Analysis of gene sequence analysis rna. Medical search. Frequent questions

To assess the performance of this new methodology, we performed a comprehensive comparison of AmpliSeq with RNA-seq using two well-established next-generation sequencing platforms (Illumina HiSeq and Ion Torrent Proton). (biomedcentral.com)
Next generation sequencing data have been shown to produce high quality genomic and transcriptomic assemblies at low cost, as a result more and more nematode species are being sequenced. (bl.uk)
The information in this article contains billing, coding or other guidelines that complement the Local Coverage Determination (LCD) for MolDX: Next Generation Sequencing for Solid Tumors L38045. (cms.gov)

DEGs, or Differentially Expressed Genes, are genes whose expression levels show significant differences between two or more conditions or experimental groups. (pharmiweb.com)
After identifying Differentially Expressed Genes (DEGs), we delve deeper into their functional significance. (pharmiweb.com)
We describe the first report of RNA sequencing of 5' capped (Pol II) RNAs isolated from acutely hepatitis C virus (HCV) infected Huh 7.5 cells that provides a general approach to identifying differentially expressed annotated and unannotated genes that participate in viral-host interactions. (mdpi.com)
RNA-seq offers several advantages over microarrays or RT-qPCR for detecting differentially expressed genes (DEGs). (biomedcentral.com)
The differentially expressed genes (DEGs) in lung tissue between the two groups were identified by RNA-seq , and functional annotation and Gene Ontology (GO)/ Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed. (bvsalud.org)
We predict several transcription factors to regulate differentially expressed genes between mLT-HSCs and other LT-HSC subsets. (biorxiv.org)
Library preparation can be a source of bias in RNA-sequencing studies, leading to false positives in genes identified as differentially expressed between conditions. (pitt.edu)
Differential gene expression analysis was performed with DESeq2, EdgeR, and Limma-Voom, and differentially expressed genes were annotated using BiomaRt. (pitt.edu)
All bioinformatics were conducted in R. There were 13827 differentially expressed genes, including ACTB and GADPH (housekeeping genes), identified in this study. (pitt.edu)
Interestingly," said Dr. Friedman, some of the differentially expressed genes were related to circadian-clock genes, which suggests disruption of the circadian system in association with e-cigarette and Western diet exposure. (medscape.com)
The project will identify key genes, pathways, and biological processes that are differentially regulated in response to hypoxia. (lu.se)

We show that the results are reproducible, and in VeroE6 ACE2+/- cell lines, periscope can detect the changes in the kinetics of sgRNA in orthogonal sequencing datasets. (nanoporetech.com)
Search the gene expression profiles from curated DataSets in the Gene Expression Omnibus (GEO) repository. (cancerindex.org)
Almeida suggested that the datasets associated with the paper provide resources to "challenge assembly, taxonomy profiling, and binning software," as the mocks combine high complexity both in the number of species and by including closely related organisms, challenging aspects for existing metagenomics analysis software. (genomeweb.com)
The breakthrough was in realizing that we could leverage deep learning and massive datasets of tissue-level TF binding profiles to understand how TFs regulate target genes in individual cells through specific signals," Xie said. (ddw-online.com)
By training a neural network on large-scale genomic and epigenetic datasets, and by drawing on the expertise of collaborators across three departments, the researchers were able to identify novel gene regulations for individual cells or cell types. (ddw-online.com)
Moreover, utilizing advanced bioinformatics tools, the project will employ Gene Set Enrichment Analysis (GSEA) to discern the enrichment patterns of HIF-2α target upregulated genes within the obtained datasets. (lu.se)

DNA was isolated and ribosomal RNA genes were obtained by PCR and cloning, and sequenced to identify microbes. (cdc.gov)
Classification of phytoplasma strains can however, become more refined and specific if moderately conserved genes, such as the ribosomal protein gene (rp), are used as genetic markers. (usda.gov)
To address these issues, single gene (usually the nuclear ribosomal small subunit gene) and mitochondrial gene phylogenies have been used, but the information contained within the sequence of these genes is not enough to resolve the topological relationships between clades that emerged during rapid cladogenesis. (bl.uk)

