Statistical analyses were performed using GraphPad Prism 6 for Mac OS X (version 6.0b; GraphPad Software Inc., San Diego, CA). The comparisons of the arterial pressure and markers in urine and plasma among groups were analyzed by using analysis of variance (non-parametric Kruskal–Wallis test) followed by Dunn’s multiple comparisons test. Wilcoxon matched-pairs signed rank test (two-tailed) was used to analyze the effect of surgical management on the hydronephrotic group. Data are shown as a box and whiskers (5–95 percentile) graph. Linear regression analysis and the Pearson r correlation was used to test for the association between MAG3 and mean arterial pressure. Statistical significance was defined as p < 0.05.
Prism 6 for mac os x
Manufactured by GraphPad
Sourced in United States
Prism 6 for Mac OS X is a data analysis and graphing software developed by GraphPad. It provides tools for curve fitting, data analysis, and graph creation. The software is designed to run on the Mac operating system.
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Lab products found in correlation
Spss statistics 21 for windows, by IBM (2 mentions)
Blebbistatin, by Merck Group (1 mentions)
Di 4 anepps, by Thermo Fisher Scientific (1 mentions)
Dofetilide, by Merck Group (1 mentions)
Flecainide, by Merck Group (1 mentions)
Nickel beads, by Thermo Fisher Scientific (1 mentions)
Igor pro version 6, by Wavemetrics (1 mentions)
Stata ic 12, by StataCorp (1 mentions)
Infinium hd methylation assay, by Illumina (1 mentions)
Prism 5, by GraphPad (1 mentions)
32 protocols using prism 6 for mac os x
1
Hydronephrosis and Arterial Pressure
2
Statistical Analysis of Viral Pathogenesis
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Differences in the vdUTPase activity, IL1β amounts, Vmax values, Kcat values, Km values, plaque sizes, luciferase signaling, or dUTPase activity in the cell cultures or mice were statistically analyzed using ANOVA and Tukey’s test. Differences in viral yields in the brains of mice, viral yields from cell cultures or vdUTPase amounts were statistically analyzed using ANOVA and Tukey’s test or a two-tailed Student’s t test. Differences in viral yields from the eyes, TG or brains of mice, protein concentrations, peptide concentrations, numbers of PLA puncta per cell, dUTPase amounts, or relative cell viability were statistically analyzed using a two-tailed Student’s t test or Welch’s t-test. Differences in the mortality of infected mice were statistically analyzed by the Log-rank test. A P value < 0.05 was considered statistically significant. Student’s or Welch’s t-tests were performed in Microsoft Excel (Version 15. 23). Multiple comparison and Log-rank tests were performed in Microsoft Excel for MAC or GraphPad Prism 6 for MAC OS X (GraphPad Software, San Diego, CA). No methods were used to determine whether the data meet assumptions of the statistical approach.
3
Correlating Methylation and Clinical Factors
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Demographic and clinical characteristics were compared using a nonparametric Mann-Whitney U-test for continuous variables and are presented as median values (range). Categorical variables were compared using Fisher's exact test or chi-square test, as appropriate, and are presented as numbers (%). Spearman's partial correlation was used to adjust the results for all potential confounders (age, BMI, diabetes mellitus, and hypertension). Differences were considered statistically significant at P<0.05. Gene methylation results were controlled for multiple comparisons, and differences were considered significant at P<0.002. All P-values were obtained from two-sided tests, and all statistical analyses were performed using GraphPad Prism 6 for Mac OS X (GraphPad Software, San Diego, CA, USA) or the SPSS version 19.0 statistical package for Mac OS X (SPSS Inc., Chicago, IL, USA).
4
Prion Disease in Mice Inoculation
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To further characterize the No. 13-7 and x124 isolates, they were inoculated into C57BL/6 mice after isoflurane anesthesia as previously described. 38 Mice (n ¼ 23 for x124, n ¼ 21 for No. 13-7) were concurrently inoculated by the intracranial (20 ml) and intraperitoneal (100 ml) routes using the same 10% brain homogenate as used in sheep. Mice were monitored daily for the development of clinical signs by animal care staff members. When signs suggestive of prion disease such as ataxia, listing or rolling gate, pelvic limb paresis, lethargy, or poor grooming with urine-stained fur were recognizable by observation, animals were humanely euthanized and their brains prepared for analysis by western blot for the identification of PrP Sc as described above except using monoclonal antibody 6H4 (Prionics AG) at a 1:10,000 dilution (0.1 mg/ml).
IPs are expressed as days PI. All animals that died of intercurrent disease or without the development of clinical signs 2 standard deviations or less prior to the average incubation time were included in the calculation of attack rate. Using these criteria to calculate attack rate, 21 mice were included in the x124 inoculation group, and 17 mice were used for the No. 13-7 group. Survival analysis was done using GraphPad Prism 6 for Mac OSX (GraphPad Software, San Diego, CA).
IPs are expressed as days PI. All animals that died of intercurrent disease or without the development of clinical signs 2 standard deviations or less prior to the average incubation time were included in the calculation of attack rate. Using these criteria to calculate attack rate, 21 mice were included in the x124 inoculation group, and 17 mice were used for the No. 13-7 group. Survival analysis was done using GraphPad Prism 6 for Mac OSX (GraphPad Software, San Diego, CA).
