Targets base sequence. Medical search. Frequent questions

To explore the role of acquired mutations in MDS, 111 MDS-associated genes were screened using next-generation sequencing (NGS), in 125 patients. (oncotarget.com)
A panel of 11 target genes was proposed for genetic profiling of MDS. (oncotarget.com)
This document describes some of the target genes and primers that can be used for DNA sequence-based identification of fungi and the PCR conditions with which to use those primers. (cdc.gov)
The tissue was from FFPE and targeted panel sequencing was done on ~200 genes. (broadinstitute.org)
Methods A next-generation sequencing (NGS) panel was created for the human TRPV1 gene and in addition, for the leukotriene receptors BLT1 and BLT2 recently described to modulate TRPV1 mediated sensitisation processes rendering the coding genes LTB4R and LTB4R2 important co-players in pharmacogenetic approaches involving TRPV1. (researchgate.net)
The NGS workflow was based on a custom AmpliSeq™ panel and designed for sequencing of human genes on an Ion PGM™ Sequencer. (researchgate.net)
A cohort of 80 healthy subjects of Western European descent was screened to evaluate and validate the detection of exomic sequences of the coding genes with 25 base pair exon padding. (researchgate.net)
This identified approximately 140 chromosome loci where nucleotides deviated from the reference sequence GRCh37 hg19 comprising the three genes TRPV1, LTB4R and LTB4R2. (researchgate.net)
It is suitable for large-scale sequencing of TRPV1 and functionally related genes. (researchgate.net)
The novelty of this test is that it targets four genes," he said. (foodsafetynews.com)
Timothy Close, plant geneticist at the University of California in Riverside and corresponding author on the newly published paper, told GenomeWeb this week that the team's goal was to sequence the gene-rich regions of the genome to discover more genes than previous research had been able to uncover. (genomeweb.com)
Over many years, Close and colleagues were able to generate approximately 1.7 Gb of genomic sequence containing an estimated two-thirds of all barley genes. (genomeweb.com)
There are 4 major subfamilies of emm genes, which are defined by sequence differences within the 3' end, encoding the peptidoglycan-spanning domain. (medscape.com)
Current diagnostic PCR assays target a variety of SARS CoV-2 genes and the vast majority target sequences in regions of the SARS CoV-2 genome that are highly conserved. (who.int)
The physiological conditions experienced by a microbial community can thus be inferred using meta-transcriptomic sequencing by comparing transcription levels of specifically chosen genes. (osti.gov)
In a Novartis-sponsored study in the New England Journal of Medicine, researchers found that a CRISPR-Cas9-based treatment targeting promoters of genes encoding fetal hemoglobin could reduce disease symptoms. (genomeweb.com)
Regions of the L. killicki ( L. tropica ) and L. major genes sequences were scanned using BLAST program and subsequently compared using appropriate bioinformatic tools Chromas and MEGA. (who.int)
The student will evaluate gene expression in relation to measures of genetic diversity, differentiation, and neutrality across the genome to evaluate whether the sequences or the flanking regions of genes with stage-specific expression demonstrate signs of selection. (lu.se)

