortium of 4241 PAH cases with exome or genome sequencing data from the National Biological Sample and Data Repository for PAH, Columbia University Irving Medical Center, and the UK NIHR BioResource - Rare Diseases Study. (biomedcentral.com)

In May 2019, researchers, in a milestone effort, reported the creation of a new synthetic (possibly artificial) form of viable life, a variant of the bacteria Escherichia coli, by reducing the natural number of 64 codons in the bacterial genome to 61 codons (eliminating two out of the six codons coding for serine and one out of three stop codons) - of which 59 used to encode 20 amino acids. (wikipedia.org)
Within the last decade a major effort has begun to identify and characterize the other types of codes that exist in the remaining 98.5% of the human genome [ 3] . (blogspot.com)
WALNUT CREEK, CA-Researchers are closer now to thwarting two related plant pathogens, one causing "Sudden Oak Death" (SOD) and another responsible for a devastating soybean disease, thanks to the DNA sequence produced by the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), in collaboration with the Virginia Bioinformatics Institute (VBI). (doe.gov)

Algorithms to process genetic sequences in order to get relevant information from them. (privateinvestigatorsmiami.com)
In parallel, DNA circuits based on strand exchange reactions and capable of executing embedded algorithms are being developed, using tools such as aptamers and DNA nanotechnology. (utexas.edu)

However, it is difficult to capture the complexity of transcript isoform variance using these libraries, and large cDNA sequences are often difficult to clone into size-limited viral expression vectors. (cdc.gov)

An expanded genetic code is an artificially modified genetic code in which one or more specific codons have been re-allocated to encode an amino acid that is not among the 22 common naturally-encoded proteinogenic amino acids. (wikipedia.org)
First, for successful translation of a novel amino acid, the codon to which the novel amino acid is assigned cannot already code for one of the 20 natural amino acids. (wikipedia.org)

In the case of biomedical applications, XNAs may be developed into aptamers-molecular structures that can mimic the properties of naturally occurring polymers, folding into a variety of 3-dimensional forms and binding with selected targets. (nanowerk.com)

The current proposal would provide a novel aptamer-functionalized osteoblast-targeting delivery system for osteogenic siRNAs to update the targeted delivery from tissue level toward cellular level for accommodating translation of RNAi-based clinical bone anabolic strategy in efficiency and safety to metabolic skeletal disorders associated with impaired bone formation. (edu.hk)

The key prerequisites to expand the genetic code are: the non-standard amino acid to encode, an unused codon to adopt, a tRNA that recognises this codon, and a tRNA synthetase that recognises only that tRNA and only the non-standard amino acid. (wikipedia.org)
Expanding the genetic code is an area of research of synthetic biology, an applied biological discipline whose goal is to engineer living systems for useful purposes. (wikipedia.org)
The genetic code expansion enriches the repertoire of useful tools available to science. (wikipedia.org)
A feature exploited in the expansion of the genetic code is the fact that the aminoacyl tRNA synthetase often does not recognize the anticodon, but another part of the tRNA, meaning that if the anticodon were to be mutated the encoding of that amino acid would change to a new codon. (wikipedia.org)
In order to incorporate a novel amino acid into the genetic code several changes are required. (wikipedia.org)
The first element of the system is the amino acid that is added to the genetic code of a certain strain of organism. (wikipedia.org)
According to one hypothesis, the simpler RNA molecule may at one time have held dominion as the sole transmitter of the genetic code. (nanowerk.com)
It is incredible to think that it has only been 50 years since the genetic code was cracked [ 1] . (blogspot.com)
In due course, several attempts have been made in order to expand the genetic code by addition of Unnatural Base Pairs (UBPs) with the aim to increase biomolecular functionality and the potential to create Semi-Synthetic Organisms (SSOs) containing more than four letter bases [1-4]. (fortuneonline.org)
Bacteriophages use an expanded genetic code on evolutionary paths to higher fitness. (utexas.edu)

returns NUPACK or seqfold analysis of aptamer secondary structure. (pythonawesome.com)
The RNA inverse folding program antaRNA, which takes secondary structure, target GC-content and sequence constraints as input, is extended to provide solutions for such H- and K-type pseudoknotted secondary structure constraint. (biomedcentral.com)

The structural plans for organisms ranging from bacteria to primates (including humans) are encrypted in DNA using an alphabetic code consisting of just A, C, T & G, which represent the 4 nucleic acids. (nanowerk.com)
Sequence Multiplicity within Spherical Nucleic Acids. (oligotherapeutics.org)

Thus, aptamer-functionalized LNPs may be used as an efficient and safe delivery system for osteogenic siRNAs. (edu.hk)

fold the aptamer in MMB and run extended MD sampling to identify a representative, equilibrated 2D and 3D structure. (pythonawesome.com)
To our knowledge, so far the tools Inv [ 21 ] and MODENA [ 22 ] are the only approaches that allow for the design of sequences that fold into a given structure with pseudoknot features. (biomedcentral.com)
A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks Researchers combed through more than 5,000 data sets of RNA sequences generated from diverse environmental samples around the world, resulting in a five-fold increase of RNA virus diversity. (doe.gov)