5
Optical Mapping of Cardiac Arrhythmia
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We used the voltage sensitive dye AminoNaphthylEthenylPyridinium (Di-4-ANEPPS)(Life Technologies) at 10 μM24 (link). Blebbistatin 10 μM (Sigma-Aldrich) was employed to avoid motion artifact25 (link). Images were captured using an electron multiplying charge coupled device (EMCCD) camera (Cascade 128+, Cascade Evolve, Photometric, Tucson, AZ, U.S.A). Arrhythmia induction was carried out using rapid pacing protocols (median cycle length (CL) = 200 ms, range 150–300 ms) or burst pacing (CL of 50 ms for 30 seconds). The AADs flecainide (Sigma-Aldrich) and dofetilide (Sigma-Aldrich) were added to the culture dish in sequentially increasing concentrations after arrhythmia induction (see Supplement). Signal processing of the optically mapped data was performed using a custom IDL software program or Scroll software. Further details are provided in the Data Supplement.
Statistical Analysis was performed using Prism 6 for MacOS X (GraphPad Software Inc, 2014). Univariate testing was performed using the Student’s t -test or the Mann–Whitney U test. Paired data were compared using the paired t -test.
Statistical Analysis was performed using Prism 6 for MacOS X (GraphPad Software Inc, 2014). Univariate testing was performed using the Student’s t -test or the Mann–Whitney U test. Paired data were compared using the paired t -test.
6
Survival Analysis of Merkel Cell Carcinoma
7
Purification and Binding Assay of TCF/Pan
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A His-tagged fragment of TCF/Pan containing both the HMG and C-Clamp domains was purified from E.coli strain BL21 following IPTG induction for 4 hours @ 37° using column purification on Nickel beads (Invitrogen) with Immidazole elution. LB growth media supplemented with 10 uM ZnCl. dsDNA probes were purchased from IDT and labeled probe was tagged with a 5′ 700 IR moiety on both strands. Competition assays were performed using the LI-COR Odyssey Infrared platform, and infrared intensity of the IR dye-labeled probe/protein complexes were calculated using Image Studio 2.0. The IC50 values were calculated using Prism 6 for Mac OS X (Graphpad Software, La Jolla California), as were the saturation binding curves. Three independent experiments were used to perform a least-squares non-linear fit. Binding reactions were performed as described in [44] (link), briefly, with 50 ug/ml poly(dIdC). 0.05% NP40, 50 mM MgCl2 and 3.5% glycerol in binding buffer (10 mM Tris-HCl, pH 7.5, 50 mM KCl, 1 mM DTT). Each reaction, containing 6 pmol recombinant protein and 0–2.4 pmol competitor dsDNA (dose indicated in figure 4A ) was incubated for 5 min on ice, 25 minutes at RT before 20 fmol IR-dye labeled probe was added and reactions were incubated for an additional 30 minutes. A complete list of the probes used can be found in Table S1 .
8
Statistical Analysis of Experimental Data
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Statistical analysis was performed on Prism 6 for Mac OS X (Version 6.0 d, GraphPad Software, Inc., CA, USA). Data is represented as mean ± SD. All analysis were performed using unpaired t-test and p < 0.05 was considered to be statistically significant. All results are expressed in triplicates unless otherwise specified.
9
Statistical Analysis of Flow Cytometry
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All statistical analyses were performed in Prism 6 for Mac OS X (GraphPad Software, La Jolla, CA, USA). P-values were calculated by the student's t-test if not indicated otherwise. P-values <0.05 were considered statistically significant. Asterisks were used to illustrate statistical significance: * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001, ns – not significant.
Flow cytometry data analysis was performed in FlowJo (Ashland, OR, USA).
Flow cytometry data analysis was performed in FlowJo (Ashland, OR, USA).
10
Quantitative Analysis of Calcium Currents
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Igor Pro version 6 (WaveMetrics, Portland, OR) was used to analyze current traces. Cell membrane capacitance was calculated from uncompensated capacitive current recordings using the equation Cm = Q/V where Cm is the cell membrane capacitance (in pF), Q is the charge stored in the capacitor/cell membrane (in coulombs, derived from integrating the area under the capacitive transient current) and V is the amplitude of the voltage step (in volts). ICa amplitude was measured isochronally 10 ms after the initiation of the voltage step. ICa density (pA/pF) was calculated by dividing ICa amplitude by Cm.
Statistical tests were performed with Prism 6 for Mac OS X (GraphPad Software, La Jolla, CA). All data were expressed as mean ± SEM. Statistical significance between two groups was determined using an unpaired Student's t tests. Comparisons of multiple groups against a pooled control was done using one-way analysis of variance (ANOVA) followed by a Dunnett's post-test. P<0.05 was considered statistically significant.
Statistical tests were performed with Prism 6 for Mac OS X (GraphPad Software, La Jolla, CA). All data were expressed as mean ± SEM. Statistical significance between two groups was determined using an unpaired Student's t tests. Comparisons of multiple groups against a pooled control was done using one-way analysis of variance (ANOVA) followed by a Dunnett's post-test. P<0.05 was considered statistically significant.
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