{"title":"Semantic segmentation of human cell nucleus using deep U-Net and other versions of U-Net models.","authors":"Yadavendra, Satish Chand","doi":"10.1080/0954898X.2022.2096938","DOIUrl":"https://doi.org/10.1080/0954898X.2022.2096938","url":null,"abstract":"<p><p>The deep learning models play an essential role in many areas, including medical image analysis. These models extract important features without human intervention. In this paper, we propose a deep convolution neural network, named as deep U-Net model, for the segmentation of the cell nucleus, a critical functional unit that determines the function and structure of the body. The nucleus contains all kinds of DNA, RNA, chromosomes, and genes governing all life activities, and its disorder may lead to different types of diseases such as cancer, heart disease, diabetes, Alzheimer's, etc. If the nucleus structure is known correctly, diseases due to nucleus disorder may be detected early. It may also reduce the drug discovery time if the shape and size of the nucleus are known. We evaluate the performance of the proposed models on the nucleus segmentation data set used by the Data Science Bowl 2018 competition hosted by Kaggle. We compare its performance with that of the U-Net, Attention U-Net, R2U-Net, Attention R2U-Net, and both versions of the U-Net++ with and without supervision, in terms of loss, dice coefficient, dice loss, intersection over union, and accuracy. Our model performs better than the existing models.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"167-186"},"PeriodicalIF":7.8,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40587974","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Extraction of the association rules from artificial neural networks based on the multiobjective optimization.","authors":"Dounia Yedjour, Hayat Yedjour, Samira Chouraqui","doi":"10.1080/0954898X.2022.2137258","DOIUrl":"https://doi.org/10.1080/0954898X.2022.2137258","url":null,"abstract":"<p><p>Artificial Neural Network (ANN) is one of the powerful techniques of machine learning. It has shown its effectiveness in both prediction and classification problems. However, in some fields there is still some reticence towards their use mainly the fact that they do not justify their answers. The lack of transparency on how ANN makes decisions motivated us to develop our rule extraction algorithm that extracts comprehensible rules with high accuracy and high fidelity. The aim is to generate a set of rules that mimic the decision of ANN and cover a larger set of patterns. The obtained rule sets should satisfy a well-balanced trade-off between the fidelity, the accuracy and the comprehensibility. The proposed algorithm consists of a three steps: ANN learning phase, rule extraction phase and rule simplification phase. The rule extraction phase is based on the extraction of the association rules while the rules simplification procedure is based on the laws of Boolean algebra. To evaluate the performance of our algorithm, the system has been studied using four datasets, and then compared with other rule extraction methods. The results show that our proposal offers a small set of rules having the highest accuracy and fidelity values.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"233-252"},"PeriodicalIF":7.8,"publicationDate":"2022-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40341361","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Christoph Redies, Jan Hänisch, Marko Blickhan, Joachim Denzler
{"title":"Artists portray human faces with the Fourier statistics of complex natural scenes.","authors":"Christoph Redies, Jan Hänisch, Marko Blickhan, Joachim Denzler","doi":"10.1080/09548980701574496","DOIUrl":"https://doi.org/10.1080/09548980701574496","url":null,"abstract":"<p><p>When artists portray human faces, they generally endow their portraits with properties that render the faces esthetically more pleasing. To obtain insight into the changes introduced by artists, we compared Fourier power spectra in photographs of faces and in portraits by artists. Our analysis was restricted to a large set of monochrome or lightly colored portraits from various Western cultures and revealed a paradoxical result. Although face photographs are not scale-invariant, artists draw human faces with statistical properties that deviate from the face photographs and approximate the scale-invariant, fractal-like properties of complex natural scenes. This result cannot be explained by systematic differences in the complexity of patterns surrounding the faces or by reproduction artifacts. In particular, a moderate change in gamma gradation has little influence on the results. Moreover, the scale-invariant rendering of faces in artists' portraits was found to be independent of cultural variables, such as century of origin or artistic techniques. We suggest that artists have implicit knowledge of image statistics and prefer natural scene statistics (or some other rules associated with them) in their creations. Fractal-like statistics have been demonstrated previously in other forms of visual art and may be a general attribute of esthetic visual stimuli.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"235-48"},"PeriodicalIF":7.8,"publicationDate":"2007-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1080/09548980701574496","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40960593","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Estimating sparse spectro-temporal receptive fields with natural stimuli.","authors":"Stephen V David, Nima Mesgarani, Shihab A Shamma","doi":"10.1080/09548980701609235","DOIUrl":"https://doi.org/10.1080/09548980701609235","url":null,"abstract":"<p><p>Several algorithms have been proposed to characterize the spectro-temporal tuning properties of auditory neurons during the presentation of natural stimuli. Algorithms designed to work at realistic signal-to-noise levels must make some prior assumptions about tuning in order to produce accurate fits, and these priors can introduce bias into estimates of tuning. We compare a new, computationally efficient algorithm for estimating tuning properties, boosting, to a more commonly used algorithm, normalized reverse correlation. These algorithms employ the same functional model and cost function, differing only in their priors. We use both algorithms to estimate spectro-temporal tuning properties of neurons in primary auditory cortex during the presentation of continuous human speech. Models estimated using either algorithm, have similar predictive power, although fits by boosting are slightly more accurate. More strikingly, neurons characterized with boosting appear tuned to narrower spectral bandwidths and higher temporal modulation rates than when characterized with normalized reverse correlation. These differences have little impact on responses to speech, which is spectrally broadband and modulated at low rates. However, we find that models estimated by boosting also predict responses to non-speech stimuli more accurately. These findings highlight the crucial role of priors in characterizing neuronal response properties with natural stimuli.