Short tandem repeats (STRs), also known as microsatellites, are repetitive DNA sequences consisting of 1-6-bp motifs present in a genome. (researchsquare.com)
These tools provide built-in genome databases of common model organisms that are used for CRISPR target prediction. (biomedcentral.com)
Our software offers CRIPSR target predictions using an extended list of phytoplankton genomes and also delivers a user-friendly standalone application that can be used for any genome. (biomedcentral.com)
A well designed target sequence must not only optimally bind to its desired target, but must also not target any other site in the genome being edited, to avoid undesired off-target mutations [ 11 ]. (biomedcentral.com)
Because target site choice is a key point for promoting successful editing, several computational tools have been designed aiming to automate this procedure, all offering candidate target sites for a given input sequence/gene and potential off-target sites for a given background genome. (biomedcentral.com)
The off-target analysis can be performed against indexed genomes from 13 algae (diatoms, green algae, haptophytes, etc.), or any user defined genome or transcriptome, assembled or not, making it useful for designing CRISPR projects for many communities. (biomedcentral.com)
With the application of single cell genome and metagenome sequencing and assembly, the number of phyla in Archaea domain has increased to more than twenty, and these phyla clustered to Euryarchaota and three superphyla-TACK, DPANN, and Asgard [ 15 ]. (biomedcentral.com)
However, single-cell genome and metagenome sequencing have shown limited capacity to discover microbial dark matter because massive data are needed for metagenome assembly and binning. (biomedcentral.com)
Conclusions Results suggested that the NGS approach based on AmpliSeq™ libraries and Ion Personal Genome Machine (PGM) sequencing is a highly efficient mutation detection method. (researchgate.net)
They have completed a draft sequence for approximately 60% of the Neandertal genome. (creation.com)
NEW YORK (GenomeWeb) - After more than a decade of collaborative work, a team led by researchers at the University of California in Riverside has published details of its successful efforts in sequencing large gene-rich portions of the barley genome. (genomeweb.com)
Sequencing the whole barley genome has been a challenge because barley possesses a large and highly repetitive genome of 5.1 Gb - almost twice the size of the human genome (3.2 Gb). (genomeweb.com)
Close worked closely with his colleague, Stefano Lonardi, a computer scientist at UC Riverside, to develop new algorithms to sequence these smaller gene-rich areas of the barley genome. (genomeweb.com)
They also used published sequence from goat grass ( Aegilops tauschii ) to develop a synteny viewer that allowed them to compare sequences from the barley genome with data from the ancestor of the wheat D genome. (genomeweb.com)
The researchers contributing to and using the HarvEST:Barley database have helped fill in many information gaps for the barley genome, but the International Barley Sequencing Consortium (IBSC) is leading the efforts to produce a whole sequenced genome. (genomeweb.com)
The IBSC aims to have more than 95 percent of the genome sequenced in the coming year. (genomeweb.com)
CRISPR genome editing experiments have a propensity for off-target effects (OTEs). (idtdna.com)
But what happens if the host genome shares the same sequences? (analytica-world.com)
CoV-2 genome and can be targeted as a region for detection of VOC/VOI. (who.int)
While the prospects for using human genome-based testing in clinical care and prevention are exciting, the emergence of powerful sequencing and bioinformatics tools has completely changed the landscape in the public health fight against infectious diseases. (cdc.gov)
Plurality consensus sequences are returned in the main folder and are named after the virus genome or gene segment class label, see the IRMA output page for more details . (cdc.gov)
We have extensive whole genome and RNA sequencing data taken from whole samples of flies at three life stages: larva, pupa and adult. (lu.se)

We used microfluidics-based PCR amplification coupled with NGS and multiplex ligation-dependent probe amplification (MLPA) to detect mutations in LDLR , APOB and PCSK9 in three phenotypic groups within the Generation Scotland: Scottish Family Health Study including 193 individuals with high total cholesterol, 232 with moderately high total cholesterol despite cholesterol-lowering therapy, and 192 normocholesterolaemic controls. (biomedcentral.com)
Agilent׷ HaloPlex / HaloPlex HS amplicon-based technology for target enrichment and amplification offers an NGS solution with speed, accuracy, and sensitivity. (agilent.com)
Additionally, polymerase chain reaction ( PCR ) amplification of different DNA sequences can generate DNA barcodes, and analysis of the banding patterns can differentiate strains. (genengnews.com)
The reverse primer of this target has been modified from the CDC design to target an exon/exon boundary to reduce background amplification from possible contaminating genomic DNA. (neb.com)
Mediated Isothermal Amplification based assays for the selective and/or specific identification of, and discrimination among the two (2) Leishmania species encountered in Tunisia. (who.int)
We opted for conserved sequences between species, presenting enough sequence heterogeneities to be considered for the design of species- specific LAMP primers: such primers would allow the selective amplification of the DNA targets. (who.int)
The sequences identified in the previous section of the work were used to design a combinations of 6 primers in 8 distinct regions of the target sequences for the amplification of a selection of reference DNAs belonging to the different Old World Leishmania species. (who.int)

