Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: Timeline of the complete data set that is reiteratively processed through data analysis pipelines. A Timeline for experiments. After a synchronized egg lay, neurons are injured (or not injured, in the case of control uninjured neurons) at 24, 36, 48, or 72 h after egg laying (AEL). Animals are then recovered, and continue to develop. Neurons are imaged at 24 h after injury (AI) or after mock injury (for uninjured neurons, AMI) and again at 72 h AMI. B Representative image of an injured & regenerated neuron, balded at 24 h AEL and imaged at 72 h AI. C ImageJ hand tracing analysis of the neuron in panel B . D DeTerm analysis of neuron in panel B . Purple dots are branch tips counted by DeTerm before manual correction. Blue shading indicates the area marked as outside the dendrite arbor. E Imaris reconstruction of neuron in panel B . F ImageJ (blue) hand tracing analysis overlayed above DeTerm terminal branch detection (pink) output and Imaris neuron reconstruction (yellow). Branches traced by both ImageJ and Imaris appear green

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques: Control

Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: With significant manual correction, DeTerm generally counts the correct number of dendrite branch tips, but does not measure total dendrite length. A Average number of manual corrections required for neurons at each stage, whether uninjured (top) or injured (bottom), imaged 24 h A(M)I (blue) and 72 h A(M)I (gray), ± standard deviation error bars. B For neurons either injured at 24 h AEL, 36 h AEL, 48 h AEL, or 72 h AEL or uninjured controls, imaged at 24 h A(M)I (after injury or after mock injury) or 72 h A(M)I, the total number of branches counted by hand tracing in ImageJ or DeTerm is shown. Individual neurons are shown in gray (line connects the quantification of the same neuron), average ± standard deviation error bars are in black. ** p < 0.01 by paired t-test

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques: Standard Deviation

Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: With manual correction, Imaris counts the correct number of dendrite branch tips, but significantly underestimates total dendrite length. A Total number of branches counted by hand tracing in ImageJ or by reconstruction in Imaris is shown. Individual neurons are shown in gray (lines connect the quantification of the same neuron), average ± standard deviation error bars are in black. None of the pairwise comparisons are significantly different. B Total dendrite length measured by hand tracing in ImageJ or by reconstruction in Imaris is shown. * p < 0.05, ** p < 0.01 statistically significant difference by pairwise t-test. Absence of an asterisk indicates no significant difference was observed

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques: Standard Deviation

Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: DeTerm and Imaris both generally count the correct number of dendrite branches on average, though DeTerm overcounts in one condition. Total number of branches counted by hand tracing in ImageJ or by automated analysis in DeTerm or by reconstruction in Imaris is shown. Individual neurons are shown in gray (lines connect the quantification of the same neuron), average ± standard deviation error bars are in black. ** p < 0.01 by one-way ANOVA with Tukey’s multiple corrections test, otherwise no statistical difference was found

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques: Standard Deviation

Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: Average Tracing Times ( n = 10). Hand tracing takes significantly longer than Imaris or DeTerm

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques:

Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: Tireless tracing genie consistently overestimates dendrite length. Average total dendrite length measured by hand tracing in ImageJ or by Tireless tracing genie is shown ± standard deviation. * p < 0.05, ** p < 0.01 statistically significant difference by pairwise t-test. Absence of an asterisk indicates no significant difference was observed.

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques: Standard Deviation

Journal: Neuroinformatics

Article Title: Comparing Automated Morphology Quantification Software on Dendrites of Uninjured and Injured Drosophila Neurons

doi: 10.1007/s12021-021-09532-9

Figure Lengend Snippet: Comparison to Thompson-Peer et al. ( 2016 ). Automated pipelines compared to manual tracing in their ability to detect major similarities and differences between uninjured and regenerated neurons

Article Snippet: In order to compare the results between ImageJ, DeTerm, and Imaris, the statistical significance of total dendrite branches was determined using a one-way ANOVA test followed by Tukey’s multiple corrections test, in Prism 8 (GraphPad, San Diego, CA).

Techniques: Comparison