157,173 research outputs found
On Machine-Learned Classification of Variable Stars with Sparse and Noisy Time-Series Data
With the coming data deluge from synoptic surveys, there is a growing need
for frameworks that can quickly and automatically produce calibrated
classification probabilities for newly-observed variables based on a small
number of time-series measurements. In this paper, we introduce a methodology
for variable-star classification, drawing from modern machine-learning
techniques. We describe how to homogenize the information gleaned from light
curves by selection and computation of real-numbered metrics ("feature"),
detail methods to robustly estimate periodic light-curve features, introduce
tree-ensemble methods for accurate variable star classification, and show how
to rigorously evaluate the classification results using cross validation. On a
25-class data set of 1542 well-studied variable stars, we achieve a 22.8%
overall classification error using the random forest classifier; this
represents a 24% improvement over the best previous classifier on these data.
This methodology is effective for identifying samples of specific science
classes: for pulsational variables used in Milky Way tomography we obtain a
discovery efficiency of 98.2% and for eclipsing systems we find an efficiency
of 99.1%, both at 95% purity. We show that the random forest (RF) classifier is
superior to other machine-learned methods in terms of accuracy, speed, and
relative immunity to features with no useful class information; the RF
classifier can also be used to estimate the importance of each feature in
classification. Additionally, we present the first astronomical use of
hierarchical classification methods to incorporate a known class taxonomy in
the classifier, which further reduces the catastrophic error rate to 7.8%.
Excluding low-amplitude sources, our overall error rate improves to 14%, with a
catastrophic error rate of 3.5%.Comment: 23 pages, 9 figure
Active Discriminative Text Representation Learning
We propose a new active learning (AL) method for text classification with
convolutional neural networks (CNNs). In AL, one selects the instances to be
manually labeled with the aim of maximizing model performance with minimal
effort. Neural models capitalize on word embeddings as representations
(features), tuning these to the task at hand. We argue that AL strategies for
multi-layered neural models should focus on selecting instances that most
affect the embedding space (i.e., induce discriminative word representations).
This is in contrast to traditional AL approaches (e.g., entropy-based
uncertainty sampling), which specify higher level objectives. We propose a
simple approach for sentence classification that selects instances containing
words whose embeddings are likely to be updated with the greatest magnitude,
thereby rapidly learning discriminative, task-specific embeddings. We extend
this approach to document classification by jointly considering: (1) the
expected changes to the constituent word representations; and (2) the model's
current overall uncertainty regarding the instance. The relative emphasis
placed on these criteria is governed by a stochastic process that favors
selecting instances likely to improve representations at the outset of
learning, and then shifts toward general uncertainty sampling as AL progresses.
Empirical results show that our method outperforms baseline AL approaches on
both sentence and document classification tasks. We also show that, as
expected, the method quickly learns discriminative word embeddings. To the best
of our knowledge, this is the first work on AL addressing neural models for
text classification.Comment: This paper got accepted by AAAI 201
Optimal set of EEG features for emotional state classification and trajectory visualization in Parkinson's disease
In addition to classic motor signs and symptoms, individuals with Parkinson's disease (PD) are characterized by emotional deficits. Ongoing brain activity can be recorded by electroencephalograph (EEG) to discover the links between emotional states and brain activity. This study utilized machine-learning algorithms to categorize emotional states in PD patients compared with healthy controls (HC) using EEG. Twenty non-demented PD patients and 20 healthy age-, gender-, and education level-matched controls viewed happiness, sadness, fear, anger, surprise, and disgust emotional stimuli while fourteen-channel EEG was being recorded. Multimodal stimulus (combination of audio and visual) was used to evoke the emotions. To classify the EEG-based emotional states and visualize the changes of emotional states over time, this paper compares four kinds of EEG features for emotional state classification and proposes an approach to track the trajectory of emotion changes with manifold learning. From the experimental results using our EEG data set, we found that (a) bispectrum feature is superior to other three kinds of features, namely power spectrum, wavelet packet and nonlinear dynamical analysis; (b) higher frequency bands (alpha, beta and gamma) play a more important role in emotion activities than lower frequency bands (delta and theta) in both groups and; (c) the trajectory of emotion changes can be visualized by reducing subject-independent features with manifold learning. This provides a promising way of implementing visualization of patient's emotional state in real time and leads to a practical system for noninvasive assessment of the emotional impairments associated with neurological disorders
Analysis of group evolution prediction in complex networks
In the world, in which acceptance and the identification with social
communities are highly desired, the ability to predict evolution of groups over
time appears to be a vital but very complex research problem. Therefore, we
propose a new, adaptable, generic and mutli-stage method for Group Evolution
Prediction (GEP) in complex networks, that facilitates reasoning about the
future states of the recently discovered groups. The precise GEP modularity
enabled us to carry out extensive and versatile empirical studies on many
real-world complex / social networks to analyze the impact of numerous setups
and parameters like time window type and size, group detection method,
evolution chain length, prediction models, etc. Additionally, many new
predictive features reflecting the group state at a given time have been
identified and tested. Some other research problems like enriching learning
evolution chains with external data have been analyzed as well
An optimized TOPS+ comparison method for enhanced TOPS models
This article has been made available through the Brunel Open Access Publishing Fund.Background
Although methods based on highly abstract descriptions of protein structures, such as VAST and TOPS, can perform very fast protein structure comparison, the results can lack a high degree of biological significance. Previously we have discussed the basic mechanisms of our novel method for structure comparison based on our TOPS+ model (Topological descriptions of Protein Structures Enhanced with Ligand Information). In this paper we show how these results can be significantly improved using parameter optimization, and we call the resulting optimised TOPS+ method as advanced TOPS+ comparison method i.e. advTOPS+.
Results
We have developed a TOPS+ string model as an improvement to the TOPS [1-3] graph model by considering loops as secondary structure elements (SSEs) in addition to helices and strands, representing ligands as first class objects, and describing interactions between SSEs, and SSEs and ligands, by incoming and outgoing arcs, annotating SSEs with the interaction direction and type. Benchmarking results of an all-against-all pairwise comparison using a large dataset of 2,620 non-redundant structures from the PDB40 dataset [4] demonstrate the biological significance, in terms of SCOP classification at the superfamily level, of our TOPS+ comparison method.
Conclusions
Our advanced TOPS+ comparison shows better performance on the PDB40 dataset [4] compared to our basic TOPS+ method, giving 90 percent accuracy for SCOP alpha+beta; a 6 percent increase in accuracy compared to the TOPS and basic TOPS+ methods. It also outperforms the TOPS, basic TOPS+ and SSAP comparison methods on the Chew-Kedem dataset [5], achieving 98 percent accuracy. Software Availability: The TOPS+ comparison server is available at http://balabio.dcs.gla.ac.uk/mallika/WebTOPS/.This article is available through the Brunel Open Access Publishing Fun
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