Sequences of genes gene expression profiling. Medical search. Frequent questions

In a Perspective article published in the November 2012 issue of Clinical Chemistry , Dr. Yiping Shen and his colleagues in Boston and Shanghai explored a whole exome and whole genome sequencing as clinical tests. (aacc.org)
Dr. Shen, in your Perspective article you discuss the transformative effect of next-gen sequencing-based genetic testing, particularly exome and whole genome-based test on the molecular diagnostic practice. (aacc.org)
In terms of clinical utility, next-gen sequencing will significantly improve the positive detection rate of tests, because many genes are tested simultaneously, as in the case of gene panel-based test, or all genes are interrogated in the case of whole exome or whole genome sequencing. (aacc.org)
Now, Doctor, you mentioned there were panels of test and whole exome and whole genome-based next-gen sequencing tests. (aacc.org)
Our master's or doctorate program in forest molecular genetics and biotechnology focuses on researching functional genomics, ecological genetics, gene expression profiling at the whole-genome scale, and genetic improvement of trees for sustainable biofuel. (mtu.edu)
Evaluation of A Single-reaction Method for Whole Genome Sequencing of Influenza A Virus using Next Generation Sequencing. (cdc.gov)
Whole genome sequencing revealed host adaptation-focused genomic plasticity of pathogenic Leptospira. (cdc.gov)
Detecting Staphylococcus aureus Virulence and Resistance Genes - a Comparison of Whole Genome Sequencing and DNA Microarray Technology. (cdc.gov)

Hara Levy, professor of physiology at the Human and Molecular Genetics Center of the Medical College of Wisconsin, studies cystic fibrosis (CF). Although CF is caused by mutations in the CF transmembrane conductance regulator gene, patients with identical genetic mutations in this gene can suffer variable levels of lung disease severity. (genengnews.com)
Researchers have identified several hundred variants (also called mutations) in the ATM gene that cause ataxia-telangiectasia. (medlineplus.gov)
Scope includes mutations and abnormal protein expression. (cancerindex.org)
In a recent study published in the Nature Cardiovascular Research , researchers used single-cell sequencing methods to examine the cell-intrinsic effects of hematopoietic stem cells with somatic mutations that result in clonal hematopoiesis of indeterminate potential (CHIP), in circulating cells from heart failure patients. (news-medical.net)
Mutations in the epigenetic regulator genes deoxyribonucleic acid (DNA) methyltransferase 3 alpha (DNMT3A) and tet methylcytosine dioxygenase 2 (TET2), driven by clonal hematopoiesis have been implicated in the activation of inflammatory cytokines. (news-medical.net)
The inflammatory effect of clonal hematopoiesis driver mutations has also been observed at the single-cell level in the overexpression of inflammatory genes. (news-medical.net)
Single-cell ribonucleic acid sequencing (scRNA-seq) can be used to identify the cells with clonal hematopoiesis driver mutations in the DNMT3A gene to understand their role in heart failure. (news-medical.net)
An adapted bioinformatics pipeline was then used to identify the cells with specific coding sequence mutations in the DNMT3A gene. (news-medical.net)
The variant allele frequency of mutations identified previously from whole blood samples using targeted DNA sequencing was used to assess the ratio of mutant to wild-type cells and evaluate the efficiency of the MutDetect-seq method. (news-medical.net)
The researchers also investigated how the DNMT3A mutations influenced subsets of T cells, despite the fact that T cells exhibited a substantially lower number of upregulated genes. (news-medical.net)
The findings reported that altered gene expression profiles were identified in monocytes, NK cells, and CD4 + T cells containing DNMT3A mutations. (news-medical.net)
Transposable elements have the unique ability to move within our DNA, causing or reversing mutations, altering genes, and even affecting the size of our genome. (lu.se)

Instead, they boost the expression of their target coding genes. (sciencedaily.com)

Smart-seq2 for sensitive full-length transcriptome profiling in single cells. (crossref.org)
A combination of de novo transcriptome assembly and DGE analysis was shown to be a powerful method for identifying genes encoding enzymes potentially involved in the biosynthesis of important secondary metabolites in a non-model plant. (biomedcentral.com)
The transcriptome data revealed differences in ion channel expression among the eight subtypes. (iasp-pain.org)
The transcriptome databases that result from such efforts are proving to be valuable toolboxes for other research groups to correlate gene expression profiles with neuronal function. (iasp-pain.org)
He and his colleagues' new paper focuses on the transcriptome profiles of diverse DRG neuronal subtypes. (iasp-pain.org)
This paper provides a resource of transcriptome profiles as well as distinct in vitro physiological properties of eight functionally and genetically defined somatosensory neuron subtypes," said co-first author Yang Zheng, who has since left the Ginty lab for a postdoc position in Elizabeth Hong's group at Caltech, Pasadena, US. (iasp-pain.org)
The authors then performed RNA sequencing, which resulted in unique transcriptome profiles for the eight DRG neuronal subtypes. (iasp-pain.org)

