Prism 7

Manufactured by GraphPad

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GraphPad Prism 7 is a data analysis and graphing software. It provides tools for data organization, curve fitting, statistical analysis, and visualization. Prism 7 supports a variety of data types and file formats, enabling users to create high-quality scientific graphs and publications.

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Lab products found in correlation

Spss 22, by IBM (215 mentions) Spss 20, by IBM (138 mentions) Sas 9, by SAS Institute (136 mentions) Spss 24, by IBM (105 mentions) Spss 21, by IBM (87 mentions) Spss 23, by IBM (87 mentions) Spss 19, by IBM (74 mentions) Spss 25, by IBM (71 mentions) Sas version 9, by SAS Institute (59 mentions) Spss 26, by IBM (54 mentions) Matlab, by MathWorks (49 mentions) Spss version 22, by IBM (46 mentions) Spss statistic, by IBM (44 mentions) Spss statistics 25, by IBM (38 mentions) Spss version 23, by IBM (36 mentions) Spss statistics 24, by IBM (34 mentions) Microsoft excel, by GraphPad (34 mentions) Spss statistics 23, by IBM (33 mentions) Prism 8, by GraphPad (32 mentions) Spss version 20, by IBM (31 mentions)

32 527 protocols using prism 7

Statistical Analysis Methods for Experimental Data

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Data shown are the means ± SD or SEM. Differences in the means between two groups were analyzed by performing an unpaired t test (Prism 7.0) if the data were normally distributed and the samples had equal variance, or by performing a non-parametric test (Mann–Whitney U test, Prism 7.0) if the data were not normally distributed. Means of more than two groups were analyzed by performing one-way ANOVA followed by the Dunnett multiple comparisons test (Prism 7.0) if the data were followed a Gaussian distribution and had equal variance, or by performing the Kruskal-Wallis test followed by Dunn’s multiple comparisons test (Prism 7.0) if the data were not normally distributed. The Kolmogorov-Smirnov test (Prism 7.0) was used to determine if the data followed a Gaussian distribution. The homogeneity of variance test (SPSS 22.0) or the Brown-Forsythe test (Prism 7.0) was used to test for equal variance. Differences with p < 0.05 were considered significant.

Wang T., Teng K., Liu G., Liu Y., Zhang J., Zhang X., Zhang M., Tao Y, & Zhong J. (2018). Lactobacillus reuteri HCM2 protects mice against Enterotoxigenic Escherichia coli through modulation of gut microbiota. Scientific Reports, 8, 17485.

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Kinetic and Functional Binding Assays

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Competition binding data were normalized to specific binding in the absence of drug. Three or more independent competition experiments were conducted with duplicate determinations. Data was analyzed with GraphPAD Prism7 (La Jolla, CA), and IC₅₀ values were converted to K_i values using the Cheng-Prusoff equation (Cheng and Prusoff, 1973 (link)) using K_d values previously determined (Eshleman et al., 2013 (link)). Differences in affinities were assessed by one-way ANOVA using the logarithms of K_i values and Dunnett’s multiple comparison test compared test compounds to a drug standard as noted. In uptake assays, IC₅₀ values were determined using Prism7. The DAT/SERT ratio was determined by dividing 1/(DAT IC₅₀) by 1/(SERT IC₅₀), with higher values indicating more DAT selectivity (Baumann et al. 2012 (link)).
For release assays, fractional release was defined as radioactivity in a fraction divided by the total radioactivity remaining in cells. The area under the curve (AUC) for each time course was calculated using Prism7 with baseline defined as the average of the two lowest fractions. For each experiment, the basal release AUC in the absence of drug was subtracted from each AUC before normalizing to the percent of maximal METH-stimulated release. Prism7 was used to calculate EC₅₀ values using sigmoidal nonlinear regression.

Eshleman A.J., Nagarajan S., Wolfrum K.M., Reed J.F., Swanson T.L., Nilsen A, & Janowsky A. (2018). Structure-activity relationships of bath salt components: substituted cathinones and benzofurans at biogenic amine transporters. Psychopharmacology, 236(3), 939-952.

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Microbiota Profiling for Cerebrovascular Risk

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Test of normality was performed before the parametric analysis of Student’s t test and one-way ANOVA. Student’s t test: Unpaired parametric t test (two-tailed) was performed in data comparison of two groups in Prism7. Error bar represents SD. One-way ANOVA: No matching or pairing ANOVA was performed in data comparison of three groups or more in Prism7. Result was corrected for multiple comparisons using statistical hypothesis testing (Dunnett). Error bar represents SD. ROC analysis: In the current study, ROC analysis has been used to evaluate whether including relative abundance of gut microbiota, and/or the level of inflammaging markers, in addition to the usually used epidemiological characteristics parameters could increase the distinguishing efficacy for alarming moderate-severe aCSVD (burden = 2 to 4). Binary logistic regression was performed with the dependent parameter of grouping (two groups, aCSVD burden = 0 to 1 as false positives, and aCSVD burden = 2 to 4 as true positives) with the indicated covariates in SPSS. Probabilities were calculated in SPSS and subjected to Prism7 for ROC curve description. Spearman correlation: Correlation between every pair of datasets was computed with Pearson correlation coefficients. The value of r was visualized with heatmap in Prism7. Expression level of mRNA was interpreted as delta CT log₂ in Spearman correlation analysis.

