KDD : proceedings. International Conference on Knowledge Discovery & Data Mining最新文献

{"title":"Searching and Mining Trillions of Time Series Subsequences under Dynamic Time Warping.","authors":"Thanawin Rakthanmanon, Bilson Campana, Abdullah Mueen, Gustavo Batista, Brandon Westover, Qiang Zhu, Jesin Zakaria, Eamonn Keogh","doi":"10.1145/2339530.2339576","DOIUrl":"10.1145/2339530.2339576","url":null,"abstract":"<p><p>Most time series data mining algorithms use similarity search as a core subroutine, and thus the time taken for similarity search is <i>the</i> bottleneck for virtually all time series data mining algorithms. The difficulty of scaling search to large datasets largely explains why most academic work on time series data mining has plateaued at considering a few millions of time series objects, while much of industry and science sits on billions of time series objects waiting to be explored. In this work we show that by using a combination of four novel ideas we can search and mine truly massive time series for the first time. We demonstrate the following extremely unintuitive fact; in large datasets we can exactly search under DTW much more quickly than the current state-of-the-art <i>Euclidean distance</i> search algorithms. We demonstrate our work on the largest set of time series experiments ever attempted. In particular, the largest dataset we consider is larger than the combined size of all of the time series datasets considered in all data mining papers ever published. We show that our ideas allow us to solve higher-level time series data mining problem such as motif discovery and clustering at scales that would otherwise be untenable. In addition to mining massive datasets, we will show that our ideas also have implications for real-time monitoring of data streams, allowing us to handle much faster arrival rates and/or use cheaper and lower powered devices than are currently possible.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"2012 ","pages":"262-270"},"PeriodicalIF":0.0,"publicationDate":"2012-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6816304/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41222405","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Multi-Source Learning for Joint Analysis of Incomplete Multi-Modality Neuroimaging Data.","authors":"Lei Yuan,&nbsp;Yalin Wang,&nbsp;Paul M Thompson,&nbsp;Vaibhav A Narayan,&nbsp;Jieping Ye","doi":"10.1145/2339530.2339710","DOIUrl":"https://doi.org/10.1145/2339530.2339710","url":null,"abstract":"<p><p>Incomplete data present serious problems when integrating largescale brain imaging data sets from different imaging modalities. In the Alzheimer's Disease Neuroimaging Initiative (ADNI), for example, over half of the subjects lack cerebrospinal fluid (CSF) measurements; an independent half of the subjects do not have fluorodeoxyglucose positron emission tomography (FDG-PET) scans; many lack proteomics measurements. Traditionally, subjects with missing measures are discarded, resulting in a severe loss of available information. We address this problem by proposing two novel learning methods where all the samples (with at least one available data source) can be used. In the first method, we divide our samples according to the availability of data sources, and we learn shared sets of features with state-of-the-art sparse learning methods. Our second method learns a base classifier for each data source independently, based on which we represent each source using a single column of prediction scores; we then estimate the missing prediction scores, which, combined with the existing prediction scores, are used to build a multi-source fusion model. To illustrate the proposed approaches, we classify patients from the ADNI study into groups with Alzheimer's disease (AD), mild cognitive impairment (MCI) and normal controls, based on the multi-modality data. At baseline, ADNI's 780 participants (172 AD, 397 MCI, 211 Normal), have at least one of four data types: magnetic resonance imaging (MRI), FDG-PET, CSF and proteomics. These data are used to test our algorithms. Comprehensive experiments show that our proposed methods yield stable and promising results.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":" ","pages":"1149-1157"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1145/2339530.2339710","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31715258","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Modeling Disease Progression via Fused Sparse Group Lasso.","authors":"Jiayu Zhou, Jun Liu, Vaibhav A Narayan, Jieping Ye","doi":"10.1145/2339530.2339702","DOIUrl":"10.1145/2339530.2339702","url":null,"abstract":"<p><p>Alzheimer's Disease (AD) is the most common neurodegenerative disorder associated with aging. Understanding how the disease progresses and identifying related pathological biomarkers for the progression is of primary importance in the clinical diagnosis and prognosis of Alzheimer's disease. In this paper, we develop novel multi-task learning techniques to predict the disease progression measured by cognitive scores and select biomarkers predictive of the progression. In multi-task learning, the prediction of cognitive scores at each time point is considered as a task, and multiple prediction tasks at different time points are performed simultaneously to capture the temporal smoothness of the prediction models across different time points. Specifically, we propose a novel convex fused sparse group Lasso (cFSGL) formulation that allows the simultaneous selection of a common set of biomarkers for multiple time points and specific sets of biomarkers for different time points using the sparse group Lasso penalty and in