This includes trimming adapter sequences, filtering low-quality reads, and aligning the reads to a reference genome or transcriptome. (pharmiweb.com)
Whole-transcriptome sequencing (RNA-seq) technology has emerged as a revolutionary platform for genome-wide quantification of mRNA transcripts. (biomedcentral.com)
A transcriptome represents that small percentage of the genetic code that is transcribed into RNA molecules estimated to be less than 5% of the genome in humans. (labcorp.com)
Whole- genome sequencing indicated the virus was highly similar to the H5N2 reassortant virus from Canada. (cdc.gov)
Comparative analysis of RNA-Seq data and the genome sequence did not provide evidence for RNA editing in C. graminicola . (biomedcentral.com)
Sequence data of the revised genome annotation including several hundreds of novel transcripts, improved gene models and candidate genes for alternative splicing have been made accessible in a comprehensive database. (biomedcentral.com)
The sequence reads were mapped to hg19 reference genome and hits that passed quality filters were analyzed for differential expression. (nih.gov)
The translation of the SARS-CoV-2 RNA genome for most open reading frames (ORFs) occurs via RNA intermediates termed sgRNAs. (nanoporetech.com)
Sequences were gathered or generated for 53 nematode species from ESTs, gene predictions from full genome assemblies and transcripts from RNA-Seq experiments. (bl.uk)
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)

Human metapneumovirus is a negative-sense nonsegmented RNA virus that has been categorized in the pneumovirus subfamily, family Paramyxoviridae, based on genomic sequence and gene constellation. (medscape.com)
An annotated genomic sequence of the corn anthracnose fungus Colletotrichum graminicola has been published previously, but correct identification of gene models by means of automated gene annotation remains a challenge. (biomedcentral.com)
We have developed periscope, a tool for the detection and quantification of sub-genomic RNA (sgRNA) in ARTIC network protocol generated nanopore SARS-CoV-2 genomic sequence data. (nanoporetech.com)

By subjecting DEGs to gene ontology enrichment analysis, pathway analysis, or functional annotation, we gain insights into the biological processes, molecular functions, and pathways associated with the observed gene expression changes. (pharmiweb.com)
80%) and biological pathways (such as adipocytokine, Notch, Hedgehog and NOD-like receptor signaling) were not identified by previous gene array studies. (mdpi.com)
RNA sequencing analysis showed differential expression of genes in pathways related to proliferation and differentiation. (nih.gov)
What pathways are this gene/protein implicaed in? (cancerindex.org)
These results indicate that library preparation influences differential gene expression analysis and subsequently affects the downstream analyses that investigate the biological pathways impacted by gene expression level. (pitt.edu)
Functional analysis showed that cholesterol biosynthesis pathways and the cytochrome 450 family of proteins (specifically Cyp4A10 that is associated with oxidative stress and lipid peroxidation leading to hepatocyte injury) were increased in mice exposed to e-cigarette aerosol. (medscape.com)

In genetics and genomics research, gene expression refers to the process by which information encoded in a gene's DNA sequence is converted into functional proteins or RNA molecules. (pharmiweb.com)
Large-scale genomics and transcriptomics approaches have been proven to enable the identification of pathogenicity genes in fungi affecting humans or plants [ 8 ], which makes them valuable tools towards a better understanding of fungal infection mechanisms. (biomedcentral.com)
Genomics tools like RNA- seq. (intechopen.com)

The increased intestinal permeability was accompanied by augmented expression of genes marking immune cell infiltration and encoding key proteins for immune cell adhesion, antigen presentation, and cytokine signaling in the orbital tissue. (frontiersin.org)
Among the nTARs, 146 share significant similarity with proteins that have been identified in other species suggesting that they are hitherto unidentified genes in C. graminicola . (biomedcentral.com)
They did this by isolating and sequencing the RNA created as active genes are directing the assembly of proteins. (psc.edu)
The adenovirus early region 1 (E1) gene, which comprises E1a and E1b, encodes the viral early proteins that are necessary for adenoviral replication and the consequent oncolysis of permissive host cells. (hindawi.com)
Caris molecular profiling performs thorough molecular testing on DNA, RNA and proteins to identify the biomarkers driving a patient's tumor, and to compare the biomarkers with data from clinical studies around the world. (carislifesciences.com)
Our offering includes DNA sequencing, as well as RNA and gene expression analysis and future technology for analysing proteins. (nanoporetech.com)

