Sentences with phrase «hierarchical clustering of»

Unsupervised hierarchical clustering of the 5,959 genes, using 100 random permutations, gave rise to 115 groups, containing a total number of 2,855 transcripts, with a probability of 95 % or higher that clustering was not random (Supplemental File S2).

Average linkage hierarchical clustering of the data was carried out as described [75].

Correlation of differentially expressed transcripts was detected by hierarchical clustering of expression values with the Cluster version 2.11 software [52] applying mean centering and normalization of genes and arrays before the computational clustering analysis.

These include: a) Global Clusters that consist of a small, tight subset of genes that are co-expressed under the entire spectrum of experimental conditions; b) Time Series of gene expression profiles during successive days of standard ES cell differentiation; c) Specific Gene Classes based on hierarchical clustering of transcriptional factors and ESTs; d) Expression Waves of genes with characteristic expression profiles during ES cell differentiation, juxtaposed to waves of genes that behave in the exact opposite way; e) Pathway Animations that illustrate dynamic changes in the components of individual KEGG signaling and metabolic pathways viewed in time - related manner; and, f) Search Engines to display the expression pattern of any transcript, or groups of transcripts, during the course of ES cell differentiation, or to query the association of candidate genes with various FunGenES database clusters.

(A) Heat map illustrating hierarchical clustering of differentially expressed genes identified in a pair-wise analysis of all four fractions.

Hierarchical clustering of 2,169 differentially expressed genes among the four fractions, V − S +, V+S +, V − S −, V+S −.

Dimensionality reduction (MDS) and hierarchical clustering of gene expression profiles clearly distinguishes pre - and post-mortem states of blood samples (Fig. 6a and Supplementary Fig. 20).

Hierarchical clustering of the differentially expressed lncRNAs was observed and 10 up - regulated lncRNAs were detected using microarrays.

But by hierarchical clustering of observed alterations in endocytosis, the researchers identified two distinct cancer phenotype clusters, one marked by mutations in the oncogene KRAS in mesenchymal cells and the other by changes in epithelial cells.

Not exact matches

«Macro-level changes in the structure of citation clusters» is the title of one of the articles in this collection, and «multidimensional scaling» within «a hierarchical or nested structure of clusters four levels deep» is what it is all about.

So I think the most significant implication of this research is that the connectome is organised in a hierarchical manner, with dense local clusters of neurons — «cliques» — connected to other clusters in different parts of the brain.

Clustering and hubs can naturally coexist; however, if topological modules are not independent but combine to form an hierarchical network in which small, highly integrated modules assemble into larger modules each of which combines in an hierarchical fashion into even larger modules (Hartwell et al, 1999).

At that point, samples were sorted using hierarchical clustering and then removed one by one and reclustered at each step until two distinct clusters of expression were shown.

A, Hierarchical clustering and correlation coefficients of microarray profiles of triplicate iPSC1, iPSC2, CytES (Cyt25 hESC), Hues6 and NSC.

More recently, Doucet et al. [7] examined the hierarchical structure of 23 components found by ICA and identified 5 major clusters among those.

Proteins (n = 59) that were quantified and determined to be significantly different in abundance by ANOVA (p ≤ 0.01) when comparing CFS from nPTLS subject samples and allow for separation of these two syndromes when performing unsupervised hierarchical cluster analysis.

The proteins considered in the unsupervised hierarchical clustering analysis were quantified in individual samples and found to be significantly different in abundance by analysis of variance (ANOVA p ≤ 0.01, Table S3); while PCA analysis considered all proteins quantified in each individual sample.

Clustering of genus abundance profiles was performed by hierarchical clustering using the scale - invariant Pearson correlatiClustering of genus abundance profiles was performed by hierarchical clustering using the scale - invariant Pearson correlaticlustering using the scale - invariant Pearson correlation metric.

Inspection of the data illustrates that in many instances, hierarchical clustering grouped genes that have been functionally associated with particular developmental and / or cellular processes.

The «Time Series» clusters expanded the number of genes that follow a specific expression pattern revealed in the previous global hierarchical clustering.

Transcriptomics analysis of inguinal WAT showed a marked effect of cold on overall gene expression, as revealed by principle component analysis and hierarchical clustering.

The nucleotide sequences for all integrases available in the database INTEGRALL [51] were downloaded (1323 sequences) and grouped using single - link hierarchical clustering with a cut - off of 90 % sequence similarity over at least 50 amino acids.

Specific statistical areas of expertise include factor and cluster analysis, basic bivariate analyses, repeated measures analyses, linear and hierarchical / mixed models, structural equation modeling, and nonparametric analyses including logistic regression techniques.

9 We also attempted to use hierarchical clustering (where the number of clusters is not specified beforehand but is dictated by the data), however, this method did not produce satisfactory clusters.