The two expression profile datasets were integrated and we found out coexpression of differentially expressed genes (DEGs) using bioinformatics methods. (hindawi.com)
The integrated advanced bioinformatics methods may provide a way to solve the disadvantages and identify the hub genes involved in TAD. (hindawi.com)
Traditional bioinformatics methods including gene ontology (GO) and pathways enrichment analyses of DEGs combined protein-protein interaction (PPI) network and cytohubber calculating software as well as Molecular Complex Detection (MCODE) analysis were used to analyze the key gene and pathway. (hindawi.com)
His interests include Bordetella molecular pathogenesis and gene expression bioinformatics. (medscape.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)
Using advanced sequencing technologies and a set of specialized bioinformatics tools, created by PhD student Raquel Garza, the researchers successfully detected the activity of LINE-1 elements and were able to dig into their functions and epigenetic profiles. (lu.se)
This approach helped us to address these highly repetitive sequences, usually masked in standard bioinformatics pipelines, allowing us to accurately measure LINE-1 expression in each cell type found in our samples," explains Raquel Garza, co-first author of the study. (lu.se)

With the development of the gene expression profile, comparisons of differentially expressed genes that participate in the regulation of pathophysiological conditions in pathological tissue and normal tissue were available and convenient, and mRNAs gene expression profiles have been carried out in many diseases including TAD [ 6 ]. (hindawi.com)
A new gene regulation and labeling platform dubbed "Casilio" can simultaneously execute distinct functions at multiple areas of the genome at the same time, expanding researchers' ability to study gene function and chromosome structure, Jackson Laboratory (JAX) researchers report. (jax.org)
Polyphenol supplementation do not prevent the regulation of genes related to lipid metabolism in human adipose tissue during overfeeding, but impact the angiogenesis pathways. (bvsalud.org)

Sequence analysis of the Daphnia pulex genome holds some surprises that could not have been anticipated from what was learned so far from other arthropod genomes. (biomedcentral.com)
Simple sequence repeats (SSRs) are highly variable features of all genomes. (biomedcentral.com)
The gene ontology and pathway enrichment of DEGs were performed by DAVID and Kyoto Encyclopedia of Genes and Genomes online analyses, respectively. (hindawi.com)
In the vast majority of eukaryotes, OXPHOS is operated by genes encoded by two genomes - most in the nuclear genome (nDNA) and 37 in the short circular mitochondrial genome (mtDNA). (biorxiv.org)
Sequence and annotate whole genomes of a variety of organisms using the Illumina MiSeq in the Genomics Lab . (rit.edu)
Sequencing Ebola and Marburg viruses genomes using microarrays. (cdc.gov)
As of August 10, 2000, draft sequence was available for 87% of the human genome (https://www.ncbi.nlm.nih.gov/genome/seq/), and at least 39 prokaryotic genomes, including those of more than a dozen human pathogens, had been completely sequenced https://www.tigr.org/tdb/mdb/mdbcomplete.html). (medscape.com)
Several independent high-throughput methods for differential gene expression (including SAGE and differential display) may enable function annotation of sequenced genomes [ 2 ] . (medscape.com)

This progenitor later duplicated to generate CDYL and CDYL2, two autosomal genes found in all extant mammals. (syr.edu)

EGFRIII changes the cell's internal signaling network, its uptake and use of nutrients, key elements of its gene-reading machinery known as transcription factors and its epigenetic landscape--the distribution of chemical tags that determines which parts of its genome are available for reading. (sciencedaily.com)
Using technology developed in Ren's laboratory, the researchers began by profiling EGFRvIII's specific epigenetic activation of DNA sequences known as "enhancers. (sciencedaily.com)
The researchers show that as EGFRvIII alters the epigenetic landscape of activated enhancers, it also noticeably boosts the expression of SOX9 and FOXG1. (sciencedaily.com)

dCas9 can be fused to protein tags or the effector domains of transcription factors (proteins that bind DNA in promoter regions and simultaneously bind other regulatory proteins via effector domains, which can activate or repress transcription and thereby affect gene expression) to develop customized DNA binding proteins. (jax.org)
Elegant experiments using heat-shock inducible expression of inhibitory proteins have further refined these observations to establish epistatic relationships, in which BMP acts upstream of Wnt, which in turn acts upstream of FGF during regeneration of the limb bud and tail ( Lin and Slack, 2008 ). (frontiersin.org)
A ubiquitously expressed sequence-specific transcriptional repressor that is normally the target of signaling by NOTCH PROTEINS. (harvard.edu)
To overcome this difficulty, the team adapted a method that some of the members had already been working on - one that searches the "translatome" as opposed to the genome - to find the proteins involved in communicating changes arising from master regulator genes. (medicalnewstoday.com)
The team believes conventional gene expression profiling would not have been able to identify the two proteins as key protective factors. (medicalnewstoday.com)
Evaluation of phenotypic markers and expression of matrisome genes and proteins were evaluated by RNA-sequencing, mass spectrometry and immunohistochemistry. (lu.se)
COPD-derived AECs proliferated as healthy AECs with few differences in gene and protein expression while retaining increased expression of disease marker HLA-A. The AEC2 expressed basement membrane components and a complex set of interstitial ECM proteins. (lu.se)

