METHODS: We sorted a SCC into CD133- and CD133+ subpopulations and then examined both by copy number analysis (CNA) and whole genome and transcriptome sequencing. (ca.gov)
The study, Advanced Never Smoker Adenocarcinoma of the Lung: Report of paired normal and tumor whole genome and transcriptome sequencing, will be presented at the conference today, July 6. (tgen.org)
Analyses3
Our process includes high-throughput spatial transcriptome profiling followed by spatial gene and pathway analyses. (nature.com)
Then, we will comprehensively characterise pathways that mediate impacts of these genes on both the human macrophage and the intracellular Mtb bacilli using dual transcriptome analyses and high-throughput microscopy assays. (europa.eu)
The power inherent in publicly available data can be demonstrated via comparative transcriptome analyses. (biorxiv.org)
Spatial7
We first demonstrate the feasibility of the technique by generating spatial transcriptome profiles from model angiosperms and gymnosperms microsections. (nature.com)
In this study, we established RAINBOW-seq and profiled the transcriptome of Escherichia coli biofilm communities with high spatial resolution and high gene coverage. (nature.com)
PALO ALTO, Calif.--( BUSINESS WIRE )--Curio Bioscience today announced an expansion of its Curio Seeker product line with a larger format to deliver a more complete view of large biological structures, including human tissue samples, providing one hundred times more data compared to other whole transcriptome spatial analysis solutions. (businesswire.com)
Curio Seeker is a whole transcriptome analysis reagent kit solution that provides the ability to generate molecular images of tissue sections by capturing and mapping the spatial location of RNA molecules using next-generation sequencers. (businesswire.com)
It brings high resolution, whole transcriptome, spatial biology further into the scale of human biology, expanding a researcher's ability to see larger regions of interest in a tissue sample," said Fei Chen. (businesswire.com)
Here, we combine spatial transcriptomics and scRNA-Seq datasets to define the transcriptome of tumor-proximal and tumor-distal cancer-associated fibroblasts (CAFs) and link this to clinical outcome. (elifesciences.org)
Gene expression6
The first seminal study to mention and investigate the transcriptome of an organism was published in 1997 and it described 60,633 transcripts expressed in S. cerevisiae using serial analysis of gene expression (SAGE). (wikipedia.org)
This week, Last maintained that Affy is committed to offering the "best, cutting-edge gene-expression tools available," and said that the GeneChip Human Transcriptome and Splice Junction array "is the next generation of these tools, offering an even better view of the transcriptome. (genomeweb.com)
In the current study, we collected high-throughput gene expression data related to human lung epithelial cells infected with SARS-CoV-2 or other respiratory viruses (SARS, H1N1, rhinovirus, avian influenza, and Dhori) and compared the effect of these viruses on the human transcriptome. (biorxiv.org)
Meta-Analysis of Heat-Stressed Transcriptomes Using the Public Gene Expression Database from Human and Mouse Samples. (bvsalud.org)
Analysis12
Cell type-specific transcriptome analysis is an essential tool for understanding biological processes in which diverse types of cells are involved. (nih.gov)
Although cell isolation methods such as fluorescence-activated cell sorting (FACS) in combination with transcriptome analysis have widely been used so far, their time-consuming and harsh procedures limit their applications. (nih.gov)
Analyze 3' RNA-seq data with ease using the GeneGlobe-integrated RNA-seq Analysis Portal - an intuitive, web-based data analysis solution created for biologists and included with QIAseq UPX 3' Transcriptome Kits. (qiagen.com)
Transcriptome analysis is a powerful tool that enables a deep understanding of complicated physiological pathways, including immune responses. (frontiersin.org)
RNA sequencing (RNA-Seq)-based transcriptome analysis and various bioinformatics tools have also been used to study non-model animals, including aquaculture species for which reference genomes are not available. (frontiersin.org)
The CORALL™ Total RNA-Seq V2 Library Prep kits from Lexogen enables easy and cost-efficient generation of UMI labelled, stranded libraries for whole transcriptome analysis using Illumina® next generation sequencing (NGS) platforms. (bioscience.co.uk)
Transcriptome analysis reveals overlap in fusion genes in a phase I clinical cohort of TNBC and HGSOC patients treated with buparlisib and olaparib. (broadinstitute.org)
This study conducted a comparative analysis of the T. wilfordii transcriptome derived from its root and leaf tissues. (techscience.com)
Analysis of fat body transcriptome from the adult tsetse fly, Glossina morsitans morsitans. (umd.edu)