We developed a cost-effective genotyping assay for currently known IBD risk loci, with an integrated bioinformatics pipeline from raw sequencing data to individual genotypes and calculation of a polygenic risk score. (ecco-ibd.eu)
We developed NanoSTR for detection of target STR loci based on the length-number-rank (LNR) information of reads. (researchsquare.com)
Although NanoSTR needs further optimization and development, it is useful as an analytical method for the detection of STR loci by nanopore sequencing. (researchsquare.com)
Sequences of the targeted loci were recovered from data generated with both kits and used to investigate overlap in data between kits and relative efficiency of the general and custom approaches. (frontiersin.org)

Further studies on the involvement of 5mC in development and disease require simple methods for its analysis in genomic DNA sequences of interest. (nature.com)
OTEs are undesired changes to genomic DNA sequences with some sequence similarity to the target site. (idtdna.com)

The assay uses next-generation DNA sequencing (NGS) along with Fusion's novel DNA hybridization technology, QuantumProbes, to enrich bacterial/viral/fungal genomes prior to sequencing. (labroots.com)
The software attempts to integrate, for the first time, most available phytoplankton genomes information and provide a web-based platform for Cas9 target prediction within them with high sensitivity. (biomedcentral.com)
The software was also designed as a UNIX-based standalone application that allows the user to search for target sequences in the genomes of a variety of other species. (biomedcentral.com)

The present study aimed to establish a method for amplifying nearly full-length SSU rRNA gene sequences of previously unidentified prokaryotes, using newly designed targeted primers via primer evaluation in meta-transcriptomic datasets. (biomedcentral.com)
Furthermore, targeted forward primers were designed based on SSU rRNA reads from unclassified groups unmatched with the universal primer 8F/Arch21F, and these primers were used to amplify nearly full-length special SSU rRNA gene sequences along with universal reverse primer 1492R. (biomedcentral.com)

However, there are few methods for STR detection based on nanopore sequencing due to the challenges posed by the sequencing principles and the data characteristics of nanopore sequencing. (researchsquare.com)
NanoSTR can be used for STR detection and genotyping based on long-read data from nanopore sequencing with improved accuracy and efficiency compared with other existing methods, such as Tandem-Genotypes and TRiCoLOR. (researchsquare.com)
NanoSTR showed high performance for detection of target STR markers. (researchsquare.com)
Nanopore sequencing is an evolving third/fourth generation sequencing technology for direct detection of nucleotide sequences with kb or even Mb base pairs (7)(8) . (researchsquare.com)
In terms of data characteristics, NanoSTR effectively avoids the non-random sequencing errors and unexpected insertions-deletions (indels) associated with nanopore sequencing (8)(9) and thus improves the efficiency of sequencing data utilization, the detection rate of STR genotypes, and the accuracy of STR profiling. (researchsquare.com)
We previously validated a method for FH mutation detection in a lipid clinic population using next generation sequencing (NGS), but this did not address the challenge of identifying index cases in primary care where most undiagnosed patients receive healthcare. (biomedcentral.com)
The lower cost and labour associated with NGS-based testing may increase the attractiveness of a population-based approach to FH detection compared to genetic testing with conventional sequencing. (biomedcentral.com)
Moreover, NGS mutation detection is suited to high-throughput testing of large numbers of samples, which is not so readily achievable with standard capillary sequencing platforms. (biomedcentral.com)
Metagenomic sequencing has the potential to transform microbial detection and characterization, but new tools are needed to improve its sensitivity. (harvard.edu)
Three different media (potato dextrose agar (PDA), Czapek agar (CZ), and malt extract agar (MEA)) were used for detection of aflatoxin based on fluorescence [ 16 ]. (hindawi.com)
The objective of this document is to outline the available methods and tools for screening and sequencing patient specimens for the detection of VOC or VOI, with a focus on those that offer a rapid turn-around time so as to support rapid implementation of public health actions for COVID 19 control. (who.int)
Fluorescence-based quantitative polymerase chain reaction (qPCR) is the gold standard for the detection and quantification of nucleic acids due to its sensitivity and specificity. (neb.com)
Luna products are optimized for qPCR or RT-qPCR, and are available for either intercalating dye or probe-based detection methods. (neb.com)
The Luna Probe One-Step RT-qPCR 4X Mix with UDG ( NEB #M3019 ) supports robust, sensitive detection and quantitation of up to 5 targets in a multiplexed reaction. (neb.com)
In December 2013, CDC published its top 5 accomplishments for 2013, which include the Tips from former smokers campaign, outbreak investigations featuring pathogen sequencing and advanced molecular detection, the Million Hearts® initiative, eliminating healthcare-associated infections, and celebrating 10 years of the global program to fight HIV/AIDS. (cdc.gov)
In 2013 CDC launched the Advanced Molecular Detection (AMD) Initiative, which aims to build critical molecular sequencing and bioinformatics capacities at national and state levels to support public health efforts to control infectious diseases. (cdc.gov)
The detection of norovirus capsid protein was explored using three common MS-based methods: scanning of intact proteins, peptide mass fingerprinting, and peptide sequencing. (cdc.gov)
Detection of intact target protein was limited by poor selectivity and sensitivity. (cdc.gov)
Detection of up to 16 target peptides by peptide mass fingerprinting allowed for the reproducible and confident (P (cdc.gov)
This is the first report on MS-based detection of norovirus, accomplished by using structurally identical, noninfective VLPs at clinically relevant concentrations. (cdc.gov)
2. Develop additional strategies to deliver affordable, simple DNA based tools and protocols for the rapid, sensitive and specific Leishmania parasites detection concomitant to their identification/ differentiation. (who.int)