the meantime incorporates the temporal smoothness using the fused Lasso penalty. The proposed formulation is challenging to solve due to the use of several non-smooth penalties. One of the main technical contributions of this paper is to show that the proximal operator associated with the proposed formulation exhibits a certain decomposition property and can be computed efficiently; thus cFSGL can be solved efficiently using the accelerated gradient method. To further improve the model, we propose two non-convex formulations to reduce the shrinkage bias inherent in the convex formulation. We employ the difference of convex (DC) programming technique to solve the non-convex formulations. We have performed extensive experiments using data from the Alzheimer's Disease Neuroimaging Initiative (ADNI). Results demonstrate the effectiveness of the proposed progression models in comparison with existing methods for disease progression. We also perform longitudinal stability selection to identify and analyze the temporal patterns of biomarkers in disease progression.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"2012 ","pages":"1095-1103"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4191837/pdf/nihms497478.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32742685","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Optimal Exact Least Squares Rank Minimization.","authors":"Shuo Xiang, Yunzhang Zhu, Xiaotong Shen, Jieping Ye","doi":"10.1145/2339530.2339609","DOIUrl":"10.1145/2339530.2339609","url":null,"abstract":"<p><p>In multivariate analysis, rank minimization emerges when a low-rank structure of matrices is desired as well as a small estimation error. Rank minimization is nonconvex and generally NP-hard, imposing one major challenge. In this paper, we consider a nonconvex least squares formulation, which seeks to minimize the least squares loss function with the rank constraint. Computationally, we develop efficient algorithms to compute a global solution as well as an entire regularization solution path. Theoretically, we show that our method reconstructs the oracle estimator exactly from noisy data. As a result, it recovers the true rank optimally against any method and leads to sharper parameter estimation over its counterpart. Finally, the utility of the proposed method is demonstrated by simulations and image reconstruction from noisy background.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"2012 ","pages":"480-488"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4191838/pdf/nihms497477.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32742683","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Feature Grouping and Selection Over an Undirected Graph.","authors":"Sen Yang, Lei Yuan, Ying-Cheng Lai, Xiaotong Shen, Peter Wonka, Jieping Ye","doi":"10.1145/2339530.2339675","DOIUrl":"10.1145/2339530.2339675","url":null,"abstract":"<p><p>High-dimensional regression/classification continues to be an important and challenging problem, especially when features are highly correlated. Feature selection, combined with additional structure information on the features has been considered to be promising in promoting regression/classification performance. Graph-guided fused lasso (GFlasso) has recently been proposed to facilitate feature selection and graph structure exploitation, when features exhibit certain graph structures. However, the formulation in GFlasso relies on pairwise sample correlations to perform feature grouping, which could introduce additional estimation bias. In this paper, we propose three new feature grouping and selection methods to resolve this issue. The first method employs a convex function to penalize the pairwise <i>l</i>_∞ norm of connected regression/classification coefficients, achieving simultaneous feature grouping and selection. The second method improves the first one by utilizing a non-convex function to reduce the estimation bias. The third one is the extension of the second method using a truncated <i>l</i>₁ regularization to further reduce the estimation bias. The proposed methods combine feature grouping and feature selection to enhance estimation accuracy. We employ the alternating direction method of multipliers (ADMM) and difference of convex functions (DC) programming to solve the proposed formulations. Our experimental results on synthetic data and two real datasets demonstrate the effectiveness of the proposed methods.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":" ","pages":"922-930"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3763852/pdf/nihms502053.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31715216","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mining Recent Temporal Patterns for Event Detection in Multivariate Time Series Data.","authors":"Iyad Batal, Dmitriy Fradkin, James Harrison, Fabian Moerchen, Milos Hauskrecht","doi":"10.1145/2339530.2339578","DOIUrl":"10.1145/2339530.2339578","url":null,"abstract":"<p><p>Improving the performance of classifiers using pattern mining techniques has been an active topic of data mining research. In this work we introduce the recent temporal pattern mining framework for finding predictive patterns for monitoring and event detection problems in complex multivariate time series data. This framework first converts time series into time-interval sequences of temporal abstractions. It then constructs more complex temporal patterns backwards in time using temporal operators. We apply our framework to health care data of 13,558 diabetic patients and show its benefits by efficiently finding useful patterns for detecting and diagnosing adverse medical conditions that are associated with diabetes.