Molecular phenotyping through shallow 3′‐end RNA‐sequencing workflows is increasingly applied in the context of large‐scale chemical or genetic perturbation screens to study disease biology or support drug discovery. (researchgate.net)
Many diseases involve variations in gene expression rather than genetic sequence. (jax.org)
Usually, when scientists want to look for molecular changes that affect disease, they use genetic sequencing to create a profile of the variations in gene expression. (medicalnewstoday.com)
Next-generation sequencing has revolutionized the way researchers interrogate the genetic causes of rare single gene disorders. (aacc.org)
Johan Jakobsson, a professor at Lund University and research group leader at Lund Stem Cell Center, explains, "LINE-1 retrotransposons are a rich source of genetic sequences that we suspect have shaped the evolution of the human brain, and we now have the tools to explore their role in brain development. (lu.se)
To better understand how these repetitive genetic sequences influence brain development, researchers analyzed both fetal and adult brain tissue samples. (lu.se)

Researchers around the globe are harnessing gene-expression profiling studies in a variety of clinical settings to prevent and treat a number of diseases. (genengnews.com)
To find out if this potentially therapeutic effect might be induced by a drug, the researchers examined the genes whose expression is controlled by SOX9 and FOXG1. (sciencedaily.com)
The widely used CRISPR-Cas9 gene-editing technology has enabled researchers to alter genome sequence or gene expression with great precision, says JAX Assistant Professor Albert Cheng, Ph.D., first and co-corresponding author of a paper published in Cell Research . (jax.org)
For example, it can be fused to domains that activate or repress gene expression, allowing researchers to increase or decrease gene expression at will without changing the actual sequence. (jax.org)
In the present study, the researchers used Oxford Nanopore long-read sequencing to conduct scRNA-seq to detect DNMT3A mutant cells among circulating immune cells from patients with heart failure. (news-medical.net)
Led by David Ginty, Harvard Medical School, Boston, US, researchers performed RNA sequencing of eight well-known, physiologically distinct subtypes of DRG neurons in mice. (iasp-pain.org)
Guided by these findings, the researchers performed electrophysiological recordings in dissociated mouse DRG neurons and found that the expression of different potassium (Kv) channels shaped specific firing patterns of the different DRG subtypes. (iasp-pain.org)
The researchers also observed uniquely enriched genes in the different subtypes. (iasp-pain.org)

In this genomic age, one possible answer is that a cell can be defined by a profile of all of the genes it is expressing. (genengnews.com)
In fact, UMIs (unique molecular indices) entirely remove PCR bias in RNAseq counting (see figure Unmatched uniformity (>97% of assays are within 20% of median molecular tag counts) A 917-plex gene panel was used to prepare a library from 10 ng of NA12878 reference DNA. All assays were designed to be intra-exon, and are thus single copy on genomic DNA. This allows an estimation of the uniformity of amplicon performance in the library preparation step (e.g., every unique tag equals one captured copy). In terms of raw assay performance, 97.5% of assays are within 20% of mean/median molecular tag counts. For cataloged panels, any assay below 20% is redesigned and replaced. Molecular barcodes entirely remove this variation in RNAseq counting. "> Unmatched uniformity - 97% of assays are within 20% of median molecular tag counts ). (qiagen.com)
The expression profile of CIS cells was compared with microdissected gonocytes, oogonia, and cultured embryonic stem cells with and without genomic aberrations. (ku.dk)
With this feature, Casilio can now conduct different functions at different genomic sites--e.g., upregulating one set of genes while repressing another set. (jax.org)
Single-cell sequencing is a high-throughput technique that enables detection of genomic, transcriptomic, and epigenomic information at the individual cell level, offering significant advantages in detecting cellular heterogeneity, precise cell classification, and identifying rare subpopulations. (frontiersin.org)
This bi-genomic division is accompanied by profoundly different transcription regulatory system: whereas nDNA-encoded genes are transcribed individually by RNA polymerase 2 and the general nuclear transcription machinery, mtDNA transcription is long known to be regulated mainly by a dedicated RNA polymerase (POLRMT) and mtDNA-specific transcription factors (TFAM and TFB2) ( Shutt and Shadel 2010 ). (biorxiv.org)
All 10x Genomic services include a final report containing a Cell Ranger web summary file for quality control (QC) of the sequencing outcome, as well as FASTQ, BAM, gene count matrix containing all single cells or nuclei passing QC, basic visualization and clustering. (lu.se)
Complete genomic sequences of microbial pathogens and hosts offer sophisticated new strategies for studying host-pathogen interactions. (medscape.com)
Genomic sequencing will provide the data needed to unravel the complexities of the host-pathogen interaction. (medscape.com)

