Journal: Neuron

Article Title: MUPET – Mouse Ultrasonic Profile ExTraction: A signal processing tool for rapid and unsupervised analysis of ultrasonic vocalizations

doi: 10.1016/j.neuron.2017.04.005

Figure Lengend Snippet: (A) The mouse USV recordings are loaded into MUPET and the syllable detector segments individual syllables by measuring the power spectrum (black lines) in the ultrasonic range and comparing it with a noise threshold. The regions of vocalized activity/non-activity (red boxes; top panel) are used to extract the syllable types from the GF-USV spectral representation (bottom panel). The center (dashed blue line) and duration (red horizontal line) of the GF-USV, and key spectro-temporal features, are automatically measured.

Article Snippet: Using an automated and unsupervised signal processing approach, we report the development of MUPET (Mouse Ultrasonic Profile ExTraction) software, an open access MATLAB ® tool that provides data-driven, high-throughput analyses of USVs.

Techniques: Activity Assay

Journal: Neuron

Article Title: MUPET – Mouse Ultrasonic Profile ExTraction: A signal processing tool for rapid and unsupervised analysis of ultrasonic vocalizations

doi: 10.1016/j.neuron.2017.04.005

Figure Lengend Snippet: Comparison of selected software programs

Article Snippet: Using an automated and unsupervised signal processing approach, we report the development of MUPET (Mouse Ultrasonic Profile ExTraction) software, an open access MATLAB ® tool that provides data-driven, high-throughput analyses of USVs.

Techniques: Comparison, Software, Sequencing, Generated, Selection

Journal: Frontiers in Neuroscience

Article Title: MET Receptor Tyrosine Kinase Regulates Lifespan Ultrasonic Vocalization and Vagal Motor Neuron Development

doi: 10.3389/fnins.2021.768577

Figure Lengend Snippet: Deletion of MET results in severely impaired ultrasonic vocal production and syllable repertoire early postnatally. (A) Quantification of the number of isolation-evoked USVs over the 5-min recording period on P7. n = 37 Cre-, n = 12 cWT, n = 11 cKO. “ ∗∗ ” indicates p < 0.01, “ **** ” indicates p < 0.0001 as analyzed by non-parametric Kruskal-Wallis test and Dunn’s correction for multiple comparisons. (B) Quantification of the duration of isolation-evoked USVs over the 5-min recording period on P7. n = 37 Cre-, n = 12 cWT, n = 11 cKO. “ ∗∗ ” indicates p < 0.01, “ **** ” indicates p < 0.0001 as analyzed by non-parametric Kruskal-Wallis test and Dunn’s correction for multiple comparisons. (C) MUPET boxplot comparing the Cre- repertoire to the cWT repertoire (blue) or cKO repertoire (red). Similarity of the top 5% most frequently used RUs in the Cre negative repertoire indicated by ∗ . Similarity of the top 25% most frequently used RUs in the Cre negative repertoire indicated by top of the box. Similarity of the top 50% most frequently used RUs in the Cre- repertoire indicated by the horizontal line. Similarity of the top 75% most frequently used RUs in the Cre- repertoire indicated by the bottom of the box. Similarity of the top 95% most frequently used RUs in the Cre- repertoire indicated by +. r -values below boxes indicate the overall Pearson correlation coefficient for the entire repertoire. # indicates overall Pearson’s r -values that are significantly different from the Cre- repertoire analyzed using a Fisher r-to-z transformation to make pairwise p -value calculations followed by Bonferroni correction for multiple comparisons. (D) Each repertoire unit (RU) in the Cre- repertoire, displayed in the order of frequency of use. (E,G) Pearson correlation matrices comparing each of the Cre- RUs ( y -axis) to RUs in the cWT repertoire ( x -axis, E ) or cKO repertoire ( x -axis, G ), ordered from most to least similar in shape. Warmer colors indicate higher Pearson correlation, cooler colors indicate lower Pearson correlation. Boxed area shows the number of RUs with Pearson correlations above 0.7, with the corresponding number of RUs indicated in the upper right corner. (F) Each repertoire unit (RU) in the cWT repertoire, displayed in the order of frequency of use. (H) Each repertoire unit (RU) in the cKO repertoire, displayed in the order of frequency of use. Total syllable number in each MUPET repertoire: Cre- = 12,070; cWT = 3,416; cKO = 1,196.

Article Snippet: To assess possible alterations in specific patterns of vocalization, Mice Ultrasonic Profile ExTractor (MUPET) v2.0 , an open-access MATLAB (MATLAB_R2021a) NeuroResource, was used to analyze experience-evoked USVs recorded on P7 and P60.

