Sentences with phrase «from gene expression analysis»

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In a three - stage meta - analysis, Harvard University neurologist Clemens Scherzer and his collaborators analyzed gene expression in 410 samples taken from patients that either had symptomatic or asymptomatic Parkinson's or were healthy, including 185 samples of substantia nigra — a midbrain region where dopamine neurons are particularly susceptible to degeneration.

Scientists from the Biogerontology Research Foundation (BGRF), a UK - based charity founded to support aging research and address the challenges of a rapidly aging population, propose a new concept for signalome - wide analysis of changes in intracellular pathways, called OncoFinder, which allows for accurate and robust cross-platform analysis of gene expression data.

The three - year study included cell culture studies at Rice as well as a detailed analysis of gene - expression profiles of more than 500 patients from the Cancer Genome Atlas and protein - expression profiles from about 200 MD Anderson patients.

First, samples of leaves from these plants are collected for in vitro cultures to isolate the fungi; then the DNA and RNA of fungi are extracted to sequence them and, through bioinformatic analysis, the researcher can determine the expression, the presence or absence of genes in the genomes of a species against each other.

The second tool, SuperExactTest, establishes the very first theoretical framework for assessing the statistical significance of multi-set intersections and enables users to compare very large sets of data, such as gene sets produced from genome - wide association studies (GWAS) and differential expression analysis.

This single cell transcriptome analysis followed by computational analyses enabled the team to identify the gene expression profiles of cells in the process of changing from ES cells to 2CLCs.

An analysis of all gene transcription in the cultured cell lines turned up a large gene complex in which gene expression differed conspicuously in cells from patients compared to controls.

A: Sheltzer: Professionally, we're working on a paper together using Joan's data - analysis ability to parse through gene - expression data from more than 20,000 cancer patients.

Analysis of the most aggressive of these cells revealed a pattern of gene expression distinct from that known to occur in breast - to - bone metastasis, as described in an earlier paper by Massagué.

For instance, our «activity centers» analysis requires translation from protein or gene identifiers in a pathway database to Affymetrix probe set identifiers or other gene expression array platform identifiers.

Our technological expertise ranges from the most fundamental approaches to study membrane transport in lymphocytes and dendritic cells (subcellular compartmentalization, intravital microscopy, phagosomal functions), the systematic analysis of gene expression and it regulation (RNAseq, Chip Seq, proteomics) and physiological and pathological immune responses (mouse models for cancer immunity, immunomodulation / vaccination, human clinical studies in cancer).

A quest to find good primers for gene expression analysis of Candida albicans from clinical samples — Gabriela C.Alonso — Journal of Microbiological Methods

Panels B — D. mRNA expression analysis of genes involved in glycogen metabolism (Panel B), gluconeogenesis (Panel C), and insulin signaling (Panel D), as quantified by transcriptome analysis, was performed in enhanced hiPS - HEP cells from C12, C18, and C22 on Day 12 post-thawing (n = 2 batches per cell line) and compared to gene expression measurements performed on hphep cells on Day 1 post-thawing (n = 3 donors).

Along with the cellular genes emphasized from the microarray analysis, two genes that are suspected to be involved in the scleractinian coral calcification process were tested for expression (Figs. 5A and 5B).

The idea behind our work in bioinformatics is to build on existing methodologies regarding large - scale data analysis and to develop novel algorithms for processing and merging complex biological data from multiple sources such as gene expression data, sequence information, protein - to - protein interaction data, clinico - pathological data etc..

In line with previous studies12, 13,15,17,20 our analyses show that the investigation of the impact of post-mortem ischemia in tissue transcriptomes is essential to properly interpret gene expression estimates obtained from post-mortem tissue samples.

Many million different users consult these databases each year, seeking information on anything from DNA sequences, protein structures, gene expression profiles, human genetic polymorphism or even comparative analyses of entire genomes.

Nick Owens, a post doc in Mike Gilchrist's lab, who developed the computational analysis, said: «This study improves our ability to understand the way gene expression changes with time, and from this we gain insight into the logic of how gene expression is regulated.

Dr Gilchrist said: «This study suggests that we may improve significantly on the widely used analysis methods for determining gene expression levels from high throughput sequence data: absolute quantitation offers a much sounder basis for determining changes in gene expression level, a measure widely used to determine the consequence of genetic, chemical or physical disturbances in living systems.»

In small cell lung cancer, starting from bioinformatics analyses of large gene expression datasets, we clustered subsets of co-expressed gene modules, derived networks of transcription factors and simulated their dynamics using logic - based mathematical modeling.

These webtools make use of the multilayered datasets from the BXD mouse population to expedite in silico gene function prediction through a series of integrative and complimentary systems analytical approaches, including (expression - based) phenome - wide association, transcriptome - / proteome - wide association, and (reverse --RRB- mediation analysis.

For analyses of gene expression in embryos, cryopreserved day 3 embryos and day 6 blastocysts from 10 IVF / ICSI patients were thawed via an embryo thawing kit (Cooper Surgical) or a blastocyst thawing kit (Cooper Surgical), respectively, according to manufacturer's protocol.

The webtools make use of the multilayered datasets from the BXD mouse population to expedite in silico gene function prediction through a series of integrative and complimentary systems analytical approaches, including (expression - based) phenome - wide association, transcriptome - / proteome - wide association, and (reverse --RRB- mediation analysis (Figure 1 - 2).

Analyses of macrophages from Tet2 knockout mice showed elevated expression of several chemokine and cytokine genes that contribute to atherosclerosis.

For the analysis of gene expression in blastocysts, total RNA was isolated and purified from three pools of 10 blastocysts produced in vivo or in vitro (KSOM supplemented with 10 % FCS or in the presence of 1 g / L BSA) using the RNeasy Micro Kit (Qiagen)[18].

Indeed, 30 % of all transcripts identified by cap - analysis of gene expression (CAGE) tags derived from human embryonic tissues have been associated with repetitive elements, and 16 % are retrotransposons [14].