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r studio software  (RStudio)

 
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    RStudio r studio software
    R Studio Software, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/double+gradient+heatmap+plot/rstudio+software/pmc10540311-75-1-5
    Average 90 stars, based on 1 article reviews
    r studio software - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Analysis:

    Article Title: Specificity in clustering of gene-specific transcription factors is encoded in the genome
    Article Snippet: .. Image analysis files in .csv format were exported to RStudio software for data plotting and visualization. ..

    Software:

    Article Title: Specificity in clustering of gene-specific transcription factors is encoded in the genome
    Article Snippet: .. Image analysis files in .csv format were exported to RStudio software for data plotting and visualization. ..

    Article Title: Denitrification dominates nitrate attenuation and nitrous oxide effluxes under water table fluctuations.
    Article Snippet: • Water table fluctuations impacted microbially mediated NO − 3 attenuation processes.. • Drainage during fluctuating water table resulted in noticeable pulses of N2O effluxes.. • Diversity of microbial community notably correlated with TN, TOC, NO − 3 , and PDR.

    Article Title: Impacts of the combined application of digestate-based compost and biochar on the heavy metal Cd distribution and stress in the plant-soil system
    Article Snippet: In this study, a pot experiment was conducted to evaluate the effects of digestate-based compost, chemical fertilizer, and their combination with biochar on heavy metal distribution, plant growth, and soil microbial communities.. The experimental results demonstrated that the combined application of digestate-based compost and biochar (OFB group) promoted heavy metal immobilization in soil and enhanced plant growth, while reducing the accumulation of heavy metals in plants.. Oxidizable and residual Cd levels in the OFB group increased by 14.90 % and 17.60 % compared to the control group.

    Article Title: Human dorsal forebrain organoids show differentiation-state-specific protein secretion
    Article Snippet: .. Custom codes in RStudio software were generated for Venn diagrams, heatmaps, GO analysis, scatter plots, density plots and histograms. ..

    Generated:

    Article Title: Impacts of the combined application of digestate-based compost and biochar on the heavy metal Cd distribution and stress in the plant-soil system
    Article Snippet: In this study, a pot experiment was conducted to evaluate the effects of digestate-based compost, chemical fertilizer, and their combination with biochar on heavy metal distribution, plant growth, and soil microbial communities.. The experimental results demonstrated that the combined application of digestate-based compost and biochar (OFB group) promoted heavy metal immobilization in soil and enhanced plant growth, while reducing the accumulation of heavy metals in plants.. Oxidizable and residual Cd levels in the OFB group increased by 14.90 % and 17.60 % compared to the control group.

    Article Title: Human dorsal forebrain organoids show differentiation-state-specific protein secretion
    Article Snippet: .. Custom codes in RStudio software were generated for Venn diagrams, heatmaps, GO analysis, scatter plots, density plots and histograms. ..

    other:

    Article Title: Fatal babesiosis in a free-ranging iberian wolf co-infected with Hepatozoon canis and Leishmania infantum : Epidemiological implications for the cantabrian wolf population
    Article Snippet: All statistical analyses were performed in R studio software 3.6.0 ( ) with a significance level of p < 0.05.

    Article Title: Development of a three-species gut microbiome diagnostic model for acute pancreatitis and its association with systemic inflammation: a prospective cross-sectional study
    Article Snippet: And the software RStudio (Version 2023.06.1, scatterplot3d package) was used to analyze beta-diversity (among samples).

    Article Title: Chlorination and Bromination of Anthracene Affects Aryl Hydrocarbon Receptor Activation and Early Life Stage Mortality in Zebrafish ( Danio rerio ).
    Article Snippet: Polycyclic aromatic hydrocarbons (PAHs) are known to adversely affect fish through activation of aryl hydrocarbon receptor 2 (AhR).. Most studies have focused on 16 priority PAHs, but chlorinated and brominated PAHs are more potent than the parent PAHs in studies using mammalian AhRs.. Despite being detected in fish species in situ, no studies have examined their toxicity.

    Article Title: Meta-analysis of outcomes in patients developing acute kidney injury after endovascular aortic repair for Stanford type B aortic dissection
    Article Snippet: To conduct the pooled analysis of outcomes, we utilized the ‘meta’ package within the R-Studio software, employing the risk ratio (RR) as the effect measure.