But even so, gene-expression profiling can be enormously valuable in finding biomarkers, highlighting druggable targets, revealing the metabolic pathways important in a biological process, and identifying subsets of a population that might respond to a certain therapy or be more susceptible to a certain clinical outcome. (genengnews.com)
Thoracic aortic dissection (TAD) is a catastrophic disease worldwide, but the pathogenic genes and pathways are largely unclear. (hindawi.com)
This study aims at integrating two gene expression profile datasets and verifying hub genes and pathways involved in TAD as well as exploring potential molecular mechanisms. (hindawi.com)
What pathways are this gene/protein implicaed in? (cancerindex.org)
The aim of this study was to identify the genes and pathways underlying the growth of the mouse sclera during postnatal development. (molvis.org)
The project will identify key genes, pathways, and biological processes that are differentially regulated in response to hypoxia. (lu.se)

Microarray technology and next-generation sequencing methods have enabled us to see all of the genes expressed by a given cell type at any particular time, or under a particular circumstance. (genengnews.com)
In the present study, we use mRNA microarray to acquire differential expression profiles in human TAD tissues and non-TAD tissues. (hindawi.com)
Then we downloaded another microarray dataset GSE52093 [ 9 ] and screened out the coexpression of differentially expressed genes (DEGs) between TAD patients and non-TAD patients. (hindawi.com)

The aim of this study was to acquire a better understanding of PRRS disease by comparing gene expression changes that occur in tracheobronchial lymph nodes (TBLN) of pigs infected with either PRRSV, porcine circovirus type 2 (PCV2), or swine influenza A virus (IAV). (usda.gov)

One-third of the 471 genes predicted to encode transcription factors are differentially expressed during sexual development of S. commune . (nature.com)
Stochastic models of gene transcription with upstream drives: exact solution and sample path characterization. (crossref.org)
Most of the enhancers activated by EGFRvIII bore signature DNA sequences that are bound by dozens of transcription factors--regulators of gene expression--expressed at high levels in GBM. (sciencedaily.com)
This protein controls the expression and activity of yet another transcription factor, cMyc, which plays a central role in driving the aberrant metabolism and growth of GBM cells. (sciencedaily.com)
This pausing site correlated with the presence of a bacterial pausing sequence motif, yet the transcription pausing index varied quantitatively among the cell lines. (biorxiv.org)
Analysis of non-human organisms enabled de novo mtDNA sequence assembly, as well as detection of previously unknown mtDNA TIS, pausing, and transcription termination sites with unprecedented accuracy. (biorxiv.org)
Our approach paves the path towards in vivo, quantitative, reference sequence-free analysis of mtDNA transcription in all eukaryotes. (biorxiv.org)
However, as mtDNA transcription was mostly studied in vitro, little remains known about the mode and tempo of in vivo OXPHOS genes' transcription residing on the mtDNA. (biorxiv.org)
These obstacles interfered with comparative in-vivo investigation of mtDNA transcription in diverse conditions, and hampered expanding the study of mtDNA nascent transcripts to organisms lacking an mtDNA reference sequence. (biorxiv.org)
thus, genomewide transcription profiling seems particularly appropriate for the study of this process. (medscape.com)

While these workflows enable accurate quantification of the most abundant genes, they are less effective for applications that requir. (researchgate.net)
Innovative UMIs (unique molecular indices) eliminate PCR duplication and amplification bias to deliver the most accurate results (see figure Unbiased and accurate gene quantification (A) Different amounts (20 ng, 5 ng or 1.25 ng) of universal reference RNA were used to determine expression levels of three genes (BNIP1, CTNND2 and DAPK1) using targeted RNAseq. QIAseq digital RNA sequencing method (A; molecular barcode counts) showed accurate quantification of all three genes corresponding to different RNA input, whereas traditional targeted RNAseq (B; read counts) revealed PCR duplication limitation and yielded inaccurate quantification. "> Unbiased and accurate gene quantification ). (qiagen.com)

0.05), and these candidate genes could be used as potential diagnostic biomarkers and therapeutic targets of TAD. (hindawi.com)
How Reliable Are Gene Expression-Based and Immunohistochemical Biomarkers Assessed on a Core-Needle Biopsy? (lu.se)

The limitations and possibilities associated with expression profiling in intracellular amastigotes and promastigotes were assessed through a series of comparative experiments in which technical and biological parameters were scrutinized. (cambridge.org)
On the biological level, we demonstrate that gene expression levels fluctuate during in vitro development of both intracellular amastigotes and promastigotes. (cambridge.org)
We chose to use expression-curves rather than single, specific, time-point measurements to capture this biological variation. (cambridge.org)
Analysis of gene ontology using the best matched Arabidopsis locus showed that the Thellungiella unigenes represented all biological processes and all cellular components, with the highest number of sequences attributed to the chloroplast and mitochondria. (mcmaster.ca)