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"191-212"},"PeriodicalIF":7.8,"publicationDate":"2007-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1080/09548980701609235","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40960592","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Salamander locomotion-induced head movement and retinal motion sensitivity in a correlation-based motion detector model.","authors":"Jeffrey R Begley, Michael A Arbib","doi":"10.1080/09548980701452875","DOIUrl":"https://doi.org/10.1080/09548980701452875","url":null,"abstract":"<p><p>We report on a computational model of retinal motion sensitivity based on correlation-based motion detectors. We simulate object motion detection in the presence of retinal slip caused by the salamander's head movements during locomotion. Our study offers new insights into object motion sensitive ganglion cells in the salamander retina. A sigmoidal transformation of the spatially and temporally filtered retinal image substantially improves the sensitivity of the system in detecting a small target moving in place against a static natural background in the presence of comparatively large, fast simulated eye movements, but is detrimental to the direction-selectivity of the motion detector. The sigmoid has insignificant effects on detector performance in simulations of slow, high contrast laboratory stimuli. These results suggest that the sigmoid reduces the system's noise sensitivity.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"101-28"},"PeriodicalIF":7.8,"publicationDate":"2007-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1080/09548980701452875","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40960594","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Complex cell pooling and the statistics of natural images.","authors":"Aapo Hyvärinen, Urs Köster","doi":"10.1080/09548980701418942","DOIUrl":"https://doi.org/10.1080/09548980701418942","url":null,"abstract":"<p><p>In previous work, we presented a statistical model of natural images that produced outputs similar to receptive fields of complex cells in primary visual cortex. However, a weakness of that model was that the structure of the pooling was assumed a priori and not learned from the statistical properties of natural images. Here, we present an extended model in which the pooling nonlinearity and the size of the subspaces are optimized rather than fixed, so we make much fewer assumptions about the pooling. Results on natural images indicate that the best probabilistic representation is formed when the size of the subspaces is relatively large, and that the likelihood is considerably higher than for a simple linear model with no pooling. Further, we show that the optimal nonlinearity for the pooling is squaring. We also highlight the importance of contrast gain control for the performance of the model. Our model is novel in that it is the first to analyze optimal subspace size and how this size is influenced by contrast normalization.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"81-100"},"PeriodicalIF":7.8,"publicationDate":"2007-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1080/09548980701418942","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40960595","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Janine M Wotton, Michael J Ferragamo, Mark I Sanderson
{"title":"The emergence of temporal hyperacuity from widely tuned cell populations.","authors":"Janine M Wotton, Michael J Ferragamo, Mark I Sanderson","doi":"","DOIUrl":"","url":null,"abstract":"<p><p>Typically, individual neural cells operate on a millisecond time scale yet behaviorally animals reveal sub-microsecond acuity. Our model resolves this huge discrepancy by using populations of many widely tuned cells to attain sub-microsecond resolution in a temporal discrimination task. An echolocating bat uses its auditory system to locate objects and it demonstrates remarkable temporal precision in psychophysical tasks. Auditory cells were simulated using realistic parameters and connected in three ascending layers with descending projections from auditory cortex. Coincidence detection of firing collicular cells at thalamus and subsequent integration of multiple inputs at cortex, produce an estimate of time represented as the mean of the active cortical population. Multiple estimates allow the model bat to use memory to recognize predictable change in stimuli values. The best performance is produced using cortical feedback and a computation of target time based on combining the current and previous estimates. Temporal hyperacuity is attained through population coding of physiologically realistic cells but depends on the inherent properties of the psychophysical task.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"159-77"},"PeriodicalIF":7.8,"publicationDate":"2004-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40906803","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Neural network model to generate head swing in locomotion of Caenorhabditis elegans.","authors":"Kazumi Sakata, Ryuzo Shingai","doi":"","DOIUrl":"","url":null,"abstract":"<p><p>Computer simulation of the neural network composed of the head neurons of Caenorhabditis elegans was performed to reconstruct the realistic changes in the membrane potential of motoneurons in swinging the head for coordinated forward locomotion. The model neuron had ion channels for calcium and potassium, whose parameters were obtained by fitting the experimental data. Transmission properties of the chemical synapses were set as graded. The neural network involved in forward movement was extracted by tracing the neuronal activity flow upstream from the motoneurons connected to the head muscles. Simulations were performed with datasets, which included all combinations of the excitatory and inhibitory properties of the neurons. In this model, a pulse input entered only from motoneuron VB1, and activation of the stretch receptors on SAA neurons was necessary for the periodic bending. The synaptic output property of each neuron was estimated for the alternate contraction of the dorsal and ventral muscles. The AIB neuron was excitatory, RIV and SMD neurons seemed to be excitatory and RMD and SAA neurons seemed to be inhibitory. With datasets violating Dale's principle for the SMB neuron, AIB neuron was excitatory and RMD neuron was inhibitory. RIA, RIV and SMD neurons seemed to be excitatory.</p>","PeriodicalId":520718,"journal":{"name":"Network (Bristol, England)","volume":" ","pages":"199-216"},"PeriodicalIF":7.8,"publicationDate":"2004-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40906804","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}