Next-generation sequencing (NGS) technology has been rapidly adopted in clinical practice, with the scope extended to early diagnosis, disease classification, and treatment planning. (jmir.org)
WALTHAM, Mass.--( BUSINESS WIRE )--Pfizer and Thermo Fisher Scientific Inc. (NYSE: TMO) today announced they have entered into a collaboration agreement to help increase local access to next-generation sequencing (NGS)-based testing for lung and breast cancer patients in more than 30 countries across Latin America, Africa, the Middle East and Asia where advanced genomic testing has previously been limited or unavailable. (businesswire.com)
In many parts of the world, access to next-generation sequencing may be limited or unaffordable for cancer patients. (businesswire.com)
As more targeted therapies are available that can be matched through a broader set of genomic markers, next-generation sequencing is quickly replacing sequential, single biomarker tests. (businesswire.com)
Through this new partnership we are pleased to offer you comprehensive next generation sequencing solutions. (idtdna.com)
Integrated DNA Technologies acquires Archer™ next generation sequencing research assays to advance actionable scientific discoveries. (idtdna.com)
You can view Archer assays alongside IDT's xGen™ NGS portfolio to find the best next generation sequencing solution for your lab. (idtdna.com)
Oakland, California-based Fabric offers next-generation sequencing analysis and genomic interpretation. (genomeweb.com)
Familiarity with nucleic acid isolation techniques, sample library preparation, next generation sequencing, targeted genetic analysis, nucleic acid & antibody-based companion diagnostics. (patentlyo.com)

Evolutionary relationships in Cyperaceae have been studied mostly using Sanger sequencing until recently. (frontiersin.org)

What is urgently needed is precise and comprehensive targeted pathogen identification, including the capacity to detect drug-resistant mutations, for routine diagnosis to support effective treatment and control measures. (labroots.com)
CNAs were assessed by array-based genotyping and TP53 mutations using targeted sequencing. (lu.se)