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    double gradient heatmap plot  (GraphPad Software Inc)
    90
    GraphPad Software Inc double gradient heatmap plot
    (A) <t>Heatmap</t> of ATARiS gene sensitivity scores of two KRAS dependent cell lines (NCI-H358 and MDA-MB-231) and a BRAF dependent cell line (A375). Negative values (shaded red) indicate sensitivity of the cell line proliferation to the knockdown of shown genes, whereas positive scores (shaded blue) indicate insensitivity. (B) IC 50 values for indicated compounds in Ras pathway mutant cell lines NCI-H358, MDA-MB231 and A375 grown as 3D spheroids under serum free conditions. Compounds were tested either as single agent at a concentration range of 0.2 μM– 10 μM (calmidazolium), 0.6 μM– 40 μM (DT-061), 0.2 μM– 40 μM (trifluoperazine) and 0.6 μM– 40 μM (ARS-1620) or in combination, applying the whole concentration range of calmidazolium combined with 1 μM or 2 μM of DT-061, as indicated. Data represent mean values ± SD, n = 2. Statistical comparisons were done using the average values across all three cell lines. (C) Bliss synergism scores for combinatorial effects of calmidazolium and DT-061 in KRAS- or BRAF-mutant cancer cell lines. Data represent mean values ± SD, n = 2. Positive scores indicate synergistic drug interactions whereas negative scores would denote antagonistic drug interactions. A score of zero would indicate no antagonistic or synergistic effect. ( D ) Flow cytometric analysis of apoptosis in MDA-MB-231 cells. MDA-MB-231 cells were treated with DT-061 (10 μM) or calmidazolium (5 μM) or their combination for 24 h and then labelled with Annexin V-FITC and 7AAD. Benzethonium chloride and DMSO treated cells were used as positive and negative controls, respectively, for setting the gates. Percentage of total apoptotic cells (early and late stage) from two biological repeats (mean ± SD) is presented. Statistical analysis was performed using Fisher’s exact test comparing the total number of viable and apoptotic cells from two biological repeats. ( E ) Effect of inhibitors on cellular apoptosis studied using Caspase-3/7Glo assay. MDA-MB-231 cells were treated with DT-061 (5 μM), calmidazolium (5 μM), combination of DT-061 and calmidazolium (5 μM each), and staurosporine (1 μM) for 24 h. The caspase-3/7 activity was measured as a luminescence read-out and normalized to the vehicle control, 0.05% (v/v) DMSO. Data represent mean values ± SD, n = 2. ( F ) Western blot analysis of PARP-cleavage activity in MDA-MB-231 cells treated with DMSO (0.2% (v/v)), DT-061 (20 μM), calmidazolium (5 μM), combinations of DT-061 (10 μM) and calmidazolium (5 μM), and staurosporine (1 μM) for 24 h. GAPDH detection was used as loading control.
    Double Gradient Heatmap Plot, supplied by GraphPad Software Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/double+gradient+heatmap+plot/double+gradient+heatmap+plot/pmc09135253-67-21-29
    Average 90 stars, based on 1 article reviews
    double gradient heatmap plot - by Bioz Stars, 2026-11
    90/100 stars
    		  Buy from Supplier

    Image Search Results


    (A) Heatmap of ATARiS gene sensitivity scores of two KRAS dependent cell lines (NCI-H358 and MDA-MB-231) and a BRAF dependent cell line (A375). Negative values (shaded red) indicate sensitivity of the cell line proliferation to the knockdown of shown genes, whereas positive scores (shaded blue) indicate insensitivity. (B) IC 50 values for indicated compounds in Ras pathway mutant cell lines NCI-H358, MDA-MB231 and A375 grown as 3D spheroids under serum free conditions. Compounds were tested either as single agent at a concentration range of 0.2 μM– 10 μM (calmidazolium), 0.6 μM– 40 μM (DT-061), 0.2 μM– 40 μM (trifluoperazine) and 0.6 μM– 40 μM (ARS-1620) or in combination, applying the whole concentration range of calmidazolium combined with 1 μM or 2 μM of DT-061, as indicated. Data represent mean values ± SD, n = 2. Statistical comparisons were done using the average values across all three cell lines. (C) Bliss synergism scores for combinatorial effects of calmidazolium and DT-061 in KRAS- or BRAF-mutant cancer cell lines. Data represent mean values ± SD, n = 2. Positive scores indicate synergistic drug interactions whereas negative scores would denote antagonistic drug interactions. A score of zero would indicate no antagonistic or synergistic effect. ( D ) Flow cytometric analysis of apoptosis in MDA-MB-231 cells. MDA-MB-231 cells were treated with DT-061 (10 μM) or calmidazolium (5 μM) or their combination for 24 h and then labelled with Annexin V-FITC and 7AAD. Benzethonium chloride and DMSO treated cells were used as positive and negative controls, respectively, for setting the gates. Percentage of total apoptotic cells (early and late stage) from two biological repeats (mean ± SD) is presented. Statistical analysis was performed using Fisher’s exact test comparing the total number of viable and apoptotic cells from two biological repeats. ( E ) Effect of inhibitors on cellular apoptosis studied using Caspase-3/7Glo assay. MDA-MB-231 cells were treated with DT-061 (5 μM), calmidazolium (5 μM), combination of DT-061 and calmidazolium (5 μM each), and staurosporine (1 μM) for 24 h. The caspase-3/7 activity was measured as a luminescence read-out and normalized to the vehicle control, 0.05% (v/v) DMSO. Data represent mean values ± SD, n = 2. ( F ) Western blot analysis of PARP-cleavage activity in MDA-MB-231 cells treated with DMSO (0.2% (v/v)), DT-061 (20 μM), calmidazolium (5 μM), combinations of DT-061 (10 μM) and calmidazolium (5 μM), and staurosporine (1 μM) for 24 h. GAPDH detection was used as loading control.