The peroxisome proliferator- activated receptor gamma coactivator 1-alpha ( Ppargc1a ) gene was found to be involved in the networks generated using Ingenuity Pathway Studio (IPA) from the differentially expressed transcript cluster lists of week 2 versus 1, week 3 versus 2, week 6 versus 3, and week 8 versus 6. (molvis.org)

his statistical challenge in this study was to correlate gene expression over multiple time points, in multiple patients, with multiple and different clinical presentations. (genengnews.com)
We have validated this technology and plan to use it to correlate gene-expression status to disease status and pulmonary function," Dr. Levy said. (genengnews.com)

Targeted RNA sequencing using UMIs is optimized to deliver highly reliable quantification down to ~100 copies of an RNA target in 25 ng total RNA (see figure Positive results with as little as 0.2 copies of RNA per cell ERCC standards, at 86 to 705,500 copies, spiked into universal reference RNA sample and enriched using 384-plex QIASeq Targeted RNA Panel in three technical replicates. (A) Sensitivity measurement. Under standard conditions (20 ng RNA input, 0.5 million MiSeq reads), ≥~100 copies of ERCC transcripts were reliability detected, which is the equivalent of ~0.2 copies per cell. (B) Precision measurement. At >10 barcodes/gene, CV was less than 5% for all targets, indicating high technical reproducibility. This corresponds to ~100 copies target RNA in the sample. "> Positive results with as little as 0.2 copies of RNA per cell ). (qiagen.com)

The Wnt genes encode secreted glycoprotein ligands that regulate a wide range of developmental processes, including axis elongation and segmentation. (biomedcentral.com)
Some of the ESTs in this collection have low sequence similarity with those in Genbank suggesting that they may encode functions that may contribute to Thellungiella's high degree of stress tolerance when compared with Arabidopsis. (mcmaster.ca)

Although high-throughput sequencing technologies have provided many diverse expressed genes, different expression profiles in TAD provided various results and no reliable results have been identified up to now [ 6 - 8 ]. (hindawi.com)
Intracellular amastigote protocols need further refinement, but we describe a first generation tool for high-throughput comparative molecular characterization of patients' isolates, based on the changing expression profiles of promastigotes during in vitro differentiation. (cambridge.org)
High-throughput methods for assessment of function are clearly required if this wealth of primary sequence information is to be used. (medscape.com)

Search the gene expression profiles from curated DataSets in the Gene Expression Omnibus (GEO) repository. (cancerindex.org)

There are master regulator genes that act as control dials, turning other genes on and off, or up and down. (medicalnewstoday.com)
They then compared the interactions of regulator genes with their target genes in the mouse brain, and used this map to interpret the changes they found between normal mice and those with Parkinson's-like symptoms. (medicalnewstoday.com)

The unique combination of our proprietary primer design algorithm and rigorous testing of every primer assay guarantees high specificity and accurate results (see figure Proprietary primer design delivers gene-specific amplicons (>97% specificity) Sequencing libraries were prepared using 1.25, 5 or 20 ng universal reference RNA and QIAseq Targeted RNA Panels, ranging from 12-plex to 1000-plex. Sequencing was performed on the Illumina MiSeq, dedicating 1 million reads per sample. Specificity is calculated as percent of trimmed and mapped reads that map to intended targets. "> Proprietary primer design delivers gene-specific amplicons - 97% specificity ). (qiagen.com)

Previous classification efforts using similar methods have taken unbiased approaches to determine gene expression differences in sensory neuron populations. (iasp-pain.org)

This thematic series of companion papers constitutes the initial exploration of the genome biology of the waterflea (Daphnia) building on the first complete crustacean genome sequence. (biomedcentral.com)

Gene expression profiling is increasingly used in the field of infectious diseases for characterization of host, pathogen and the nature of their interaction. (cambridge.org)
Gene expression of eye diseases should be studied as early as postnatal weeks 1-2 to ensure that any changes in gene expression pattern during disease development are detected. (molvis.org)

We show that the progenitor of this gene family arose de novo in the mammalian ancestor via domain accretion. (syr.edu)

In this context, we have started an EST project on this species sequencing 2743, 2907, and 3014 clones from expression libraries of ovary, testis and liver, respectively, and 1499 clones from an ovary normalized library. (nih.gov)
other 127 genes not found in the expression libraries were obtained from the ovary normalized library. (nih.gov)
QIAseq Targeted RNA Indices are for indexing samples for targeted RNA sequencing and primers necessary for sequencing RNA libraries generated by QIAseq Targeted RNA Panels. (qiagen.com)
We produced 6578 ESTs, which represented 3628 unique genes (unigenes), from cDNA libraries of cold-, drought-, and salinity-stressed plants from the Yukon ecotype of Thellungiella. (mcmaster.ca)
Total RNA was pooled for each group and time-point (1, 3, 6, and 14 DPI) to make 16 libraries, for analysis by Digital Gene Expression Tag Profiling (DGETP). (usda.gov)