This method adds to the toolbox for nanopore-based STR analysis and expands the applications of nanopore sequencing in scientific research and clinical scenarios. (researchsquare.com)
The goal of this study was to develop a Fast Healthcare Interoperability Resources (FHIR)-based web app, NGS Quality Reporting (NGS-QR), to report and manage the quality of the information obtained from clinical NGS genomic tests. (jmir.org)
Projects proposing the application of existing technologies where the novelty resides in the biological or clinical target/question being pursued are not responsive to this solicitation and will not be reviewed. (nih.gov)
The main reasons are challenges in the sequencing of DNA retrieved from formalin-fixed tissue commonly used for tissue collection in clinical biobanks. (lu.se)
Our approach shows the potential benefits of using target sequencing of formalin fixed samples to facilitate treatment selection and individualized clinical decisions in MCL. (lu.se)
Specifically, CDC has been evaluating suspect cases (identified either by F13L sequencing efforts or by suspicion based on clinical course) for phenotypic resistance. (cdc.gov)

Agilent offers other hybridization-based target enrichment technology options, also, for finding specific regions-of-interest. (agilent.com)
Roche launched the HyperExome panel earlier this year as part of its new target enrichment product portfolio . (genomeweb.com)

Primer binding regions of universal primer 8F/Arch21F for bacteria or archaea were used for primer evaluation of SSU rRNA sequences in meta-transcriptomic datasets. (biomedcentral.com)
We showed that using specific primers designed based on universal primer evaluation from meta-transcriptomic datasets, identification of novel taxonomic groups from a specific environment is possible. (biomedcentral.com)

The assay will be functionally equivalent, yet clinically superior, to whole metagenome sequencing, but at 1/10th the cost, 1/3rd the time, and several times the sensitivity. (labroots.com)
Through deep metagenome sequencing of ultra-small microbes, Anantharaman et al. (biomedcentral.com)

To explore assay performance in complex matrixes, a non-gel-based, rapid method (2 to 3 h) for virus extraction from human stool was evaluated (72% +/- 12% recovery), and additional analyses were performed on norovirus-free stool extracts fortified with VLPs. (cdc.gov)

The amino acid sequence of one representative TALE repeat is shown on top, with RVD amino acids 12 and 13 marked with a grey box and KQ diresidue at positions 16 and 17 involved in DNA phosphate binding in bold and underlined. (nature.com)
Amino acid sequence of the N-terminal region (NTR) is shown on the bottom with amino acids suspected to be involved in DNA phosphate binding in bold and underlined. (nature.com)

While the highest accuracy will be achieved through sequence-based approaches. (genengnews.com)
MALDI-TOF is known to be a reliable method for the identification of intact bacteria and yeast, and is more accurate than phenotypic systems, but not as accurate as sequence-based approaches. (genengnews.com)
In this study, we sequenced 77 samples from a population-based de novo MCL cohort to investigate the utility of targeted sequencing in guiding personalized treatment approaches. (lu.se)
Two approaches were developed to identify unique sequences to L. major in the first case and to L. tropica in the second. (who.int)

The sequence lengths vary greatly from approximately 200 basepairs to up to 700 basepairs depending on the species. (cdc.gov)
The Fusarium ID database contains EF1-α sequences for many species of Fusarium . (cdc.gov)
Targeted sequencing has emerged as a strong tool for estimating species trees in the face of rapid radiations, lineage sorting, and introgression. (frontiersin.org)
Previous studies based on a limited set of markers resolved relationships among Cyperus species using the C3 photosynthetic pathway, but not among C4 Cyperus clade taxa. (frontiersin.org)
In some cases, the most appropriate methods can vary based on the species under examination. (genengnews.com)
According to a procedure that has been previously validated for the identification of species - specific targets among which some fragments would fit into the second category of sequences expected. (who.int)
In case of homologies identified with the other Leishmania species, these sequences were compared to L. major and/or L. tropica using MEGA software. (who.int)
First of all we proceeded to an alignment using the CLUSTAL W program to each Leishmania species and for the selected gene (cysteine protase b) (the alignment use published sequences and sequences which were sequenced in our laboratory). (who.int)

In general, for unknown molds, the ITS region of the rDNA is used as the primary target with primers ITS-1 and ITS-4 as the most general primer set. (cdc.gov)