After 12 hours and 36 hours incubation, the cell pellets were collected for transcriptome analysis on the GeneChip HTA 2.0 array (Affymetrix platform) and the bioinformatic software were used for results evaluation. (aacc.org)
The PCA analysis results showed that after 12 and 36 hours infection, there are significant different transcriptome profiling pattern between pdmH1N1 and H7N9. (aacc.org)
Results In the present study, we performed a systematic transcriptome analysis based on the deep RNA sequencing of ten asthmatic children before and after desensitization treatment. (researchsquare.com)
Transcripts7
The transcriptome is the set of all RNA transcripts, including coding and non-coding, in an individual or a population of cells. (wikipedia.org)
The transcriptome encompasses all the ribonucleic acid (RNA) transcripts present in a given organism or experimental sample. (wikipedia.org)
Circular and apparently trans-spliced RNAs have recently been reported as abundant types of transcripts in mammalian transcriptome data. (nih.gov)
These gene readouts are called transcripts, and a transcriptome is a collection of all the gene readouts present in a cell. (genome.gov)
The gene models, transcripts and other derived data were generated from a comprehensive transcriptome survey of samples taken from five embryonic stages, adult female, and adult male samples. (figshare.com)
In summary, our results demonstrate that L1-derived transcripts provide a previously undescribed layer of primate- and human-specific transcriptome complexity that contributes to the functional diversification of the human brain. (lu.se)
Comparison of the leukocyte transcriptomes of these two females to the transcriptome of all other females identified several misregulated transcripts on gestation D55 and D105 with LOC783838 and PCDH1 being misregulated at both time-points. (researchsquare.com)
Tissues4
Consequently, by analyzing the entire collection of RNA sequences in a cell (the transcriptome) researchers can determine when and where each gene is turned on or off in the cells and tissues of an organism. (genome.gov)
This method has successfully identified the cell type-specific transcriptome in three different tissues: endothelial cells in brain, epithelial cells in intestine and adipocytes in white adipose tissue. (nih.gov)
The set of mRNA sequences found in a cell is known as its transcriptome, and it differs between tissues and with time. (umd.edu)
As a step toward functional annotation of genes required for floral initiation and development within the Eucalyptus genome, we used short read sequencing to analyze transcriptomes of floral buds from early and late developmental stages, and compared these with transcriptomes of diverse vegetative tissues, including leaves, roots, and stems. (oregonstate.edu)
Analyze1
Here, we analyze the transcriptome of CSC and non-CSC subpopulations by RNA-seq to identify new potential therapeutic strategies for SCC. (ca.gov)
We present here a de novo transcriptome assembler designed for a parallel computer architecture, the XMT architecture. (umd.edu)
With this assembler we produce speedups over existing de novo transcriptome assemblers without sacrificing performance on traditional quality metrics. (umd.edu)
In addition, transcriptomes may enable researchers to generate a comprehensive, genome-wide picture of what genes are active in which cells. (genome.gov)
Fortunately, some populations show natural resistance to the pathogen, and our guest, Zolton Bair from the department of Botany and Plant Pathology , is comparing the transcriptomes , the collection of genes expressed as RNA, of resistant and susceptible trees to understand tree defense against white pine blister rust. (oregonstate.edu)
Besides demonstrating that the probe selection method can be used to study the ovine transcriptome, the benefits of this approach are that it can greatly increase the number of annotated and novel genes that can be studied beyond those currently possible using ovine- or bovine-specific microarrays. (cambridge.org)
RNA-seq has been chosen to investigate Drosophila Malpighian (renal) tubules to identify novel genes following a three- way comparison between three popular transcriptome profiling methods. (gla.ac.uk)
Data11
Subsequently, the advent of high-throughput technology led to faster and more efficient ways of obtaining data about the transcriptome. (wikipedia.org)
Data obtained from the transcriptome is used in research to gain insight into processes such as cellular differentiation, carcinogenesis, transcription regulation and biomarker discovery among others. (wikipedia.org)
Transcriptome-obtained data also finds applications in establishing phylogenetic relationships during the process of evolution and in in vitro fertilization. (wikipedia.org)
There are quantifiable and conserved relationships between the Transcriptome and other -omes, and Transcriptomics data can be used effectively to predict other molecular species, such as metabolites. (wikipedia.org)
