Heat map and hierarchical cluster analysis of the fold changes of genes related to chitin utilization identified in the genome of Vibrio coralliilyticus.

Slides:



Advertisements
Similar presentations
Phase Difference = Phase Difference = 0.05.
Advertisements

PLUS.
Hierarchical clustering of DEGs in Shp−/− mice, chronic hepatitis C cirrhosis, and NASH. A: unsupervised hierarchical clustering of genes common to the.
Analysis of in silico flux changes along the exponential growth phase: (A) In silico flux changes from 24 to 36 h, from 36 to 48 h, and from 48 to 60 h.
Polar angle mapping with DOT
Gene expression profiles as measured by the NanoString nCounter System in 54 patients with metastatic gastric cancer (GC). Gene expression profiles as.
Correlation between the ability of Novosphingobium strains from four different habitats to degrade aromatic and xenobiotic compounds. Correlation between.
H-NS2 is upregulated in an hns mutant derivative of the strain E
Fractions of 16S rRNA genes from bacteria (top panel) and archaea (bottom panel) in public databases from primer-amplified metagenomes (with and without.
Formula feeding affects the resistome.
Heat map displaying the abundances of bacterial families identified on plastics particles collected from the North Atlantic Subtropical Gyre (NASG, samples.
Characterized LuxR-associated and QS-regulated BGCs were identified in our screen. Characterized LuxR-associated and QS-regulated BGCs were identified.
(a) Bifurcating tree generated from hierarchical clustering of OTUs based on mean pH. (a) Bifurcating tree generated from hierarchical clustering of OTUs.
Metabolic pathway changes of intracellular M. tuberculosis.
Heat maps of stress- and development-related genes differentially expressed between the osdR mutant and its parent, S. coelicolor M145. Heat maps of stress-
Volatile compounds detected in cheese by GC-MS and faceted heat map showing the variation of volatile compounds between the cheeses at days 0, 18, 24,
Magnitude of mRNA fold change is best predictor of mRNA-to-protein correlation. Magnitude of mRNA fold change is best predictor of mRNA-to-protein correlation.
Gene content and order of the clade B-specific GT-rich gene cluster.
ZIKV infection induces global DNA methylation changes in multicellular human cerebral organoids. ZIKV infection induces global DNA methylation changes.
(a) Correspondence analysis of 88 soil samples.
Meta-analysis of the Listeriomics transcriptomic data sets.
Presence of motifs correlated with decreased expression of downstream genes. Presence of motifs correlated with decreased expression of downstream genes.
Genes affected concordantly within the ileum and meta-analysis data sets formed biofunctional clusters of overlapping pathways. Genes affected concordantly.
Distribution of the bacterial taxa that exhibit the greatest log fold changes in mean relative abundance. Distribution of the bacterial taxa that exhibit.
Tfr cells’ transcriptomic profile distinguishes them from Treg and Tfh cells. Tfr cells’ transcriptomic profile distinguishes them from Treg and Tfh cells.
H-NS2-FLAG expression is upregulated in DMEM and M9 minimal medium and when cells enter the stationary growth phase. H-NS2-FLAG expression is upregulated.
Parallel evolution of coding sequences above neutral expectation.
Comparison of the global transcriptomes of nine EPEC isolates.
Expression response of AT-rich genes to lanthanides.
Ivan C. Gerling et al. JCHF 2013;1:
Locations of genes that exhibited decreased levels of distribution of the RpoZ-defective RNAP. The genes that showed decreased-level distribution of RpoZ-defective.
Example usage of mockrobiota MC resource for marker gene and metagenome sequencing pipelines. Example usage of mockrobiota MC resource for marker gene.
(A) Scale map of connections between contigs in Ver_v2 suggested by the alignment of paired-end Illumina reads (insert size, ~300 bp). (A) Scale map of.
Overview of the seed set framework and metatranscriptomic mapping, using three genomes from the acI-C clade as an example. Overview of the seed set framework.
(a) Hierarchical clustering of closed-reference OTUs based on mean pH; (b) balance of low-pH-associated organisms (3.8 < mean pH < 6.7) and high-pH-associated.
Two‐way unsupervised uncentered unnormalized hierarchical clustering using a Pearson's correlation of the phenotypic profiles of 4281 nonessential genes.
Pathway analysis of genes upregulated after RSV infection.
