Bridging structural MRI with cognitive function for individual level classification of early psychosis via deep learning.

Recent efforts have been made to apply machine learning and deep learning approaches to the automated classification of schizophrenia using structural magnetic resonance imaging (sMRI) at the individual level. However, these approaches are less accurate on early psychosis (EP) since there are mild structural brain changes at early stage. As cognitive impairments is one main feature in psychosis, in this study we apply a multi-task deep learning framework using sMRI with inclusion of cognitive assessment to facilitate the classification of patients with EP from healthy individuals. Unlike previous studies, we used sMRI as the direct input to perform EP classifications and cognitive estimations. The proposed deep learning model does not require time-consuming volumetric or surface based analysis and can provide additionally cognition predictions. Experiments were conducted on an in-house data set with 77 subjects and a public ABCD HCP-EP data set with 164 subjects. We achieved 74.9 ± 4.3% five-fold cross-validated accuracy and an area under the curve of 71.1 ± 4.1% on EP classification with the inclusion of cognitive estimations. We reveal the feasibility of automated cognitive estimation using sMRI by deep learning models, and also demonstrate the implicit adoption of cognitive measures as additional information to facilitate EP classifications from healthy controls

Automated Classification of Periodic Variable Stars detected by the Wide-field Infrared Survey Explorer

We describe a methodology to classify periodic variable stars identified using photometric time-series measurements constructed from the Wide-field Infrared Survey Explorer (WISE) full-mission single-exposure Source Databases. This will assist in the future construction of a WISE Variable Source Database that assigns variables to specific science classes as constrained by the WISE observing cadence with statistically meaningful classification probabilities. We have analyzed the WISE light curves of 8273 variable stars identified in previous optical variability surveys (MACHO, GCVS, and ASAS) and show that Fourier decomposition techniques can be extended into the mid-IR to assist with their classification. Combined with other periodic light-curve features, this sample is then used to train a machine-learned classifier based on the random forest (RF) method. Consistent with previous classification studies of variable stars in general, the RF machine-learned classifier is superior to other methods in terms of accuracy, robustness against outliers, and relative immunity to features that carry little or redundant class information. For the three most common classes identified by WISE: Algols, RR Lyrae, and W Ursae Majoris type variables, we obtain classification efficiencies of 80.7%, 82.7%, and 84.5% respectively using cross-validation analyses, with 95% confidence intervals of approximately +/-2%. These accuracies are achieved at purity (or reliability) levels of 88.5%, 96.2%, and 87.8% respectively, similar to that achieved in previous automated classification studies of periodic variable stars.Comment: 48 pages, 17 figures, 1 table, accepted by A

Towards the Automatic Classification of Documents in User-generated Classifications

There is a huge amount of information scattered on the World Wide Web. As the information flow occurs at a high speed in the WWW, there is a need to organize it in the right manner so that a user can access it very easily. Previously the organization of information was generally done manually, by matching the document contents to some pre-defined categories. There are two approaches for this text-based categorization: manual and automatic. In the manual approach, a human expert performs the classification task, and in the second case supervised classifiers are used to automatically classify resources. In a supervised classification, manual interaction is required to create some training data before the automatic classification task takes place. In our new approach, we intend to propose automatic classification of documents through semantic keywords and building the formulas generation by these keywords. Thus we can reduce this human participation by combining the knowledge of a given classification and the knowledge extracted from the data. The main focus of this PhD thesis, supervised by Prof. Fausto Giunchiglia, is the automatic classification of documents into user-generated classifications. The key benefits foreseen from this automatic document classification is not only related to search engines, but also to many other fields like, document organization, text filtering, semantic index managing