Efficient Isolation and Gene Transfer of Protoplast in Korean Soybean (Glycine Max (L.) Merr. (scirp.org)
Simple protoplast isolation system for gene expression and protein interaction studies in pineapple (Ananas comosus L. (scirp.org)
RNA Isolation and cDNA Microarrays. (lu.se)

With RNA-seq , we can capture and quantify the abundance of transcripts, revealing the dynamic landscape of gene expression within a cell or tissue. (pharmiweb.com)
It is possible to count the number of transcripts to determine the amount of gene activity - also called gene expression - in a certain tissue type. (labcorp.com)
Based on the nucleotide sequence information of transcripts, we identified 819 novel transcriptionally active regions (nTARs) and revised 906 incorrectly predicted gene models, including revisions of exon-intron structure, gene orientation and sequencing errors. (biomedcentral.com)
Assembly of the alignments into full transcripts and quantification of the expression levels of each gene/transcript. (lu.se)

Total RNA from tumors the expression of thousands of genes (3) to address complex questions was isolated using two successive rounds of Trizol. (lu.se)
Our RNA service includes mRNA and total RNA library preparation and sequencing on Illumina platforms. (lu.se)
TaKaRa SMARTer Stranded Total RNA-Seq Kit v2 - Pico Input Mammalian for low input and poor quality samples. (lu.se)

Phylogenetic analysis of the H5 viruses detected in the United States resulted in 3 major findings. (cdc.gov)

This technique enables the sequencing of all RNA molecules in a high-throughput manner. (biomedcentral.com)
The number of sequencing reads that map to each transcript is used to infer the abundance of mRNA molecules. (biomedcentral.com)

Sequence data from nuclear 18S rRNA genes from several dennstaedtioid ferns were also analyzed and found to support some of the inferences based on rbcL data. (usu.edu)
Of the 1860 nucleotide sites of the 18S rRNA gene examined, 215 sites (11.6%) were variable and 71 sites (3.8%) were phylogenetically informative. (usu.edu)
The 18S rRNA gene appeared to be evolving at about one ninth of the rate of rbcL, and therefore 18S data should provide increased resolution for phylogenetic studies of the early branches in fern evolution. (usu.edu)
In a subset of 10 representative patients, bacterial DNA was extracted from ascites and whole blood, followed by 16S rRNA gene amplicon sequencing. (frontiersin.org)

This analysis enables us to pinpoint genes that play pivotal roles in phenotypic variation, disease development, or response to treatments. (pharmiweb.com)

We successfully employed deep sequencing RNA-Seq data in combination with an elaborate bioinformatics strategy in order to identify novel genes, incorrect gene models and mechanisms of transcript processing in the corn anthracnose fungus C. graminicola . (biomedcentral.com)
The work includes everything from sample preparation, establishment of sequencing libraries, sequencing and management of results with certain bioinformatics insight. (scilifelab.se)

Using published data from two standard RNA reference samples, we observed a strong concordance of log2 fold change for all genes when comparing AmpliSeq to Illumina HiSeq (Pearson's r = 0.92) and Ion Torrent Proton (Pearson's r = 0.92). (biomedcentral.com)
Triplicate cDNA libraries of two mutant WA09 lines with a single-copy deletion of chr17p13.1, and two wild-type WA09 lines, for a total of 12 libraries were sequenced using Illumina HiSeq 2500. (nih.gov)

The differential expression of the selected genes were verified using qRTâ PCR and immunohistochemistry (IHC). (bvsalud.org)
The differential expression of the selected DEGs were verified by qRTâ PCR and IHC, and the expression trends of these genes were consistent with those identified by RNA-seq . (bvsalud.org)