    Journal: PLoS ONE

    Article Title: Potential of phenothiazines to synergistically block calmodulin and reactivate PP2A in cancer cells

    doi: 10.1371/journal.pone.0268635

    Figure Lengend Snippet: (A) Heatmap of ATARiS gene sensitivity scores of two KRAS dependent cell lines (NCI-H358 and MDA-MB-231) and a BRAF dependent cell line (A375). Negative values (shaded red) indicate sensitivity of the cell line proliferation to the knockdown of shown genes, whereas positive scores (shaded blue) indicate insensitivity. (B) IC 50 values for indicated compounds in Ras pathway mutant cell lines NCI-H358, MDA-MB231 and A375 grown as 3D spheroids under serum free conditions. Compounds were tested either as single agent at a concentration range of 0.2 μM– 10 μM (calmidazolium), 0.6 μM– 40 μM (DT-061), 0.2 μM– 40 μM (trifluoperazine) and 0.6 μM– 40 μM (ARS-1620) or in combination, applying the whole concentration range of calmidazolium combined with 1 μM or 2 μM of DT-061, as indicated. Data represent mean values ± SD, n = 2. Statistical comparisons were done using the average values across all three cell lines. (C) Bliss synergism scores for combinatorial effects of calmidazolium and DT-061 in KRAS- or BRAF-mutant cancer cell lines. Data represent mean values ± SD, n = 2. Positive scores indicate synergistic drug interactions whereas negative scores would denote antagonistic drug interactions. A score of zero would indicate no antagonistic or synergistic effect. ( D ) Flow cytometric analysis of apoptosis in MDA-MB-231 cells. MDA-MB-231 cells were treated with DT-061 (10 μM) or calmidazolium (5 μM) or their combination for 24 h and then labelled with Annexin V-FITC and 7AAD. Benzethonium chloride and DMSO treated cells were used as positive and negative controls, respectively, for setting the gates. Percentage of total apoptotic cells (early and late stage) from two biological repeats (mean ± SD) is presented. Statistical analysis was performed using Fisher’s exact test comparing the total number of viable and apoptotic cells from two biological repeats. ( E ) Effect of inhibitors on cellular apoptosis studied using Caspase-3/7Glo assay. MDA-MB-231 cells were treated with DT-061 (5 μM), calmidazolium (5 μM), combination of DT-061 and calmidazolium (5 μM each), and staurosporine (1 μM) for 24 h. The caspase-3/7 activity was measured as a luminescence read-out and normalized to the vehicle control, 0.05% (v/v) DMSO. Data represent mean values ± SD, n = 2. ( F ) Western blot analysis of PARP-cleavage activity in MDA-MB-231 cells treated with DMSO (0.2% (v/v)), DT-061 (20 μM), calmidazolium (5 μM), combinations of DT-061 (10 μM) and calmidazolium (5 μM), and staurosporine (1 μM) for 24 h. GAPDH detection was used as loading control.

    Article Snippet: The normalized viability data for the siRNA knockdown of each gene of interest were downloaded from the project DRIVE and a double gradient heatmap plot was generated using Prism (GraphPad).

    Techniques: Knockdown, Mutagenesis, Concentration Assay, Activity Assay, Control, Western Blot