An image processing based paradigm for the extraction of tonal sounds in cetacean communications.
Ontology highlight
ABSTRACT:
SUBMITTER: Kershenbaum A
PROVIDER: S-EPMC3874055 | biostudies-other | 2013 Dec
REPOSITORIES: biostudies-other
Similar Datasets
Project description:Goal: The evaluation of respiratory events using audio sensing in an at-home setting can be indicative of worsening health conditions. This paper investigates the use of image-based transfer learning applied to five audio visualizations to evaluate three classification tasks (C1: wet vs. dry vs. whooping cough vs. restricted breathing; C2: wet vs. dry cough; C3: cough vs. restricted breathing). Methods: The five visualizations (linear spectrogram, logarithmic spectrogram, Mel-spectrogram, wavelet scalograms, and aggregate images) are applied to a pre-trained AlexNet image classifier for all tasks. Results: The aggregate image-based classifier achieved the highest overall performance across all tasks with C1, C2, and C3 having testing accuracies of 0.88, 0.88, and 0.91 respectively. However, the Mel-spectrogram method had the highest testing accuracy (0.94) for C2. Conclusions: The classification of respiratory events using aggregate image inputs to transfer learning approaches may help healthcare professionals by providing information that would otherwise be unavailable to them.
| S-EPMC9788675 | biostudies-literature
Project description:The regular behavior of sound sources helps us to make sense of the auditory environment. Regular patterns may, for instance, convey information on the identity of a sound source (such as the acoustic signature of a train moving on the rails). Yet typically, this signature overlaps in time with signals emitted from other sound sources. It is generally assumed that auditory regularity extraction cannot operate upon this mixture of signals because it only finds regularities between adjacent sounds. In this view, the auditory environment would be grouped into separate entities by means of readily available acoustic cues such as separation in frequency and location. Regularity extraction processes would then operate upon the resulting groups. Our new experimental evidence challenges this view. We presented two interleaved sound sequences which overlapped in frequency range and shared all acoustic parameters. The sequences only differed in their underlying regular patterns. We inserted deviants into one of the sequences to probe whether the regularity was extracted. In the first experiment, we found that these deviants elicited the mismatch negativity (MMN) component. Thus the auditory system was able to find the regularity between the non-adjacent sounds. Regularity extraction was not influenced by sequence cohesiveness as manipulated by the relative duration of tones and silent inter-tone-intervals. In the second experiment, we showed that a regularity connecting non-adjacent sounds was discovered only when the intervening sequence also contained a regular pattern, but not when the intervening sounds were randomly varying. This suggests that separate regular patterns are available to the auditory system as a cue for identifying signals coming from distinct sound sources. Thus auditory regularity extraction is not necessarily confined to a processing stage after initial sound grouping, but may precede grouping when other acoustic cues are unavailable.
| S-EPMC3356878 | biostudies-other
Project description:In this study, we investigate the ability of the mammalian auditory pathway to adapt its strategy for temporal processing under natural stimulus conditions. We derive temporal receptive fields from the responses of neurons in the inferior colliculus to vocalization stimuli with and without additional ambient noise. We find that the onset of ambient noise evokes a change in receptive field dynamics that corresponds to a change from bandpass to lowpass temporal filtering. We show that these changes occur within a few hundred milliseconds of the onset of the noise and are evident across a range of overall stimulus intensities. Using a simple model, we illustrate how these changes in temporal processing exploit differences in the statistical properties of vocalizations and ambient noises to increase the information in the neural response in a manner consistent with the principles of efficient coding.