Raw RNA-seq data contains a wealth of information but requires preprocessing steps to ensure accurate and reliable results. (pharmiweb.com)
The protein-protein interaction map specific to the rheumatoid arthritis pathophysiology and gene expression data in blood patient samples was used to discover a molecular signature of non-response to TNFi therapy. (springer.com)
A blood-based molecular signature response classifier (MSRC) integrating next-generation RNA sequencing data with clinical features predicts the likelihood that a patient with rheumatoid arthritis will have an inadequate response to TNFi therapy. (springer.com)
An updated External Data Browser for organizing both DNA-Seq and RNA-Seq projects. (genecodes.com)
NEW YORK - Researchers from France's National Research Institute for Agriculture, Food, and Environment (INRAE) have published data on the performance of both short- and long-read sequencing platforms in analyzing highly complex metagenomic samples. (genomeweb.com)
Access to data from complex metagenomic sequencing studies aren't often provided, "because these data are produced for the purpose of hypothesis testing," said first author Victoria Meslier, also of INRAE. (genomeweb.com)
Mason said that he would like to see data from the latest sequencing platforms. (genomeweb.com)
CTG uses secure LSENS servers hosted by LUNARC for internal data management and analysis. (lu.se)
After sequencing, data will be kept by CTG for 3 months and subsequently deleted . (lu.se)
Demultiplexed data files generated from the Illumina sequencing run. (lu.se)
Using available RNA sequencing data from previously published studies on intestinal organoids, the project will compare the gene expression profiles with newly generated RNA sequencing data from our lab's organoid cultures at hypoxia. (lu.se)
5.2 Genetic sequence data. (who.int)

The Ion AmpliSeq™ Transcriptome Human Gene Expression Kit (AmpliSeq) was recently introduced by Life Technologies as a whole-transcriptome, targeted gene quantification kit to overcome these limitations of RNA-seq. (biomedcentral.com)
Our study indicates that AmpliSeq excels in the limiting areas of RNA-seq for gene expression quantification analysis. (biomedcentral.com)
As one of the most widely used tools for transcriptome profiling, quantification of differential gene expression has played a pivotal role in the identification of pathway and gene-network interactions [ 1 - 3 ]. (biomedcentral.com)

Several downstream analyses are performed and their utility in applied ecology, evolutionary biology and molecular biology research will be discussed with guest lecturers. (lu.se)

MiSeq amplicon high-throughput sequencing (Illumina ® ) is able to detect species richness (the number of species within a community) and species evenness (the sizes of species populations within a community). (degruyter.com)
Lee, S., Yamamoto, N. (2015) Accuracy of the high-throughput amplicon sequencing to identify species within the genus Aspergillus . (degruyter.com)

Whole transcriptome sequencing (RNA-seq) represents a powerful approach for whole transcriptome gene expression analysis. (biomedcentral.com)
Transcriptome analysis has enhanced our understanding of the molecular constituents of cells and tissues. (biomedcentral.com)
Consequently, by analyzing RNA sequences in a cell (the transcriptome) we can determine when and where each gene is turned on or off in the cells and tissues. (labcorp.com)
To help characterize their function and potentially reclassify VUSs as disease-causing variants - transcriptome sequencing is offered. (labcorp.com)
Through transcriptome analysis can be proven that there is an effect on the transcript, causing a splice site defect, an inclusion of a pseudo-exon, exclusion of a real exon or loss of expression of the gene. (labcorp.com)
for transcriptome analysis has emerged as a powerful tool to identify novel transcript/gene sequences in non-model plants like okra. (intechopen.com)

This can be achieved by counting the number of reads that align to each gene or by estimating transcript abundance using sophisticated algorithms. (pharmiweb.com)

DGE analysis provides critical insights into the genetic programs governing various stages of development. (pharmiweb.com)
Human immunodeficiency virus ( HIV )-1 may have evolved to integrate its genetic material into certain immune-cell-activating genes in humans, according to new research published in PLOS Pathogens . (medicalnewstoday.com)
The work is mainly focused on large-scale sequencing and molecular genetic analyzes of mainly research samples. (scilifelab.se)

This is a nice comparison of the long- and short-read platforms, and shows overall comparability between methods," said Chris Mason, a sequencing expert at Weill Cornell Medicine who was not involved in the study. (genomeweb.com)
In just the last year, the number of companies offering short-read sequencing platforms has doubled and PacBio has introduced new long-read instruments. (genomeweb.com)