Galaxy Zoo Supernovae

This paper presents the first results from a new citizen science project: Galaxy Zoo Supernovae. This proof of concept project uses members of the public to identify supernova candidates from the latest generation of wide-field imaging transient surveys. We describe the Galaxy Zoo Supernovae operations and scoring model, and demonstrate the effectiveness of this novel method using imaging data and transients from the Palomar Transient Factory (PTF). We examine the results collected over the period April-July 2010, during which nearly 14,000 supernova candidates from PTF were classified by more than 2,500 individuals within a few hours of data collection. We compare the transients selected by the citizen scientists to those identified by experienced PTF scanners, and find the agreement to be remarkable - Galaxy Zoo Supernovae performs comparably to the PTF scanners, and identified as transients 93% of the ~130 spectroscopically confirmed SNe that PTF located during the trial period (with no false positive identifications). Further analysis shows that only a small fraction of the lowest signal-to-noise SN detections (r > 19.5) are given low scores: Galaxy Zoo Supernovae correctly identifies all SNe with > 8{\sigma} detections in the PTF imaging data. The Galaxy Zoo Supernovae project has direct applicability to future transient searches such as the Large Synoptic Survey Telescope, by both rapidly identifying candidate transient events, and via the training and improvement of existing machine classifier algorithms.Comment: 13 pages, 10 figures, accepted MNRA

Galaxy Zoo: Reproducing Galaxy Morphologies Via Machine Learning

We present morphological classifications obtained using machine learning for objects in SDSS DR6 that have been classified by Galaxy Zoo into three classes, namely early types, spirals and point sources/artifacts. An artificial neural network is trained on a subset of objects classified by the human eye and we test whether the machine learning algorithm can reproduce the human classifications for the rest of the sample. We find that the success of the neural network in matching the human classifications depends crucially on the set of input parameters chosen for the machine-learning algorithm. The colours and parameters associated with profile-fitting are reasonable in separating the objects into three classes. However, these results are considerably improved when adding adaptive shape parameters as well as concentration and texture. The adaptive moments, concentration and texture parameters alone cannot distinguish between early type galaxies and the point sources/artifacts. Using a set of twelve parameters, the neural network is able to reproduce the human classifications to better than 90% for all three morphological classes. We find that using a training set that is incomplete in magnitude does not degrade our results given our particular choice of the input parameters to the network. We conclude that it is promising to use machine- learning algorithms to perform morphological classification for the next generation of wide-field imaging surveys and that the Galaxy Zoo catalogue provides an invaluable training set for such purposes.Comment: 13 Pages, 5 figures, 10 tables. Accepted for publication in MNRAS. Revised to match accepted version

ICLabel: An automated electroencephalographic independent component classifier, dataset, and website

The electroencephalogram (EEG) provides a non-invasive, minimally restrictive, and relatively low cost measure of mesoscale brain dynamics with high temporal resolution. Although signals recorded in parallel by multiple, near-adjacent EEG scalp electrode channels are highly-correlated and combine signals from many different sources, biological and non-biological, independent component analysis (ICA) has been shown to isolate the various source generator processes underlying those recordings. Independent components (IC) found by ICA decomposition can be manually inspected, selected, and interpreted, but doing so requires both time and practice as ICs have no particular order or intrinsic interpretations and therefore require further study of their properties. Alternatively, sufficiently-accurate automated IC classifiers can be used to classify ICs into broad source categories, speeding the analysis of EEG studies with many subjects and enabling the use of ICA decomposition in near-real-time applications. While many such classifiers have been proposed recently, this work presents the ICLabel project comprised of (1) an IC dataset containing spatiotemporal measures for over 200,000 ICs from more than 6,000 EEG recordings, (2) a website for collecting crowdsourced IC labels and educating EEG researchers and practitioners about IC interpretation, and (3) the automated ICLabel classifier. The classifier improves upon existing methods in two ways: by improving the accuracy of the computed label estimates and by enhancing its computational efficiency. The ICLabel classifier outperforms or performs comparably to the previous best publicly available method for all measured IC categories while computing those labels ten times faster than that classifier as shown in a rigorous comparison against all other publicly available EEG IC classifiers.Comment: Intended for NeuroImage. Updated from version one with minor editorial and figure change

Automated Protein Structure Classification: A Survey

Classification of proteins based on their structure provides a valuable resource for studying protein structure, function and evolutionary relationships. With the rapidly increasing number of known protein structures, manual and semi-automatic classification is becoming ever more difficult and prohibitively slow. Therefore, there is a growing need for automated, accurate and efficient classification methods to generate classification databases or increase the speed and accuracy of semi-automatic techniques. Recognizing this need, several automated classification methods have been developed. In this survey, we overview recent developments in this area. We classify different methods based on their characteristics and compare their methodology, accuracy and efficiency. We then present a few open problems and explain future directions.Comment: 14 pages, Technical Report CSRG-589, University of Toront