| S-EPMC2249929 | biostudies-literature
Project description:The developments of marine observatories and automatic sound detection algorithms have facilitated the long-term monitoring of multiple species of odontocetes. Although classification remains difficult, information on tonal sound in odontocetes (i.e., toothed whales, including dolphins and porpoises) can provide insights into the species composition and group behavior of these species. However, the approach to measure whistle contour parameters for detecting the variability of odontocete vocal behavior may be biased when the signal-to-noise ratio is low. Thus, methods for analyzing the whistle usage of an entire group are necessary. In this study, a local-max detector was used to detect burst pulses and representative frequencies of whistles within 4.5-48 kHz. Whistle contours were extracted and classified using an unsupervised method. Whistle characteristics and usage pattern were quantified based on the distribution of representative frequencies and the composition of whistle repertoires. Based on the one year recordings collected from the Marine Cable Hosted Observatory off northeastern Taiwan, odontocete burst pulses and whistles were primarily detected during the nighttime, especially after sunset. Whistle usage during the nighttime was more complex, and whistles with higher frequency were mainly detected during summer and fall. According to the multivariate analysis, the diurnal variation of whistle usage was primarily related to the change of mode frequency, diversity of representative frequency, and sequence complexity. The seasonal variation of whistle usage involved the previous three parameters, in addition to the diversity of whistle clusters. Our results indicated that the species and behavioral composition of the local odontocete community may vary among seasonal and diurnal cycles. The current monitoring platform facilitates the evaluation of whistle usage based on group behavior and provides feature vectors for species and behavioral classification in future studies.
| S-EPMC4414466 | biostudies-literature
Project description:Activity in the gamma range is related to many sensory and cognitive processes that are impaired in neuropsychiatric conditions. Therefore, individualized measures of gamma-band activity are considered to be potential markers that reflect the state of networks within the brain. Relatively little has been studied in respect of the individual gamma frequency (IGF) parameter. The methodology for determining the IGF is not well established. In the present work, we tested the extraction of IGFs from electroencephalogram (EEG) data in two datasets where subjects received auditory stimulation consisting of clicks with varying inter-click periods, covering a 30-60 Hz range: in 80 young subjects EEG was recorded with 64 gel-based electrodes; in 33 young subjects, EEG was recorded using three active dry electrodes. IGFs were extracted from either fifteen or three electrodes in frontocentral regions by estimating the individual-specific frequency that most consistently exhibited high phase locking during the stimulation. The method showed overall high reliability of extracted IGFs for all extraction approaches; however, averaging over channels resulted in somewhat higher reliability scores. This work demonstrates that the estimation of individual gamma frequency is possible using a limited number of both the gel and dry electrodes from responses to click-based chirp-modulated sounds.
| S-EPMC10007152 | biostudies-literature
Project description:Lipid droplets (LDs) are ubiquitous and highly dynamic subcellular organelles required for the storage of neutral lipids. LD number and size distribution are key parameters affected not only by nutrient supply but also by lipotoxic stress and metabolic regulation. Current methods for LD quantification lack general applicability and are either based on time consuming manual evaluation or show limitations if LDs are high in numbers or closely clustered. Here, we present an ImageJ-based approach for the detection and quantification of LDs stained by neutral lipid dyes in images acquired by conventional wide-field fluorescence microscopy. The method features an adjustable preprocessing procedure that resolves LD clusters. LD identification is based on their circular edges and central fluorescence intensity maxima. Adaptation to different cell types is mediated by a set of interactive parameters. Validation was done for three different cell lines using manual evaluation of LD numbers and volume measurement by 3D rendering of confocal datasets. In an application example, we show that overexpression of the acyl-CoA synthetase, FATP4/ACSVL5, in oleate-treated COS7 cells increased the size of LDs but not their number.
| S-EPMC6602134 | biostudies-literature
Project description:BackgroundLateralized processing of speech is a well studied phenomenon in humans. Both anatomical and neurophysiological studies support the view that nonhuman primates and other animal species also reveal hemispheric differences in areas involved in sound processing. In recent years, an increasing number of studies on a range of taxa have employed an orienting paradigm to investigate lateralized acoustic processing. In this paradigm, sounds are played directly from behind and the direction of turn is recorded. This assay rests on the assumption that a hemispheric asymmetry in processing is coupled to an orienting bias towards the contralateral side. To examine this largely untested assumption, speech stimuli as well as artificial sounds were presented to 224 right-handed human subjects shopping in supermarkets in Germany and in the UK. To verify the lateralized processing of the speech stimuli, we additionally assessed the brain activation in response to presentation of the different stimuli using functional magnetic resonance imaging (fMRI).ResultsIn the naturalistic behavioural experiments, there was no difference in orienting behaviour in relation to the stimulus material (speech, artificial sounds). Contrary to our predictions, subjects revealed a significant left bias, irrespective of the sound category. This left bias was slightly but not significantly stronger in German subjects. The fMRI experiments confirmed that the speech stimuli evoked a significant left lateralized activation in BA44 compared to the artificial sounds.ConclusionThese findings suggest that in adult humans, orienting biases are not necessarily coupled with lateralized processing of acoustic stimuli. Our results -- as well as the inconsistent orienting biases found in different animal species -- suggest that the orienting assay should be used with caution. Apparently, attention biases, experience, and experimental conditions may all affect head turning responses. Because of the complexity of the interaction of factors, the use of the orienting assay to determine lateralized processing of sound stimuli is discouraged.