Cai W., Chen X., Men X., Ruan H., Hu M., Liu S., Lu T., Liao J., Zhang B., Lu D., Huang Y., Fan P., Rao J., Lei C., Wang J., Ma X., Zhu Q., Li L., Zhu X., Hou Y., Li S., Dong Q., Tian Q., Ai L., Luo W., Zuo M., Shen L., Xie C., Song H., Xu G., Zheng K., Zhang Z., Lu Y., Qiu W., Chen T., Xiang A.P, & Lu Z. (2021). Gut microbiota from patients with arteriosclerotic CSVD induces higher IL-17A production in neutrophils via activating RORγt. Science Advances, 7(4), eabe4827.

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Robust Statistical Analysis of Biological Data

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Data are presented as mean ± SD. For quantification with two groups, Mann–Whitney test was used to assess statistical significance with GraphPad Prism 7. For quantification with more than two groups, one‐way ANOVA analysis followed by Tukey’s test (Data with normal distribution) or Kruskal–Wallis test followed by Dunn’s test (Data with non‐normal distribution) was used to assess statistical significance with GraphPad Prism 7. For quantification with two or more groups and groups that have subgroups, two‐way ANOVA analysis was used to assess statistical significance with GraphPad Prism 7. Data for two‐way ANOVA analysis were normally distributed (Shapiro–Wilk normality test). Kaplan–Meier survival curves were generated using GraphPad Prism 7 and analyzed using the log‐rank test, which is generally used for survival analysis (Cheng et al, 2013; Zhou et al, 2017). P value < 0.05 was considered statistically significant. Detailed information is described in each figure panel. Exact P values are reported in Appendix Table S3. Randomization was used for animal studies. The studies were not performed blindly. Except for microarray experiment, similar results were obtained from three independent experiments.

Tao W., Zhang A., Zhai K., Huang Z., Huang H., Zhou W., Huang Q., Fang X., Prager B.C., Wang X., Wu Q., Sloan A.E., Ahluwalia M.S., Lathia J.D., Yu J.S., Rich J.N, & Bao S. (2020). SATB2 drives glioblastoma growth by recruiting CBP to promote FOXM1 expression in glioma stem cells. EMBO Molecular Medicine, 12(12), e12291.

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Quantitative Virus Particle Binding Assay

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Each BLI experiment was repeated at least twice. Representative experiments were graphed. Initial binding rates, corresponding to the sloops of the binding curves during the first few minutes of the virus-binding experiments, were determined by second order polynominal equation (GraphPad Prism 7.04). The correlation between virus particle numbers and the initial binding rate was determined by linear regression and Pearson r analysis using GraphPad Prism 7.04 software. Significant differences between curves were analyzed by univariate analysis of variance model using IBM SPSS statistic 24. Fractional receptor densities correlating with half maximum initial binding rates were determined by non-linear regression analysis using GraphPad Prism 7.04 software. Significance analysis was based on two tailed unpaired t test or one way ANOVA followed by Tukey’s multiple comparisons test (GraphPad Prism 7.04).

Guo H., Rabouw H., Slomp A., Dai M., van der Vegt F., van Lent J.W., McBride R., Paulson J.C., de Groot R.J., van Kuppeveld F.J., de Vries E, & de Haan C.A. (2018). Kinetic analysis of the influenza A virus HA/NA balance reveals contribution of NA to virus-receptor binding and NA-dependent rolling on receptor-containing surfaces. PLoS Pathogens, 14(8), e1007233.

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Statistical Analysis Methods for Biological Data

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For comparisons between two groups, data were analyzed by Welch’s t-test for normally distributed data and the Mann–Whitney U test for data not normally distributed, using Graph Pad Prism 7. For repeated samples, data were analyzed by paired t-test. Correlation was analyzed by the Pearson correlation using Graph Pad Prism 7. All tests are two-tailed. Statistical analyzes of the data were performed using Prism 7 software for the number of animals for each experiment indicated in the figure legends. Means and SEMs are reported for all experiments. For comparisons between multiple groups, ANOVA followed by Tukey’s test was used for normally distributed data. The nonparametric Kruskal–Wallis test followed by Dunn’s correction was used for data that were not normally distributed. Experiments were carried out independently twice (Figs. 2b, c, 4a, b, 5b, c, h–j, 7b and Supplementary Figs. 1f, 3a–f, 5, 7f, 8f), three times (Fig. 1b, h–j, 2d–k, 3, 4c–h, 5e–f, 6c–d, 7c, g, and Supplementary Figs. 1a–d, 2b–f, i–j, 3g–l, 4a–c, f–i, 6, 7d–e, 8, 9a–d and 10), or four or more times (Figs. 1c–f, 6e–g, 7d–f and Supplementary Figs. 2g, i, 4d, e, 9e–h).