Statistical methods are employed to identify genes that exhibit significant changes in expression between experimental conditions. (pharmiweb.com)
All three statistical methods demonstrate AmpliSeq as a highly accurate method for differential gene expression analysis. (biomedcentral.com)
Additionally, for genes with high abundance, AmpliSeq outperforms the two RNA-seq methods. (biomedcentral.com)
Finally, some discovery methods are based on very general properties of RNA, and are thus able to discover entirely new kinds of ncRNAs. (wikipedia.org)
We additionally showed that our methods are suitable for the harvest and analysis of viruses, using Porcine Circovirus 2 as a model. (cdc.gov)
When we started, we were aware of the strong requirements for long-read sequencing, requesting long DNA fragments and high DNA purity, and expected low performance for quantitative metagenomic analysis compared to conventional short-read methods in such complex mock samples," Almeida said. (genomeweb.com)
The analysis of the supermatrix with maximum likelihood and Bayesian inference methods sheds light into the early splitting clades of the phylogenetic tree of nematodes and the derived clades III, IV and V. Furthermore, the phylogenetic relationships within the parastitic family Onchocercidae were resolved, unveiling the evolutionary history of these important taxa. (bl.uk)
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)

In addition, each gene may produce more than one variant of mRNA because of alternative splicing, RNA editing, or alternative transcription initiation and termination sites. (labcorp.com)
Stochastic models of gene transcription with upstream drives: exact solution and sample path characterization. (crossref.org)
Previous analyses of dopaminergic (DAergic) neurons from patients with Lewy-body pathology revealed a deficiency in nuclear-encoded genes for mitochondrial respiration, many of which are targets for the transcription factor estrogen-related receptor gamma ( Esrrg /ERRγ). (nature.com)
in fact, these genes are targets of the transcriptional coactivator and master regulator of transcription of mitochondrial genes peroxisome proliferator-activated receptor gamma coactivator-1 alpha (PGC-1α) 12 . (nature.com)
14 ). It is important to identify the transcription factors involved in regulation of these genes to reveal potential avenues for modulating transcriptional programs that could be dysfunctional in PD. (nature.com)
These are the same T cell genes inhibited by digoxin, and since replication of integrated HIV-1 requires transcription of nearby genes, this provides an explanation for why wild type HIV-1 is more susceptible to digoxin: digoxin represses the genes that the virus more frequently targets for integration. (medicalnewstoday.com)
one includes structural genes encoding enzymes that directly participate in the formation of anthocyanins and other flavonoids, and the other comprises regulatory genes controlling the transcription of structural genes. (scirp.org)

Thus, AmpliSeq stands as a very sensitive and cost-effective approach for very large scale gene expression analysis and mRNA marker screening with high accuracy. (biomedcentral.com)

Homology search refers to the process of searching a sequence database for RNAs that are similar to already known RNA sequences. (wikipedia.org)
Any algorithm that is designed for homology search of nucleic acid sequences can be used, e.g. (wikipedia.org)
Members of this family show sequence homology with estrogen receptors but are incapable of being bound by estrogen. (nature.com)
Areas covered include sequence databases, pairwise and multiple sequence alignment, homology searches in sequence databases and subcellular localization prediction. (lu.se)

We demonstrate that deletion of ERRγ from DAergic neurons in adult mice was sufficient to cause a levodopa-responsive PD-like phenotype with reductions in mitochondrial gene expression and number, that partial deficiency of ERRγ hastens synuclein-mediated toxicity, and that ERRγ overexpression reduces inclusion load and delays synuclein-mediated cell loss. (nature.com)
Knockdown of TP53, which is a gene encompassed by the deleted region, in wild-type cells mimicked the chr17p13.1 deletion phenotype. (nih.gov)

By analyzing the expression levels of thousands of genes simultaneously, researchers can identify genes that are upregulated (higher expression) or downregulated (lower expression) in one condition compared to another. (pharmiweb.com)

