DataSheet1_A Prognostic Ferroptosis-Related lncRNA Model Associated With Immune Infiltration in Colon Cancer.docx

Colon cancer (CC) is a common malignant tumor worldwide, and ferroptosis plays a vital role in the pathology and progression of CC. Effective prognostic tools are required to guide clinical decision-making in CC. In our study, gene expression and clinical data of CC were downloaded from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases. We identified the differentially expressed ferroptosis-related lncRNAs using the differential expression and gene co-expression analysis. Then, univariate and multivariate Cox regression analyses were used to identify the effective ferroptosis-related lncRNAs for constructing the prognostic model for CC. Gene set enrichment analysis (GSEA) was conducted to explore the functional enrichment analysis. CIBERSORT and single-sample GSEA were performed to investigate the association between our model and the immune microenvironment. Finally, three ferroptosis-related lncRNAs (XXbac-B476C20.9, TP73-AS1, and SNHG15) were identified to construct the prognostic model. The results of the validation showed that our model was effective in predicting the prognosis of CC patients, which also was an independent prognostic factor for CC. The GSEA analysis showed that several ferroptosis-related pathways were significantly enriched in the low-risk group. Immune infiltration analysis suggested that the level of immune cell infiltration was significantly higher in the high-risk group than that in the low-risk group. In summary, we established a prognostic model based on the ferroptosis-related lncRNAs, which could provide clinical guidance for future laboratory and clinical research on CC.</p

Patterns in the Composition of Microbial Communities from a Subtropical River: Effects of Environmental, Spatial and Temporal Factors

<div><p>Microbes are key components of aquatic ecosystems and play crucial roles in global biogeochemical cycles. However, the spatiotemporal dynamics of planktonic microbial community composition in riverine ecosystems are still poorly understood. In this study, we used denaturing gradient gel electrophoresis of PCR-amplified 16S and 18S rRNA gene fragments and multivariate statistical methods to explore the spatiotemporal patterns and driving factors of planktonic bacterial and microbial eukaryotic communities in the subtropical Jiulong River, southeast China. Both bacterial and microbial eukaryotic communities varied significantly in time and were spatially structured according to upper stream, middle-lower stream and estuary. Among all the environmental factors measured, water temperature, conductivity, PO₄-P and TN/TP were best related to the spatiotemporal distribution of bacterial community, while water temperature, conductivity, NO_x-N and transparency were closest related to the variation of eukaryotic community. Variation partitioning, based on partial RDA, revealed that environmental factors played the most important roles in structuring the microbial assemblages by explaining 11.3% of bacterial variation and 17.5% of eukaryotic variation. However, pure spatial factors (6.5% for bacteria and 9.6% for eukaryotes) and temporal factors (3.3% for bacteria and 5.5% for eukaryotes) also explained some variation in microbial distribution, thus inherent spatial and temporal variation of microbial assemblages should be considered when assessing the impact of environmental factors on microbial communities.</p> </div

Location of sampling sites in the Jiulong River Watershed.

<p>Location of sampling sites in the Jiulong River Watershed.</p

RDA ordination showing the microbial community composition in relation to significant environmental variables.

<p>The environmental variables were significantly related to the variation of microbial community composition (<i>P</i> < 0.05). The numbers indicate the sampling sites, which were collected in dry (△) and wet (▼) seasons, respectively.</p

Variation partitioning between environmental, spatial and temporal variables.

<p>A = the pure temporal explanation; B = the temporal explanation that is shared by the environmental explanation; C = pure environmental explanation; D = the environmental explanation that is shared by the spatial explanation; E = pure spatial explanation.</p

PCA plots showing the resemblance of environmental characteristics of sampling sites along the Jiulong River.

<p>The numbers indicate the sampling sites, which were collected in dry (△) and wet (▼) seasons, respectively. </p

Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer-3

Erence to the standard curve, as described in methods. The copy number of each mRNA was further normalized as the ratio to the copy number of . For each gene marker, when the copy number was less than 100, it could not be detectable as a negative case. All the negative results of each indicated gene were shown as number undetected. The median is marked as "" in each group. Where the frequency of negative cases is > 50%, the median cannot be shown. The Mann-Whitney U Test was used to compare the gene expression levels between NSCLC and tuberculo pleurisy groups. P < 0.05 (2-tailed test) was considered significant.<p><b>Copyright information:</b></p><p>Taken from "Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer"</p><p>http://www.biomedcentral.com/1471-2407/8/156</p><p>BMC Cancer 2008;8():156-156.</p><p>Published online 31 May 2008</p><p>PMCID:PMC2424066.</p><p></p

Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer-2

Reference to the standard curve, as described in methods. The copy number of each mRNA was further normalized as the ratio to the copy number of . For each gene marker, when the copy number was less than 100, it could not be detectable as a negative case. All the negative results of each indicated gene were shown as number undetected. The median is marked as "" in each group. Where the frequency of negative cases is > 50%, the median cannot be shown. The K Independent Samples Test (Media Test) was used to analyze gene expression levels among NSCLC patients at different pathologic stages. P < 0.05 (2-tailed test) was considered significant.<p><b>Copyright information:</b></p><p>Taken from "Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer"</p><p>http://www.biomedcentral.com/1471-2407/8/156</p><p>BMC Cancer 2008;8():156-156.</p><p>Published online 31 May 2008</p><p>PMCID:PMC2424066.</p><p></p

Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer-0

Rated by electrophoresis and visualized in ethidium bromide-stained agarose gels. PB = Peripheral blood; PF = Pleural fluid.<p><b>Copyright information:</b></p><p>Taken from "Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer"</p><p>http://www.biomedcentral.com/1471-2407/8/156</p><p>BMC Cancer 2008;8():156-156.</p><p>Published online 31 May 2008</p><p>PMCID:PMC2424066.</p><p></p

Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer-1

Reference to the standard curve, as described in methods. The copy number of each mRNA was further normalized as the ratio to the copy number of in all samples. For each gene marker, when the copy number was less than 100, it could not be detectable as a negative case. All the negative results of each indicated gene were shown as number undetected. The median is marked as "" in each group. Where the frequency of negative cases is > 50%, the median cannot be shown.<p><b>Copyright information:</b></p><p>Taken from "Diagnostic utility of mRNA in peripheral blood and pleural fluid in patients with primary non-small cell lung cancer"</p><p>http://www.biomedcentral.com/1471-2407/8/156</p><p>BMC Cancer 2008;8():156-156.</p><p>Published online 31 May 2008</p><p>PMCID:PMC2424066.</p><p></p