Li H.Q, & Spitzer N.C. (2020). Exercise enhances motor skill learning by neurotransmitter switching in the adult midbrain. Nature Communications, 11, 2195.

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Statistical Analysis of Biological Data

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Li H.Q., Jiang W., Ling L., Gupta V., Chen C., Pratelli M., Godavarthi S.K, & Spitzer N.C. (2023). Generalized fear following acute stress is caused by change in co-transmitter identity of serotonergic neurons. bioRxiv.

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Comparative Survival Analysis of Drug Treatments

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One-way analysis of variance (ANOVA) followed by Tukey’s multiple comparison test was used for comparing three or more groups in Graphpad Prism 7.03. Sample sizes were equal (or nearly so) in all experiments using ANOVA/Tukey. Log-rank test (Mantel-Cox) was done for all three curves in Graphpad Prism 7.03 (p = 0.001) testing the null hypothesis that all the samples come from populations with the same survival and that differences are due to chance. Multiple comparisons of the survival curves using pairwise comparisons between RU486 vs. Gel, RU486 vs. NS and Gel vs. NS was also done in Graphpad Prism 7.03. The statistically significant threshold for multiple comparisons was adjusted using the Bonferroni method (Bonferroni-corrected threshold p = 0.017). Log-rank p value was considered significant if p <0.017. Pairwise comparisons of calculated AUC values was done using Bailer’s method (31 (link)) which takes into account interanimal variability and the pooled estimate of variance. Pharmacokinetic data was generally heterogeneous with high coefficient of variation (%CV) for all compartments and timepoints.

Hoang T., Zierden H., Date A., Ortiz J., Gumber S., Anders N., He P., Segars J., Hanes J., Mahendroo M, & Ensign L. (2018). Development of a mucoinert progesterone nanosuspension for safer and more effective prevention of preterm birth. Journal of controlled release : official journal of the Controlled Release Society, 295, 74-86.

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Analytical Methods for Microbial Dysbiosis

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One-way analysis of variance (ANOVA) followed by Tukey’s multiple comparison test was used for multi-group comparisons in GraphPad Prism 7.03. Student’s t-test (two-tailed, unpaired) was used for comparison between two groups in GraphPad Prism 7.03. Statistics were done using log-transformed values of at 1 s. Repeated samples collected longitudinally from the same participant were excluded for statistical analysis. Pearson correlation coefficient (two-tailed) was calculated in GraphPad Prism 7.03 for pH, D-LA and total LA versus log₁₀ MSD values for pooled analyses. Sensitivity, specificity and positive and negative predictive values were calculated for BV diagnosis by Nugent score using 16S rDNA as the reference standard or true diagnosis.

Hoang T., Toler E., DeLong K., Mafunda N.A., Bloom S.M., Zierden H.C., Moench T.R., Coleman J.S., Hanes J., Kwon D.S., Lai S.K., Cone R.A, & Ensign L.M. (2020). The cervicovaginal mucus barrier to HIV-1 is diminished in bacterial vaginosis. PLoS Pathogens, 16(1), e1008236.

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Statistical Analysis of TNBC Xenograft Assays

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Statistical analysis was carried out with Graphpad Prism 7.03 (GraphPad Software, Inc., La Jolla, CA). Tube formation, migration, and the metastasis and the survival rates in human TNBC xenografts were analyzed using the two-way ANOVA test of Graphpad Prism 7.03. IHC comparison, western blotting, luciferase activity, and MMP assays were analyzed using the one-way ANOVA test of Graphpad Prism 7.03. Results are presented as the mean ± SD unless otherwise specified. Differences were considered statistically significant at p < 0.05.

Shin S.U., Cho H.M., Das R., Gil-Henn H., Ramakrishnan S., Al Bayati A., Carroll S.F., Zhang Y., Sankar A.P., Elledge C., Pimentel A., Blonska M, & Rosenblatt J.D. (2021). Inhibition of Vasculogenic Mimicry and Angiogenesis by an Anti-EGFR IgG1-Human Endostatin-P125A Fusion Protein Reduces Triple Negative Breast Cancer Metastases. Cells, 10(11), 2904.

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