At the "Critical Assessment of Massive Data Analysis" conference held recently in Vienna, John Storey, from the Lewis-Sigler Institute for Integrative Genomics at Princeton University, gave a talk on dissecting the inflammatory complications in critically injured patients by within-patient gene-expression changes. (genengnews.com)
IL-17 induced NOTCH1 activation in oligodendrocyte progenitor cells enhances proliferation and inflammatory gene expression. (harvard.edu)

These profiles measure mRNA, not protein, so further studies are needed to corroborate that any detected changes in gene expression actually have meaning in the life of the cell. (genengnews.com)
Neofunctionalization is suggested by the rapid evolution of the CDY protein sequence. (syr.edu)
Thus, the CDY-related family offers an instructive example of how duplicated genes undergo functional diversification in both expression profile and protein sequence. (syr.edu)
The ATM gene provides instructions for making a protein that is located primarily in the nucleus of cells, where it helps control the rate at which cells grow and divide. (medlineplus.gov)
Instead of activating DNA repair, the altered ATM protein allows variants to accumulate in other genes, which may cause cells to grow and divide in an uncontrolled way. (medlineplus.gov)
One of those genes turns out to be a protein named BRD4. (sciencedaily.com)
The new system, called Casilio, combines an altered version of CRISPR (CRISPR-dCas9) with the Pumilio RNA-binding protein system to enable much broader gene manipulation power. (jax.org)
The Pumilio RNA-binding protein system allows the design of a simple nucleotide code that recognizes an eight-nucleotide RNA sequence, called a PUF domain. (jax.org)
The protein encoded by this gene is a receptor for C-C type chemokines. (cancerindex.org)
What does this gene/protein do? (cancerindex.org)
Immunoglobulin J Recombination Signal Sequence-Binding Protein" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus, MeSH (Medical Subject Headings) . (harvard.edu)
This graph shows the total number of publications written about "Immunoglobulin J Recombination Signal Sequence-Binding Protein" by people in Harvard Catalyst Profiles by year, and whether "Immunoglobulin J Recombination Signal Sequence-Binding Protein" was a major or minor topic of these publication. (harvard.edu)
Below are the most recent publications written about "Immunoglobulin J Recombination Signal Sequence-Binding Protein" by people in Profiles. (harvard.edu)

Here, we characterize the CDY-related mammalian gene family, focusing on three aspects of its evolution: gene copy number, tissue expression profile and amino acid sequence. (syr.edu)
Among the unigenes, 94.1% encoded products that were most similar in amino acid sequence to Arabidopsis and 1.5% had no match with a member of the family Brassicaceae. (mcmaster.ca)

People with this disorder have variants in both copies of the ATM gene in each cell. (medlineplus.gov)
In addition, ATM gene variants can allow cells to die inappropriately, particularly affecting cells in a part of the brain involved in coordinating movements (the cerebellum). (medlineplus.gov)
In particular, some studies have shown that cancers of the breast, stomach, bladder, pancreas, lung, and ovaries occur more frequently in ATM gene variant carriers than in people who do not carry these variants. (medlineplus.gov)
Additional research is needed to clarify which other types of cancer, if any, are associated with ATM gene variants. (medlineplus.gov)
Hall J. The Ataxia-telangiectasia mutated gene and breast cancer: gene expression profiles and sequence variants. (medlineplus.gov)
it has the possibility of detecting causal variants in genes that are not previously known to be associated with the disease. (aacc.org)

To identify novel molecular regulations, we performed a transcriptomic analysis based on the comparison of circulating MCL cells (n=77) versus MCL lymph nodes (n=107) together with RNA sequencing of malignant (n=8) versus normal B-cell (n=6) samples. (haematologica.org)
But gene expression profiling is not a very useful tool when you are trying to identify the molecular changes that occur in a particular type of cell and focus on the really important ones. (medicalnewstoday.com)
Identify key genes in root development of poplar trees. (mtu.edu)
By monitoring microbial gene expression, one can predict the functions of uncharacterized genes, probe the physiologic adaptations made under various environmental conditions, identify virulence-associated genes, and test the effects of drugs. (medscape.com)
Host profiling might also identify gene expression signatures unique for each pathogen, thus providing a novel tool for diagnosis, prognosis, and clinical management of infectious disease. (medscape.com)
By understanding the molecular details of this interaction, we can identify virulence-associated microbial genes and host-defense strategies and characterize the cues to which they respond and mechanisms by which they are regulated. (medscape.com)