The primers for full length cDNA and genomic DNA of were designed based on the deduced full cDNA sequence. (ap26113.com)

Variants unclassified, falling into the categories of missense, silent, and splice site variants where there is no functional evidence, as well as loss-of-function changes in new genes where there is no proven disease mechanism. (labcorp.com)
Natural systems also fail and pathologies result from chemical errors (e.g. sequence variants, environmental changes), structural errors, and impaired functions. (cecam.org)
Moreover, 5′- and 3′-UTR sequences of 4378 genes have been retrieved and alternatively spliced variants of 69 genes have been identified. (biomedcentral.com)

Strategies to do this have included the use of BLAST between two sequences or multiple sequences, exploited synteny via orthologous genes or used locality sensitive hashing in combination with sequence and structural features. (wikipedia.org)
These sequences were screened for orthologous gene clusters, which were concatenated into a supermatrix with thousands of aminoacid sites. (bl.uk)

The results showed that those 2 isolates were multi-drug resistant and the DNA sequencing analysis showed that the alignment of nucleic acid of DNA in isolates of mycobacteria other than M. tuberculosis was different from that of M. tuberculosis complex. (who.int)

Our comprehensive molecular profiling approach precisely analyzes DNA, RNA, and protein biomarkers, revealing the highest quality molecular blueprint for evidence-based selection of the most appropriate cancer therapy. (carislifesciences.com)

This alignment process enables the determination of the origin of each read, allowing us to associate it with specific genes or genomic regions. (pharmiweb.com)
The first ncRNA discovery method to use structural conservation was QRNA, which compared the probabilities of an alignment of two sequences based on either an RNA model or a model in which only the primary sequence conserved. (wikipedia.org)
An approach taken in RNAz involved computing statistics on an input multiple-sequence alignment. (wikipedia.org)
Using a simple local alignment to detect reads which contain the leader sequence, we were able to identify and quantify reads arising from canonical and non-canonical sgRNA. (nanoporetech.com)

The tool works with standard single letter nucleotide or protein codes including ambiguities and can match Prosite patterns in protein sequences. (nih.gov)

This chapter describes the methodology of detection, differentiation and classification of phytoplasma strains based on rp gene sequences. (usda.gov)

Benchmarking Single-Cell RNA Sequencing Protocols for Cell Atlas Projects. (crossref.org)
Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing. (nih.gov)
Using single-cell RNA-seq, we identify a myeloid-biased subset within the LT-HSC population (mLT-HSCs) that is much more common amongst aged LT-HSCs and is uniquely primed to respond to acute inflammatory challenge. (biorxiv.org)
Single-cell RNA-seq unmasked the existence of two subsets within the LT-HSC population that was apparent upon stimulation but not steady-state. (biorxiv.org)
Scientists at the University of California, Irvine have developed a new deep-learning framework that predicts gene regulation at the single-cell level. (ddw-online.com)

When studying gene expression, researchers often compare gene expression profiles between different biological samples or experimental conditions, such as healthy and diseased tissues, treated and untreated cells, or different developmental stages. (pharmiweb.com)
Differential Gene Expression analysis is a fundamental tool for identifying genes whose expression levels significantly differ between experimental conditions or biological samples. (pharmiweb.com)
Previous research has shown that HIV-1 integrates more frequently into human genes that are transcribed into RNA (the first step in gene expression), but the biological significance of this targeting has been unclear. (medicalnewstoday.com)

A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq. (crossref.org)

Some studies have proceeded to manual analysis of the predictions to find a details structural and functional prediction. (wikipedia.org)
6A RNA motif AbiF RNA motif ARRPOF RNA motif CyVA-1 RNA motif List of RNA structure prediction software Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (September 1997). (wikipedia.org)

The project aims to elucidate the impact of oxygen levels on the HIF-2α pathway and its target genes in the context of intestinal stemness and tissue renewal. (lu.se)
It will extend to the identification and characterization of HIF-2α target genes, with a specific emphasis on their role in modulating the fundamental processes associated with intestinal stemness and tissue renewal. (lu.se)

