Comparative transcriptomics in : a global view of environmental modulation of gene expression-5

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>s show the transcriptional changes of the virulence genes, where columns represent different microarray experiments, and rows represent genes. Color intensities denote logratios as follows: green, negative; black, zero; red, positive; gray, missing data

Comparative transcriptomics in : a global view of environmental modulation of gene expression-2

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>n in Table 4, while rows from up to down represent genes and their corresponding gene names were listed in the order (left to right and up to down). The black vertical lines are used to define the range of clusters of co-expressed genes. Red represents up-regulation and green represents down-regulation of the corresponding genes

Comparative transcriptomics in : a global view of environmental modulation of gene expression-3

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>R-like box; and (c) Fnr-like box. The underlined number is the maximum possible score with PSSM. For the sequence logo, the height of each letter indicates the relative frequency of that base at that position, while the height of each stack of letters corresponds to the sequence conservation at that position

Comparative transcriptomics in : a global view of environmental modulation of gene expression-0

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>s show the transcriptional changes of the virulence genes, where columns represent different microarray experiments, and rows represent genes. Color intensities denote logratios as follows: green, negative; black, zero; red, positive; gray, missing data

Comparative transcriptomics in : a global view of environmental modulation of gene expression-4

<p><b>Copyright information:</b></p><p>Taken from "Comparative transcriptomics in : a global view of environmental modulation of gene expression"</p><p>http://www.biomedcentral.com/1471-2180/7/96</p><p>BMC Microbiology 2007;7():96-96.</p><p>Published online 29 Oct 2007</p><p>PMCID:PMC2231364.</p><p></p>7 contain 1.0, 0.7, 0.4, 0.1 and 0 μg of the recombinant Fur protein. In (A) – (I), an arrow and an asterisk indicate the probe (free) and the Fur-probe complex (bound), respectively

Platelet-Derived Growth Factor Receptor Beta: A Novel Urinary Biomarker for Recurrence of Non-Muscle-Invasive Bladder Cancer

<div><p>Non-muscle-invasive bladder cancer (NMIBC) is one of the most common malignant tumors in the urological system with a high risk of recurrence, and effective non-invasive biomarkers for NMIBC relapse are still needed. The human urinary proteome can reflect the status of the microenvironment of the urinary system and is an ideal source for clinical diagnosis of urinary system diseases. Our previous work used proteomics to identify 1643 high-confidence urinary proteins in the urine from a healthy population. Here, we used bioinformatics to construct a cancer-associated protein-protein interaction (PPI) network comprising 16 high-abundance urinary proteins based on the urinary proteome database. As a result, platelet-derived growth factor receptor beta (PDGFRB) was selected for further validation as a candidate biomarker for NMIBC diagnosis and prognosis. Although the levels of urinary PDGFRB showed no significant difference between patients pre- and post-surgery (n = 185, P>0.05), over 3 years of follow-up, urinary PDGFRB was shown to be significantly higher in relapsed patients (n = 68) than in relapse-free patients (n = 117, P<0.001). The levels of urinary PDGFRB were significantly correlated with the risk of 3-year recurrence of NMIBC, and these levels improved the accuracy of a NMIBC recurrence risk prediction model that included age, tumor size, and tumor number (area under the curve, 0.862; 95% CI, 0.809 to 0.914) compared to PDGFR alone. Therefore, we surmise that urinary PDGFRB could serve as a non-invasive biomarker for predicting NMIBC recurrence.</p></div

Correlation between PDGFRA expression and clinicopathologic factors.

<p>NOTE: A logistic regression model was used to estimate the odds of PDGFRB adjusted for all of the variables listed in the table.</p

Determination of urinary PDGFRB concentrations in NMIBC patients pre- and post-surgery by ELISA.

<p>There was no significant difference between the levels of urinary PDGFRB in NMIBC patients pre-surgery and post-surgery (n = 185) (P = 0.067).</p

Relationship between the biomarker, clinical characteristics and the risk of NMIBC recurrence.

<p>NOTE: A logistic regression model was used to estimate the odds of NMIBC recurrence adjusted for all of the variables listed in the table.</p

Patient demographics and clinical parameters.

<p>Patient demographics and clinical parameters.</p