Using the GemCode approach, Dr. Hindson and colleagues collected transcriptome data from about 250,000 cells across 29 samples. (genengnews.com)
Because accomplishing this with RNA-seq comes with such high costs and data complexity, we believe the time is right to focus our expertise on the type of analysi?s tools that interrogate the whole transcriptome with better reproducibility and coverage than the equivalent amount of sequencing. (genomeweb.com)
Data is being published to demonstrate that as a practical matter for large-scale clinical studies, array-based approaches are a perfect complement to the discovery of transcriptome elements. (genomeweb.com)
We analyzed The Cancer Genome Atlas (TCGA) transcriptome data of 221 SCCs to determine the generality of our observations. (ca.gov)
This project aims at characterising metabolic changes in the asthma bronchial epithelium and how these relate to asthma phenotypes by employing predominantly transcriptome data from major databases (e.g. (lu.se)
I'm just thinking out loud about how to incorporate high throughput transcriptome sequencing data into BASE. (lu.se)
Tumor3
Transcriptome sequencing of tumor subpopulations reveals a spectrum of therapeutic options for squamous cell lung cancer. (ca.gov)
The study went further by examining the normal and tumor RNA for whole transcriptome sequencing, which can reveal the possible defects in how proteins are synthesized. (tgen.org)
We performed a first-of-kind evaluation of two transcriptome-based precision cancer medicine methodologies to predict tumor sensitivity to a comprehensive repertoire of clinically relevant oncology drugs, whose mechanism of action we experimentally assessed in cognate cell lines. (cdc.gov)
Study2
Two biological techniques are used to study the transcriptome, namely DNA microarray, a hybridization-based technique and RNA-seq, a sequence-based approach. (wikipedia.org)
In this study, we proposed to investigate how these interactions work between RANKL/RANK and other cytokines' signaling downstream that activates TRAF6 transcriptome and thus induces the osteoclastogenesis in vitro . (umich.edu)
Pathways1
By characterizing the transcriptome patterns and pathways for these symptoms, our goal is to shed light on the biological mechanisms underlying this comorbidity, which can help prevent the exacerbation of physical symptoms by intervening at the level of etiological pathway. (cdc.gov)
RNAs1
We observe more than 8,000 lincRNAs with normal gene structure and several thousands of circularized and trans-spliced products, showing that such atypical RNAs form a substantial contribution to the transcriptome. (nih.gov)
The early stages of transcriptome annotations began with cDNA libraries published in the 1980s. (wikipedia.org)
Molecular3
QIAseq UPX 3' Transcriptome Kits are intended for molecular biology applications. (qiagen.com)
The QIAseq UPX 3' Transcriptome Kit presents a unique advantage where each cell is tagged with a unique ID (up to 384 different IDs) and each RNA molecule is tagged with a Unique Molecular Index (UMI) during reverse transcription. (qiagen.com)
In so doing, it demonstrates how transcriptome sequencing provides insights into the molecular underpinnings of cancer propagating cells that, importantly, can be leveraged to identify new potential therapeutic options for cancers beyond what is possible with DNA sequencing. (ca.gov)
MRNA1
Some modern methods of transcriptome sequencing give only short reads of the mRNA, up to 100 nucleotides. (umd.edu)
Microarrays1
RNA-seq has overcome the drawbacks of microarrays and become the leading technology for genome sequencing, transcriptome profiling, novel gene discovery, and novel alternative splicing discovery with wide dynamic range. (gla.ac.uk)
Researchers2
By collecting and comparing transcriptomes of different types of cells, researchers can gain a deeper understanding of what constitutes a specific cell type, how that type of cell normally functions, and how changes in the normal level of gene activity may reflect or contribute to disease. (genome.gov)
The company last week launched its GeneChip Human Transcriptome and Splice Junction Array, a 6.9-million-feature chip designed with researchers from Stanford University. (genomeweb.com)
We describe the mutational landscape of primary breast cancer viewed through the transcriptome of a large population‐based cohort and relate it to patient survival. (lu.se)
Samples1
We quantified transcriptomes from 409 prefrontal cortex samples. (cdc.gov)
Products1
We analysed the putative fat body transcriptome based on homology to other gene products with known functions available in the public domain. (umd.edu)
Technology2
RNA sequencing (RNA-Seq) is a modern technology for transcriptome profiling that uses next-generation sequencing (NGS). (frontiersin.org)
Advancements in bioinformatics has significantly supported RNA-Seq technology to accelerate the knowledge on transcriptomes ( 1 ). (frontiersin.org)