1. Download the package from Bioconductor 2. Load the package into R sessionQuick start Plot the most basic volcano plot Advanced features Modify cut-offs for log2FC and P value; specify title; adjust point and label size Adjust colour and alpha for point shading Adjust shape of plotted po...
Volcano plots were generated using the EnhancedVolcano package. Genes of interest are shown in violin plots, for which p-values were adjusted according to Benjamini and Hochberg (FDR). Quantification and statistical analysis Numeric values obtained from expression experiments were analyzed and plotted ...
Software Graphs and some heatmaps were generated using GraphPad Prism version 9.2 (https://www.graphpad.com). The volcano plot in Fig.1was generated using R Studio version 1.3.959, using the Enhanced Volcano package (https://www.rstudio.com), while heatmaps in Fig.1B,C were generated ...
b Volcano plot of biotinylated proteins in PKCλ/ι-BioID2 versus Empty-BioID2 in 293 T cells (n = 3 biological replicates). c Immunoblotting of cell lysate and FLAG-tagged immunoprecipitates of 293 T cells transfected with indicated plasmids. d, e Pulse-chase assay with 50 μ...
Volcano seismicity provides a promising road into solving the problem since often the earthquake record provides continuous and highly resolved information. However, seismicity during long-lived, explosive eruptions is practically invisible because of the extreme noise levels of the eruption itself. In a...
B Volcano plots illustrating the increased expression of TOPBP1 and ATR in comparison to the BRCA1 non-mutation and PARP-sensitivity groups, as well as the BRCA1 non-mutation and PARP-insensitivity groups. C Determination of PDAC cell line sensitivity to olaparib using the CCK8 assay. D Heat...
B Volcano plots from the DNA methylation 850 k chip showing significantly differential CpG sites in Cal27 cells compared to NOK cells. C and D Nightingale rose chart showing the number of all significant DMSs with a CpG island probe distribution (C) and a gene probe distribution (D), ...
(b) Volcano plot of differentially expressed genes in normal lentivirus versus Vpx-containing lentivirus. Purple indicates Padj < 0.05 and log2 fold change >1 or < −1. Red dots indicate significantly upregulated inflammatory genes. Statistical significance was calculated using the Wald test for ...
A Volcano analysis of two-sided Student’s t-test results from 200-pg time-point samples after IFN-γ treatment and the respective 0 h control. Number n of differentially expressed proteins indicated. Proteins whose expression could only be observed in DIA-ME analysis are highlighted in blue...
c Volcano plot of differentially expressed proteins identified from DCP1a-APEX2 and NES-APEX2 construct. PB candidate proteins are marked green, and gene names of known PB proteins are labeled. d Identification overlaps of identified PB candidates among different bait-APEX2/TurboID constructs and ...