| S-EPMC2652465 | biostudies-literature
Project description:Microtubules are polar filaments built from αβ-tubulin heterodimers that exhibit a range of architectures in vitro and in vivo. Tubulin heterodimers are arranged helically in the microtubule wall but many physiologically relevant architectures exhibit a break in helical symmetry known as the seam. Noisy 2D cryo-electron microscopy projection images of pseudo-helical microtubules therefore depict distinct but highly similar views owing to the high structural similarity of α- and β-tubulin. The determination of the αβ-tubulin register and seam location during image processing is essential for alignment accuracy that enables determination of biologically relevant structures. Here we present a pipeline designed for image processing and high-resolution reconstruction of cryo-electron microscopy microtubule datasets, based in the popular and user-friendly RELION image-processing package, Microtubule RELION-based Pipeline (MiRP). The pipeline uses a combination of supervised classification and prior knowledge about geometric lattice constraints in microtubules to accurately determine microtubule architecture and seam location. The presented method is fast and semi-automated, producing near-atomic resolution reconstructions with test datasets that contain a range of microtubule architectures and binding proteins.
| S-EPMC6961209 | biostudies-literature
Project description:Tomato fruit phenotypes are important agronomic traits in tomato breeding as a reference index. The traditional measurement methods based on manual observation, however, limit the high-throughput data collection of tomato fruit morphologies. In this study, fruits of 10 different tomato cultivars with considerable differences in fruit color, size, and other morphological characters were selected as samples. Constant illumination condition was applied to take images of the selected tomato fruit samples. Based on image recognition, automated methods for measuring color and size indicators of tomato fruit phenotypes were proposed. A deep learning model based on Mask Region-Convolutional Neural Network (R-CNN) was trained and tested to analyze the internal structure indicators of tomato fruit. The results revealed that the combined use of these methods can extract various important fruit phenotypes of tomato, including fruit color, horizontal and vertical diameters, top and navel angles, locule number, and pericarp thickness, automatically. Considering several corrections of missing and wrong segmentation cases in practice, the average precision of the deep learning model is more than 0.95 in practice. This suggests a promising locule segmentation and counting performance. Vertical/horizontal ratio (fruit shape index) and locule area proportion were also calculated based on the data collected here. The measurement precision was comparable to manual operation, and the measurement efficiency was highly improved. The results of this study will provide a new option for more accurate and efficient tomato fruit phenotyping, which can effectively avoid artificial error and increase the support efficiency of relevant data in the future breeding work of tomato and other fruit crops.
| S-EPMC9044966 | biostudies-literature
Project description:Human infants show spontaneous behaviours such as general movement, goal-directed behaviour, and self-motivated behaviour from a very early age. However, it is unclear how these behaviours are organised throughout development. A major hindrance to empirical investigation is that there is no common paradigm for all ages that can circumvent infants' underdeveloped verbal and motor abilities. Here, we propose a new paradigm, named the image-scratch task, using a gaze-contingent technique that is adaptable to various extents of motor ability. In this task, participants scratch off a black layer on a display to uncover pictures beneath it by using their gaze. We established quantitative criteria for spontaneous eye-movement based on adults' gaze-data and demonstrated that our task is useful for evaluating eye-movements motivated by outcome attractiveness in 8-month-olds. Finally, we discuss the potential of this paradigm for revealing the mechanisms and developmental transitions underlying infants' spontaneous and intentional behaviours.
| S-EPMC4074783 | biostudies-literature