The detection of circular RNA molecules (circRNAs) is typically based on short-read RNA sequencing data processed using computational tools. (researchgate.net)

Parts of the gene expression analysis market continue to develop in a somewhat predictable manner, whereas other segments are becoming increasingly complex and volatile. (kaloramainformation.com)
The pace of gene discovery rapidly accelerates, but its potential for explaining life at the molecular level remains largely unrealized because our understanding of gene function lags increasingly far behind. (medscape.com)

The resulting cDNA was fragmented, labeled with biotin, and hybridized to a Mouse Gene 1.0 ST Array. (molvis.org)

Of the B. pertussis isolates analyzed, 90.6% (317/350) contained the ptx P3- ptx A1- prn 2- fim 3-2 allelic profile. (cdc.gov)

Additionally, 193 cytochrome P450 (CYP450), 280 methyltransferase and 144 isomerase genes were identified, that are potential candidates for enzymes involved in RIN and IRN synthesis. (biomedcentral.com)

Theories predict that the long-term survival of duplicated genes requires their functional diversification, which can be accomplished by either subfunctionalization (the partitioning of ancestral functions among duplicates) or neofunctionalization (the acquisition of novel function). (syr.edu)
The novelty in the new study is that the authors focus on how gene expression variability could determine functional differences in well-known DRG neuronal populations, in particular with regard to the cells' electrophysiological properties. (iasp-pain.org)

Long non-coding RNAs (lncRNAs) can exhibit cell-type and cancer-type specific expression profiles, making them highly attractive as therapeutic targets. (researchgate.net)

Sequences for all of the known enzymes involved in TIAs synthesis were identified. (biomedcentral.com)

Established in 2019, CTG offers a dynamic, state-of-the-art platform for single-cell sequencing to users. (lu.se)

Benchmarking Single-Cell RNA Sequencing Protocols for Cell Atlas Projects. (crossref.org)
Overall, single-cell sequencing has immense potential in promoting early diagnosis, guiding personalized treatment, and preventing complications of pancreatic cancer. (frontiersin.org)
Emerging single-cell sequencing technologies will undoubtedly enhance our understanding of the complex biology of pancreatic cancer and pave the way for new directions in its clinical diagnosis and treatment. (frontiersin.org)
Applications of single-cell sequencing technology in the diagnosis and treatment of pancreatic cancer. (frontiersin.org)
Single-cell sequencing technology transforms the landscape of pancreatic cancer diagnosis and therapy. (frontiersin.org)
This method combines the long-read sequences obtained using the Oxford Nanopore technology with short-read sequences from single-cell gene expression profiles. (news-medical.net)

QIAseq Targeted RNA Panels have been developed as a Sample to Insight solution for quantitative gene expression profiling using RNAseq. (qiagen.com)
Although such studies provided insights into the location of mtDNA promoters in the mentioned organisms, the techniques used were typically low throughput, were only semi quantitative, challenging to apply and require prior sequence knowledge. (biorxiv.org)

Pan-cancer RNA sequencing data revealed broad expression of the SAMMSON lncRNA in uveal melanoma (UM), the most common primary intraocular malignancy in adults. (researchgate.net)

Many patients can undergo DNA testing now with next-gen sequencing while they were not appropriate for conventional sequencing, because doctors did not have a reasonable clinical diagnosis for them and we did not know which gene to test for for Sanger sequencing. (aacc.org)

We will combine our mRNAs expression profile (6 TAD tissues versus 6 non-TAD tissues) and GSE52093 downloaded from the Gene Expression Omnibus (GEO) database. (hindawi.com)

So next-gen can now offer answers for patients without a clear clinical diagnosis, and that has opened doors for more patients that were previously not suitable for DNA test sequencing. (aacc.org)

The data underwent standard filtering to generate a list of sequence tag raw counts that were then analyzed using multidimensional and differential expression statistical tests. (usda.gov)

this is particularly a delicate task for intracellular amastigotes and for specific 'sensory' genes. (cambridge.org)
Peripheral sensory neurons are classified based on characteristics such as anatomical structure, physiological responses to stimuli, and expression of gene markers. (iasp-pain.org)

Using mRNA from total blood leukocytes, they found that a full one-quarter of the human genome exhibits changes in expression levels during the early stages of post-trauma (40-80 hours post-trauma). (genengnews.com)
In general, mRNA levels of ECM and collagen genes have been found to be downregulated in both the adult mouse sclera [ 6 ] and cornea [ 7 ] when compared with samples from an earlier developmental stage. (molvis.org)

Comparative analyses of its 38.5-megabase genome, which encodes 13,210 predicted genes, reveal the species's unique wood-degrading machinery. (nature.com)
The purpose of this study was to develop a robust, standardized method for comparative expression profiling and molecular characterization of Leishmania donovani clinical isolates. (cambridge.org)