The rpoB gene target sequence was amplified using mutagenesis forward and reverse primers followed by HindIII enzyme digestion. (who.int)
The rpoB gene target sequence was amplified using mutagenesis forward and reverse primers followed by Hin dIII enzyme digestion. (who.int)

Mutations that change the nucleotide sequence, but preserve secondary structure are called covariation, and can provide evidence of conservation. (wikipedia.org)

The NanoString immune-oncology RNA targets panel was used to determine the transcriptional profile of active fibrotic areas within orbital sections. (frontiersin.org)
Real-time RT-PCR can also detect a single target in a very small concentration of DNA or RNA because it uses a fluorescent dye that binds to targets. (who.int)

An early-morning sputum sam- encoding the B-subunit of RNA of droplet particles aerosolized from ple was collected from 170 patients polymerase ( rpoB DNA, 342-360 persons infected with Mycobacterium into wide-mouthed plastic contain- base pairs) was the target region for tuberculosis or by consumption of milk ers. (who.int)

Both viruses have 3 RNA segments of North American wild bird lineage and 5 RNA segments that showed more than 99 percent similarity to the 2014 Eurasian H5N8 viruses. (cdc.gov)
The primer and probe sets in the HA gene were checked for mismatches, and phylogenetic analyses were performed to determine the molecular epidemiology of these viruses. (who.int)

We analyzed standard reference RNA samples and RNA samples obtained from human induced pluripotent stem cell derived cardiomyocytes (hiPSC-CMs). (biomedcentral.com)
Further analysis showed that wild type HIV-1 tends to integrate itself into or near genes affecting CD4+ T cell activation and metabolism more frequently than does the mutant strain. (medicalnewstoday.com)
In this paper, we report that HIV-1 prefers to integrate into o near genes that control such changes in CD4+ T cells so that the virus is better able to remain coupled to the CD4+ T cell status. (medicalnewstoday.com)

Design and test primers for this sequence using Primer-BLAST. (nih.gov)
RFLP analysis of amplicons obtained by group- or subgroup- specific rp gene-based primers is used for finer differentiation of phytoplasma strains within a given group or subgroup. (usda.gov)

But the millions of RNA fragments they sequenced couldn't be put into their proper order without supercomputing power. (psc.edu)

In the past decade, microarrays and RT-qPCR have been the primary tools for analyzing gene expression changes. (biomedcentral.com)

Once the reads are mapped, we quantify the expression level of each gene. (pharmiweb.com)
However, RNA-seq carries a few limitations, e.g., the requirement of a significant amount of input RNA and complications led by non-specific mapping of short reads. (biomedcentral.com)
Short sequence reads are generated by either single-end or paired-end sequencing. (biomedcentral.com)
Sequencing is performed on NovaSeq 6000, with read structure of 2 x 150 bp and aiming for 25M reads per sample. (lu.se)

The S gene is one of the structural genes of the virus which encodes for a protein that sits on the surface of the SARS CoV-2 virus. (who.int)

TFs regulate genes to ensure they're expressed in proper sequence and at the right time in cells. (ddw-online.com)

By comparing gene expression patterns during embryogenesis or tissue differentiation, we unravel the molecular events that shape organisms, advancing our understanding of developmental biology. (pharmiweb.com)
When analyzing four closely related hiPSC-CM lines, we show that both AmpliSeq and RNA-seq capture similar global gene expression patterns consistent with known sources of variations. (biomedcentral.com)
Finds sub-sequences or patterns in the sequence and highlights the matching regions. (nih.gov)
Finds sub-sequence or patterns in the sequence and highlights the matching region. (nih.gov)

Secondary glioblastomas typically have mutations in the IDH1 or IDH2 genes. (msdmanuals.com)
Some mutations in the S gene may lead to changes in the spike protein which result in inhibition of contact and entry of the virus into human cells, however in the case of the VOC, they contain mutations in the S gene that enhance the process of contact and entry into human cells, increasing transmissibility of the virus. (who.int)
Currently, manufacturers are focusing on and targeting assays to mutations in the S gene. (who.int)

This gene encodes an ubiquitously expressed, cytosolic form of TrxR, which functions as a homodimer containing FAD, and selenocysteine (Sec) at the active site. (cancerindex.org)

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