Techniques: Isolation, Transformation Assay

Journal: Frontiers in Neuroscience

Article Title: MET Receptor Tyrosine Kinase Regulates Lifespan Ultrasonic Vocalization and Vagal Motor Neuron Development

doi: 10.3389/fnins.2021.768577

Figure Lengend Snippet: Sustained vocalization deficits in Met cKO adult mice. (A) Quantification of the number of USVs produced by P60 males paired with females over a 6-min recording period during a direct social interaction task. n = 26 Cre-, 13 cWT, 18 cKO. “ ∗ ” indicates p < 0.05 as analyzed by non-parametric Kruskal-Wallis test and Dunn’s test to correct for multiple comparisons. (B) Quantification of the duration of USVs made by P60 males over the 6-min recording period. n = 26 Cre-, 13 cWT, 18 cKO. “ ∗ ” indicates p < 0.05 as analyzed by non-parametric Kruskal-Wallis test and Dunn’s test to correct for multiple comparisons. (C) Each repertoire unit (RU) in the Cre- repertoire, displayed in the order of frequency of use. (D) Each repertoire unit (RU) in the Cre- high vocalizer repertoire, displayed in the order of frequency of use. Repertoire generated from 13 Cre- recordings with the highest number of calls. (E) Each repertoire unit (RU) in the Cre- low vocalizer repertoire, displayed in the order of frequency of use. Repertoire generated from 13 Cre Negative recordings with the lowest number of calls. (F) Each repertoire unit (RU) in the cWT repertoire, displayed in the order of frequency of use. (G) Each repertoire unit (RU) in the cKO repertoire, displayed in the order of frequency of use. (H) Each repertoire unit (RU) in the cKO high vocalizer repertoire, displayed in the order of frequency of use. Repertoire generated from 5 cKO recordings with the highest number of calls. (I) Each repertoire unit (RU) in the cKO low vocalizer repertoire, displayed in the order of frequency of use. Repertoire generated from 13 cKO recordings with the lowest number of calls. (J–O) Pearson correlation matrices comparing each of the Cre- RUs ( y -axis) to RUs in the Cre- high vocalizer repertoire ( x -axis, J ), Cre- low vocalizer repertoire ( x -axis, K ), cWT repertoire ( x -axis, L ), cKO repertoire ( x -axis, M ), cKO high vocalizer repertoire ( x -axis, N ), or cKO low vocalizer repertoire ( x -axis, O ), ordered from most to least similar in shape. Warmer colors indicate higher Pearson correlation, cooler colors indicate lower Pearson correlation. Boxed area shows the number of RUs with Pearson correlations above 0.7, with the corresponding number of RUs indicated in the upper right corner. (P) MUPET boxplot comparing the Cre- repertoire to each group. Similarity of the top 5% most frequently used RUs in the Cre- repertoire indicated by ∗ . Similarity of the top 25% most frequently used RUs in the Cre- repertoire indicated by top of the box. Similarity of the top 50% most frequently used RUs in the Cre- repertoire indicated by the horizontal line. Similarity of the top 75% most frequently used RUs in the Cre- repertoire indicated by the bottom of the box. Similarity of the top 95% most frequently used RUs in the Cre- repertoire indicated by +. r -values below boxes indicate the overall Pearson correlation coefficient for the entire repertoire. # Indicates overall Pearson’s r -values that are significantly different from the Cre- repertoire analyzed using a Fisher r-to-z transformation to make pairwise p -value calculations followed by Bonferroni correction for multiple comparisons. Total syllable number in each MUPET repertoire: All Cre- = 21,002; Cre- (High Vocalizer) = 14,651; Cre- (Low Vocalizer) = 6,351; cWT = 11,494; All cKO = 6,370; cKO (High Vocalizer) = 4,803; cKO (Low Vocalizer) = 1,567.

Article Snippet: To assess possible alterations in specific patterns of vocalization, Mice Ultrasonic Profile ExTractor (MUPET) v2.0 , an open-access MATLAB (MATLAB_R2021a) NeuroResource, was used to analyze experience-evoked USVs recorded on P7 and P60.

Techniques: Produced, Generated, Transformation Assay

Journal: Cell reports

Article Title: Prenatal environmental stressors impair postnatal microglia function and adult behavior in males

doi: 10.1016/j.celrep.2022.111161

Figure Lengend Snippet: (A) Behavioral testing in offspring born to CON and DEP + MS dams. (B) Representative spectrograms of USVs. (C) MUPET syllable classification. (D and E) USV number and total call time at P8 (n = 14–19 mice/condition/sex, two-way ANOVA with Holm-Sidak’s post hoc tests). (F) Repertoire units were organized from shortest to longest and displayed as the absolute difference between group means. (G and H) Schematic of three-chamber social preference test (n = 6–7 mice/condition/sex, two-way ANOVA with Sidak’s multiple comparisons post hoc tests). (I and J) Schematic of three-chamber social novelty preference test. (n = 6–7 mice/condition/sex, two-way ANOVA, with Sidak’s multiple comparisons post hoc tests). (K) Schematic of USV courtship assay. (L and M) Adult USV syllable length and call time (n = 15–17 mice/condition, unpaired t-tests). (N) Repertoire units organized from shortest to longest are displayed as the absolute difference between group means. Means ± SEM.

Article Snippet: For call complexity analysis, WAV files were analyzed using Mouse Ultrasonic Profile ExTraction Tool (MUPET) in MATLAB, which is an unsupervised machine-learning-based algorithm that analyzes vocalization parameters, classifies syllables into distinct repertoires, and compares vocalization patterns between test groups ( ).

Techniques:

Journal: Cell reports

Article Title: Prenatal environmental stressors impair postnatal microglia function and adult behavior in males

doi: 10.1016/j.celrep.2022.111161

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: For call complexity analysis, WAV files were analyzed using Mouse Ultrasonic Profile ExTraction Tool (MUPET) in MATLAB, which is an unsupervised machine-learning-based algorithm that analyzes vocalization parameters, classifies syllables into distinct repertoires, and compares vocalization patterns between test groups ( ).

Techniques: Staining, Recombinant, Enzyme-linked Immunosorbent Assay, Software, Imaging, Cell Counting