Four major patterns identified through hierarchical clustering plotted by IPD ratio over time. Four major patterns identified through hierarchical clustering.
Volume 20, Issue 3, Pages (November 2005)
Transcription of cellulolytic genes disaggregated by genome.
RNA-seq of Glutamicibacter arilaitensis alone and cocultured with Penicillium sp. 12. RNA-seq of Glutamicibacter arilaitensis alone and cocultured with.
Hierarchical clustering analysis of 7785 genes (genes with a log-ratio variation in the 25th centile and >5% missing data were excluded) (A) A heat map.
Targeted and required proteins cluster around targets of human and bacterial viruses. Targeted and required proteins cluster around targets of human and.
(A) Comparison of wild-type and AcfC transcriptomes in relation to the chromatin five-state model. (A) Comparison of wild-type and AcfC transcriptomes.
A case study of RPCA feature loadings on real data sets; sponge (left; A and C) and sleep apnea (right; B and D). A case study of RPCA feature loadings.
Characterization of differentially expressed genes based on their COG classification. Characterization of differentially expressed genes based on their.
Single-cell phenotyping with Traitar.
PKS distribution. PKS distribution. (A) Network map for known (purple) and unknown (yellow) PKS clusters, with the cluster number at each node and the.
Functional potential analyses.
Putative sources of interphylum horizontal gene transfer in the M
Ostreococcus and virus-host interactions.
Comparison ofMyc-induced zebrafish liver tumors with different stages of human HCC and seven mouse HCC models. Comparison ofMyc-induced zebrafish liver.
Distribution of ARGs in RefSoil genomes and plasmids.
BAF60c transcriptionally affects cardiac morphogenesis and function
Reanalysis of an existing experiment using ADAGE
Initial analysis of the transcriptional effects in eight carbon storage mutants (1 to 8; ΔphbA, phbB::ΩSpSm, ΔphbAB, ΔphbC, ΔphaZ, ΔbdhA, acsA2::Tn5, glgA1ΔPstI)
CD4+CLA+CD103+ T cells from human blood and skin share a transcriptional profile. CD4+CLA+CD103+ T cells from human blood and skin share a transcriptional.
Superspacers shared between viral strains.
Expression of selected genes in the ΔSMcomS strain in response to increasing concentrations of XIP. RT-PCR analysis of gene expression was performed in.
Enrichment of KEGG pathways in microbial genes in different samples.
Fig. 1 Genes up-regulated in Zic5 KO cells correlate with the increased glycolytic state. Genes up-regulated in Zic5 KO cells correlate with the increased.
T4P gene clusters in C. perfringens and C. difficile.
K-means clusters of T. elongatus and M
Heat map of genes for which CR significantly altered expression versus AL. Cluster analysis of genes significantly changed by the CR intervention compared.
A, protein structure and functional domains of hdbpB/YB-1, hdbpA, hdbpC, NF-YA, NF-YB, and NF-YC. A, protein structure and functional domains of hdbpB/YB-1,
Hierarchically clustered heat map showing correlations between the relative abundances of microbial species and the levels of volatile compounds in kefir.
Highly metastatic PDAC cells have a unique gene signature, which is not preserved in metastases but predicts poor patient outcome. Highly metastatic PDAC.
Relative abundance and expression of the 10 most abundant MAGs in the bioreactor at day 96. Relative abundance and expression of the 10 most abundant MAGs.
(A) Bar chart presenting the most significantly upregulated and downregulated entities by fold change (FC). (A) Bar chart presenting the most significantly.
ADAGE extracted features that represented sequence differences between strains. ADAGE extracted features that represented sequence differences between.
Presentation transcript:

Heat map and hierarchical cluster analysis of the fold changes of genes related to chitin utilization identified in the genome of Vibrio coralliilyticus S2052 (top) and Photobacterium galatheae S2753 (bottom) at the two time points analyzed in this study (exponential and stationary phases). Heat map and hierarchical cluster analysis of the fold changes of genes related to chitin utilization identified in the genome of Vibrio coralliilyticus S2052 (top) and Photobacterium galatheae S2753 (bottom) at the two time points analyzed in this study (exponential and stationary phases). FC, fold change; *, genes from the (GlcNAc)2 operon plus chiS homolog; ¤, genes from the nag operon. Sonia Giubergia et al. mSystems 2017; doi:10.1128/mSystems.00141-16