In practice, however, the high error rate and special data characteristics of long-read sequencing have limited the efficient identification of STR polymorphisms, and therefore, further evaluation of the analytical methods is required (9)(10) . (researchsquare.com)
Our results demonstrate that data generated with a family-specific kit do not necessarily have more power than those obtained with a universal kit, but that data generated with different targeted sequencing kits can often be merged for downstream analyses. (frontiersin.org)
Moreover, our study contributes to the growing consensus that targeted sequencing data are a powerful tool in resolving rapid radiations. (frontiersin.org)
providing sequencing data suitable to addressing challenging and outstanding problems in plant systematics. (frontiersin.org)
Approximately 1000 experimental data entries collected from the targeted sequencing pipeline CancerSCAN designed by Samsung Medical Center were used to validate implementation of the NGS-QR app using real-world data. (jmir.org)
The methods chosen will impact the confidence in the data and decisions made based on that data. (genengnews.com)
PCR-based technologies are dependent on DNA quality, and consistent PCR temperatures, for the reproducibility of the data. (genengnews.com)
The delta data is a sequence of instructions to reconstruct an object from the base object. (git-scm.com)
Each instruction appends more and more data to the target object until it's complete. (git-scm.com)
The following data is appended to the target object. (git-scm.com)
In case one has not read the paper , please note that IRMA is an iterative refinement meta-assembler, meaning it does iterative reference editing based on the observed read data, including substitutions and structural changes. (cdc.gov)
When the plate/box has been created we need a wizard for exporting data to an Excel or tab-separated file that can be sent to the external partner that is going to do the sequencing. (lu.se)
There are several differences in the data collection methods (question wording, sequencing, interview modes, interview period, staffing, etc.) used for the two surveys, as well as the reference periods and universes. (cdc.gov)
The sequences were analyzed in silico by BLAST searching for homologies with other DNAs deposited in the local and public data bases. (who.int)
The student will analyze gene expression in a reference-based pipeline using existing RNA sequencing data from larvae, pupae, and adult flies from each of the two host forms. (lu.se)

Through using multilocus sequence typing and 16S rDNA sequencing we further strengthen the link between the CSF case isolate and the RPA carriage isolate. (cdc.gov)

One of the methods that does seem to work well is TargetScan, which relies on both pairing of seed sequences (a subset of the 18-23 bp that make up a miRNA) and phylogenetic conservation of sites. (lu.se)

There are a few methods for STR identification based on nanopore sequencing, and the representative software are Tandem-Genotypes (11) , NanoSatellite (12) , STRique (13) ， etc. (researchsquare.com)
The target gene will dictate the level of resolution-identification or strain differentiation. (genengnews.com)
Sequence-based identification technologies should be used in these situations, but can also be used for routine applications. (genengnews.com)
The bacitracin disc test is simple to perform and interpret in an office-based laboratory and is sufficiently accurate for presumptive identification of GAS. (medscape.com)

The higher-resolution barley sequence also revealed some new insights into plant genetics. (genomeweb.com)
NEW YORK - Roche and Fabric Genomics announced on Monday a deal to comarket an integrated whole-exome sequencing solution for hereditary genetics. (genomeweb.com)

HaloPlex HS is a high-sensitivity, amplicon-based targeted sequencing method that incorporates molecular barcodes in the DNA library. (agilent.com)

CDC has analyzed sequences from more than 4,000 specimens from across the world, and only 13 changes in the F13L protein were found, including the two cases included in this HAN Update. (cdc.gov)

By fingerprinting small subunit (SSU) ribosomal RNA (rRNA) sequences, Woese classified all life into three domains: Eukarya, Bacteria, and Archaea [ 5 ]. (biomedcentral.com)

Based on a novel system combining IPSS-R and molecular markers, these MDS patients were further divided into 3 more accurate prognostic subgroups. (oncotarget.com)

2017), followed by paired-end sequencing using a MiSeq ® System (Illumina). (ecco-ibd.eu)