It took me a long time to appreciate just how extensively population heterogeneity and other unmeasured sources of variation introduce unwanted and systematic biases into the statistical analysis of gene-expression studies," Dr. Storey noted. (genengnews.com)
This integrated analysis led to the discovery of microenvironment-dependent and tumor-specific secretion of interleukin-32 beta (IL32β), whose expression was confirmed in situ within MCL lymph nodes by multiplex immunohistochemistry. (haematologica.org)
Highly enriched cell populations were obtained and subjected to gene expression analysis. (ku.dk)
Next-gen sequencing has also brought many changes in the way we do assay validation in the lab, the way we do data analysis, data interpretation, and the way we report the finding to the referring physicians. (aacc.org)

Mitochondrial DNA (mtDNA) genes are long known to be co-transcribed in polycistrones, yet it remains impossible to study nascent mtDNA transcripts quantitatively in vivo using existing tools. (biorxiv.org)
The study identified and compared gene expression changes in the TBLN of pigs following infection by PRRSV, PCV2, IAV, or sham inoculation. (usda.gov)

Could you please elaborate on what are the fundamental differences between conventional Sanger sequencing-based test and next-gen sequencing-based test? (aacc.org)

DNA microarrays exploit primary sequence data to measure transcript levels and detect sequence polymorphisms, for every gene, simultaneously. (medscape.com)
Similarly, by using host gene microarrays, one can explore host response at the level of gene expression and provide a molecular description of the events that follow infection. (medscape.com)

A gene expression array showed significantly increased expression of CCR3, a receptor of eotaxin-3, in PC-3. (cancerindex.org)

We investigated the homing-related chemokine expression levels of MSCs treated with a prostate cancer cell line (PC-3) -conditioned medium. (cancerindex.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)

More recently, next-gen sequencing has been rapidly moving into the clinical diagnostic arena and transforming the practice of molecular diagnostic testing. (aacc.org)
For example, one gene, Calbindin, was upregulated in Aβ rapidly adapting (RA)-LTMRs and could be used as a novel molecular marker of these touch receptors. (iasp-pain.org)

Such profiles can then be compared to those of other cell types, or the same cell type at other times or under other circumstances. (genengnews.com)
Research suggests that people who carry one alterd copy of the ATM gene in each cell may have an increased risk of developing several other types of cancer. (medlineplus.gov)
Unique expression patterns for these developmentally very related cell types revealed that CIS cells were very similar to gonocytes because only five genes distinguished these two cell types. (ku.dk)
But most cell functions are more complex than that-being regulated by multiple genes. (jax.org)
Working with JAX Distinguished Visiting Professor Haoyi Wang, Ph.D., and other colleagues, Cheng was looking for a way to regulate multiple genes in the mouse and other cell and animal models. (jax.org)
Similar DNMT3A silencing was also performed in natural killer (NK) cell lines to determine the role of the DNMT3A gene in NK cells. (news-medical.net)
To this end we used deep sequencing (GRO-seq and PRO-seq) and analyzed nascent mtDNA-encoded RNA transcripts in diverse human cell lines and metazoan organisms. (biorxiv.org)
A recent explosion of RNA sequencing approaches in the pain field has led to a new understanding of the molecular diversity of cell populations in the somatosensory system, from the skin to the brain. (iasp-pain.org)
Anaplastic large cell lymphomas (ALCLs) are distinguished from other lymphomas by their anaplastic cytology and constant membrane expression of the CD30 antigen (an activation marker for B or T cells). (medscape.com)

This advantage enables more efficient gene modulation and labeling of chromosomal loci in live cells. (jax.org)
This gene and seven other chemokine receptor genes form a chemokine receptor gene cluster on the chromosomal region 3p21. (cancerindex.org)

Anatomy24

Organisms12

Diseases27

Chemicals and Drugs53

Analytical, Diagnostic and Therapeutic Techniques and Equipment55

Phenomena and Processes82

Disciplines and Occupations6

Technology, Industry, Agriculture2

Information Science10

Health Care10

Whole genome8

Mutations12

Target codin1

Transcriptome7

Bioinformatics7

Regulation3

Genomes8

Autosomal1

Epigenetic3

Proteins7

Genetic6

Researchers8

Genomic9

Pathways6

Microarray3

Influenza A vir1

Transcription10

Accurate quantification2

Biomarkers2

Biological4

Differentially expressed1

Correlate gene-expression2

UMIs1

Encode2

High-throughput3

Datasets1

Regulator2

Illumina1

Methods1

Genome sequence1

Diseases2

Novo1

Libraries5

Inflammatory2

Protein13

Amino acid seq2

Variants6

Identify6

Computational1

Increasingly2

CDNA1

Allelic1

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Functional2

Therapeutic targets1

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20191

Single-cell6

Quantitative2

Data revealed1

Undergo1

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Sensory2

MRNA2

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Significantly increased1

Levels2

Rapidly2

Cell9

Chromosomal2