Both molecules co-sedimented in the gradient and were intact after an aptamer-based RNA pull-down. (uni-wuerzburg.de)
Aptamers, like antibodies, are usually targeted against molecules that are abundant enough for successful detection with the excellent sensitivity of modern PET devices. (turkupetcentre.net)
G-quadruplexes are secondary semi-stable folded structures found in our DNA and RNA which tend to assemble around guanine-rich sequences in the presence of cation molecules like potassium. (anti-agingfirewalls.com)

An interval tree data structure suitable for querying sequence features in bioinformatics. (privateinvestigatorsmiami.com)
The reporter system could be useful for validating ribozyme function in candidate sequences identified from bioinformatics. (biomedcentral.com)

This code implements several distinct analysis modes so users may customize the level of computational cost and accuracy. (pythonawesome.com)

Furthermore, the analysis of the data revealed potentially new non-coding ribonucleic acids (ncRNA) and a map of transcriptional processing events. (uni-wuerzburg.de)

Overall, LSPR has been demonstrated as a viable tool for measuring SARS-CoV-2 related aptamer-protein and protein-protein interactions, and this strategy may be applied to other viral or non-viral antigen targets. (trentu.ca)

In the current study, Chaput and his research team demonstrate that certain commercially available enzymes can facilitate the transcription of DNA sequences into TNA and back again into DNA and that the TNA sequences can be induced to evolve under the influence of environmental cues. (nanowerk.com)

Research results, which recently appeared in the Journal of the American Chemical Society ( 'An Efficient and Faithful in Vitro Replication System for Threose Nucleic Acid' ), demonstrate that DNA sequences can be transcribed into a molecule known as TNA and reverse transcribed back into DNA, with the aid of commercially available enzymes. (nanowerk.com)
Aptamers against virtually any larger cellular molecule or even complete cells can be identified by SELEX RNA enrichment [ 1 , 2 ]. (biomedcentral.com)

In addition to their information-carrying role, DNA and RNA possess two defining properties: heredity, (which allows them to propagate their genetic sequences to subsequent generations) and evolution, (which allows successive sequences to be modified over time and to respond to selective pressure). (nanowerk.com)
Generally, there is a correlation between the diversity of the sequences detected in the first pass of database screening and the ability of a given query to detect subtle relationships in subsequent iterations. (embl.de)

Using three-letter 'triplet' building blocks, this new ribozyme can copy various folded RNA strands, including the active part of its own sequence. (elifesciences.org)

Methods: pFastBac HTA donor vector containing coding sequence of human TG2 was constructed. (sharif.edu)
United States Patent 8,932,814 CRISPR-Cas nickase systems, methods and compositions for sequence manipulation in eukaryotes. (stanford.edu)

We identified protein-coding variants and performed rare variant association analyses in unrelated participants of European ancestry, including 1647 IPAH cases and 18,819 controls. (biomedcentral.com)

We collaborate across the faculty on research projects utilising powerful techniques such as high-throughput sequencing, which require extensive processing and … That person can be an invaluable adviser for picking an interesting and tractable project that may have real-world applications, and also for identifying the general approach for attacking that problem. (privateinvestigatorsmiami.com)

These breakthrough discoveries taught us how information locked in DNA sequences can code for the specific synthesis of protein components in cells, tissues and organisms. (blogspot.com)

Since the function of an RNA is related to both sequence and the associated structure, we need to solve the problem of finding a sequence (under certain constraints) that folds into a functional structure. (biomedcentral.com)
Accordingly, a thorough analysis of protein superfamilies at the sequence level is necessary in order to maximize the chances of gleaning non-trivial structural and functional inferences, as opposed to a single search, initiated, for example, with the sequence of a protein whose structure is available. (embl.de)

While several new non-coding RNA forms have been described recently, these four therapeutic modes show promise. (chromatographytoday.com)
Escort aptamers can be used for targeted delivery of drugs, and diagnostic or therapeutic radionuclides. (turkupetcentre.net)

Aptamers are an order of magnitude smaller than antibodies (10-20 kDa versus 150 kDa), and therefore have faster endothelial passage and clearance. (turkupetcentre.net)

Trueman SF, Mandon EC, Gilmore R. Translocation channel gating kinetics balances protein translocation efficiency with signal sequence recognition fidelity. (umassmed.edu)

Alternatively, a single run can be carried out by run_num, mode, aptamer sequence, and ligand's structural file. (pythonawesome.com)

BioJava provides an API to maintain local installations of the PDB, load and manipulate structures, perform standard analysis such as sequence and structure alignments and visualize them in 3D. (privateinvestigatorsmiami.com)

Thus, aptamer, as targeting ligand, may provide an approach to achieve osteoblast-specific delivery by targeting osteoblasts but not hepatocytes and peripheral blood cells (PBCs). (edu.hk)

High-throughput sequencing of the paired human immunoglobulin heavy and light chain repertoire. (utexas.edu)

Over the years, the cost of sequencing biological sequences has decreased exponentially. (privateinvestigatorsmiami.com)
Conclusions ICD-10-CM codes can accurately classify diabetes type for persons with youth-onset diabetes, showing promise for rapid, cost-efficient diabetes surveillance. (cdc.gov)

Trueman SF, Mandon EC, Gilmore R. A gating motif in the translocation channel sets the hydrophobicity threshold for signal sequence function. (umassmed.edu)

Anatomy3

Organisms4

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Chemicals and Drugs46

Analytical, Diagnostic and Therapeutic Techniques and Equipment23

Phenomena and Processes24

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