The traditional Lancefield classification system, which is based on serotyping, has been replaced by emm typing, which has been used to characterize and measure the genetic diversity among isolates of S pyogenes . (medscape.com)
This system is based on a sequence at the 5' end of a locus ( emm ) that is present in all isolates. (medscape.com)
Isolates from this patient, sequenced by the state laboratory, demonstrated genotypic changes in F13L associated with tecovirimat resistance. (cdc.gov)

genotyping call rate, percentage off-target reads and concordance with ichip-based genotypes). (ecco-ibd.eu)

The latter includes a 20-bp target sequence used to target the Cas9/RNA complex to the desired chromosomal location. (biomedcentral.com)

B ) When pre-formed RNP is introduced by nucleofection into cells, the enzyme rapidly starts cutting targeted genomic DNA. (idtdna.com)

demonstrate through studies on induced pluripotent stem cell-derived cortical neurons that miR-33a is a potential therapeutic target for the treatment of SPG4-related hereditary spastic paraplegia. (portlandpress.com)

Healthcare worker protection and effective public health measures for emerging infectious diseases require guidance based upon a solid understanding of modes of transmission. (nature.com)

Here, we evaluate the targeted use of NGS as a potential route to diagnosis of FH in a primary care population subset selected for hypercholesterolaemia. (biomedcentral.com)
Since the majority of undiagnosed FH patients receive their healthcare outside lipid clinics, we sought to assess the feasibility of targeted sequence-based genetic testing for FH in a primary care-based population subset selected for hypercholesterolaemia. (biomedcentral.com)

Besides, NanoSTR also showed 86.36% and 73.48% concordance using the standard samples 9948 and 2800M with MinION sequencing platform, respectively. (researchsquare.com)
Meanwhile, the concordance with Qnome-3841 sequencing platform were 71.97% and 53.03%, respectively. (researchsquare.com)

The C-C chemokine receptor 5, 32 base-pair deletion (CCR5-Δ32) allele confers strong resistance to infection by the AIDS virus HIV. (harvard.edu)

Additionally, drugs that are developed to treat conditions based on molecular or genetic variations are likely to be expensive. (medlineplus.gov)

For example, NanoSatellite directly analyzes STRs based on electric current distribution, and the accuracy of analysis depends heavily on the stability of the sequencing current and the precision of the basecalling model. (researchsquare.com)
We then developed the FHIR-based web app and FHIR server to exchange quality information, along with statistical analysis tools implemented with the R Shiny server. (jmir.org)
This provides perspectives for improved 5mC analysis and for the 5mC-conditional control of TALE-based editing constructs in vivo . (nature.com)
In this paper we present a global map of the protein space based on our analysis. (aaai.org)
This organization extends our ability to predict the structure and function of many proteins beyond what is possible with existing tools for sequence analysis. (aaai.org)
allow proceeding to the in silico comparative genomics analysis of Leishmania DNAs and annotating the sequences identified. (who.int)

Combining these technologies into a single workflow will lead to higher quality results and increased reliability of sequencing-based diagnostics in routine care. (genomeweb.com)

Therefore, universal primer-independent sequencing library construction methods are needed. (biomedcentral.com)

It detects bacteria based on genetic sequence, which Nagaraja calls the "bacteria's fingerprints. (foodsafetynews.com)
It has always been a curiosity that Cas13 induces dormancy in bacteria through widespread RNA cleavage, yet only cleaves the target RNA in human cells. (analytica-world.com)

Antibiotics of this group can bind in the minor groove of DNA with different sequence-selectivity. (wikipedia.org)

Several computational tools have been published allowing researchers to find candidate target sequences for the engineering of the CRISPR vectors, while searching possible off-targets for the predicted candidates. (biomedcentral.com)
Researchers at the University of Zürich used computer-assisted paleoanthropology to reconstruct this Neandertal child, based on the Gibraltar 2 skull. (creation.com)
After much consideration, the researchers decided to use a previously described combinatorial pooling system to sequence these regions. (genomeweb.com)
After the sequencing was done, the researchers used the Velvet assembler to reassemble the BACs and then used CLARK , a supervised classification method, to assign the reassembled BACs to chromosome arms. (genomeweb.com)

Their first hurdle was finding the best way to make optimal and cost-effective use of their Illumina HiSeq 2000 sequencer, which had seven channels for different sequencing runs. (genomeweb.com)

Prokaryotic CRISPR-Cas systems recognize invaders based on genetic sequence. (analytica-world.com)

In search for global principles that may explain the organization of the space of all possible proteins, we study all known protein sequences and structures. (aaai.org)
Our protein space contains all protein sequences in a non-redundant (NR) database, which includes all major sequence databases. (aaai.org)
Tecovirimat is a virostatic agent that targets a major envelope protein conserved across orthopoxviruses (VP37 in monkeypox virus). (cdc.gov)

We show also that unstable RAR-RXR heterodimers were formed in solution, and that C-terminal sequences and the DNA-binding domains of both receptors were required for efficient formation of stable heterodimers on response elements. (nih.gov)

OTEs occur when the Cas enzyme is directed to the wrong site by the gRNA due to such sequence similarity. (idtdna.com)

A new group within the Asgard superphylum was amplified by the newly designed specific primer based on these unclassified SSU rRNA sequences by using mudflat samples. (biomedcentral.com)

Results The amplicons covered approximately 97% of the target sequence. (researchgate.net)
However, when treatment was initiated based on molecular results, patients experienced better outcomes compared to patients who were treated prior to receiving molecular results, supporting the need for rapid molecular testing to inform better treatment decisions. (businesswire.com)

Beisel heads the RNA Synthetic Biology Department at the Helmholtz Institute for RNA-based Infection Research (HIRI) in Würzburg, a site of the Helmholtz Centre for Infection Research (HZI) in Braunschweig in cooperation with the Julius-Maximilians-Universität (JMU) Würzburg, and is the corresponding author of the study. (analytica-world.com)
Up to now, it was assumed that CRISPR-Cas13 systems are triggered when two criteria are met: a match between a target RNA and the system's guide RNA and the presence of an additional flanking sequence," Elena Vialetto, PhD student at the HIRI and first author of the study, explains. (analytica-world.com)

The plurality consensus sequence is very useful when used with the BAM file to look at minor variants, since the most frequent allele will appear in the reference. (cdc.gov)
The final plurality consensus and the final reference are the same sequence! (cdc.gov)
These sequences are modifications to the plurality consensus. (cdc.gov)
The second type of base amendment is for consensus allele quality control . (cdc.gov)

This motivated us to design a new CRISPR target finding tool, PhytoCRISP-Ex. (biomedcentral.com)
A research team of the Helmholtz Institute in Würzburg in cooperation with the North Carolina State University (USA) has now discovered a control mechanism exhibited by CRISPR-Cas systems that use Cas13 nucleases: These systems only trigger an extensive immune response if the concentration of the target RNA exceeds a certain threshold. (analytica-world.com)

Anatomy2

Organisms4

Diseases1

Chemicals and Drugs42

Analytical, Diagnostic and Therapeutic Techniques and Equipment16

Phenomena and Processes41

Disciplines and Occupations1

Information Science6

Health Care2

Genes18

Genome22

Amplification7

Loci4

Genomic DNA sequences2

Genomes3

RRNA gene2

Detection21

Next-generation9

Sanger1

Mutations2

Clinical6

Enrichment2

Meta-transcriptomic2

Metagenome2

Assay1

Amino Acid Seq2

Approaches4

Species8

Primers1

Data15

RDNA1

Phylogenetic1

Identification4

Genetics2

High sensitivity1

Specimens1

Ribosomal1

Markers1

20171

Isolates3

Genotypes1

Chromosomal1

Rapidly1

Hereditary1

Infectious diseases1

Subset2

Concordance2

Deletion1

Additionally1

Analysis6

Workflow1

Methods1

Bacteria2

Bind1

Researchers4

Sequencer1

Genetic sequence1

Protein3

Receptors1

Similarity1

Samples1

Results2

Study2

Consensus4

CRISPR2