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"2012 ","pages":"280-288"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4414327/pdf/nihms-681028.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"33152390","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Batch Mode Active Sampling based on Marginal Probability Distribution Matching.","authors":"Rita Chattopadhyay, Zheng Wang, Wei Fan, Ian Davidson, Sethuraman Panchanathan, Jieping Ye","doi":"10.1145/2339530.2339647","DOIUrl":"10.1145/2339530.2339647","url":null,"abstract":"<p><p>Active Learning is a machine learning and data mining technique that selects the most informative samples for labeling and uses them as training data; it is especially useful when there are large amount of unlabeled data and labeling them is expensive. Recently, batch-mode active learning, where a set of samples are selected concurrently for labeling, based on their collective merit, has attracted a lot of attention. The objective of batch-mode active learning is to select a set of informative samples so that a classifier learned on these samples has good generalization performance on the unlabeled data. Most of the existing batch-mode active learning methodologies try to achieve this by selecting samples based on varied criteria. In this paper we propose a novel criterion which achieves good generalization performance of a classifier by specifically selecting a set of query samples that minimizes the difference in distribution between the labeled and the unlabeled data, after annotation. We explicitly measure this difference based on all candidate subsets of the unlabeled data and select the best subset. The proposed objective is an NP-hard integer programming optimization problem. We provide two optimization techniques to solve this problem. In the first one, the problem is transformed into a convex quadratic programming problem and in the second method the problem is transformed into a linear programming problem. Our empirical studies using publicly available UCI datasets and a biomedical image dataset demonstrate the effectiveness of the proposed approach in comparison with the state-of-the-art batch-mode active learning methods. We also present two extensions of the proposed approach, which incorporate uncertainty of the predicted labels of the unlabeled data and transfer learning in the proposed formulation. Our empirical studies on UCI datasets show that incorporation of uncertainty information improves performance at later iterations while our studies on 20 Newsgroups dataset show that transfer learning improves the performance of the classifier during initial iterations.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"2012 ","pages":"741-749"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4191836/pdf/nihms497479.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32742684","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Brain Effective Connectivity Modeling for Alzheimer's Disease by Sparse Gaussian Bayesian Network.","authors":"Shuai Huang, Jing Li, Jieping Ye, Adam Fleisher, Kewei Chen, Teresa Wu, Eric Reiman","doi":"10.1145/2020408.2020562","DOIUrl":"10.1145/2020408.2020562","url":null,"abstract":"<p><p>Recent studies have shown that Alzheimer's disease (AD) is related to alteration in brain connectivity networks. One type of connectivity, called effective connectivity, defined as the directional relationship between brain regions, is essential to brain function. However, there have been few studies on modeling the effective connectivity of AD and characterizing its difference from normal controls (NC). In this paper, we investigate the sparse Bayesian Network (BN) for effective connectivity modeling. Specifically, we propose a novel formulation for the structure learning of BNs, which involves one L1-norm penalty term to impose sparsity and another penalty to ensure the learned BN to be a directed acyclic graph - a required property of BNs. We show, through both theoretical analysis and extensive experiments on eleven moderate and large benchmark networks with various sample sizes, that the proposed method has much improved learning accuracy and scalability compared with ten competing algorithms. We apply the proposed method to FDG-PET images of 42 AD and 67 NC subjects, and identify the effective connectivity models for AD and NC, respectively. Our study reveals that the effective connectivity of AD is different from that of NC in many ways, including the global-scale effective connectivity, intra-lobe, interlobe, and inter-hemispheric effective connectivity distributions, as well as the effective connectivity associated with specific brain regions. These findings are consistent with known pathology and clinical progression of AD, and will contribute to AD knowledge discovery.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"1 1","pages":"931-939"},"PeriodicalIF":0.0,"publicationDate":"2011-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4779440/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"64129450","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Drosophila Gene Expression Pattern Annotation Using Sparse Features and Term-Term Interactions.","authors":"Shuiwang Ji, Lei Yuan, Ying-Xin Li, Zhi-Hua Zhou, Sudhir Kumar, Jieping Ye","doi":"10.1145/1557019.1557068","DOIUrl":"10.1145/1557019.1557068","url":null,"abstract":"<p><p>The Drosophila gene expression pattern images document the spatial and temporal dynamics of gene expression and they are valuable tools for explicating the gene functions, interaction, and networks during Drosophila embryogenesis. To provide text-based pattern searching, the images in the Berkeley Drosophila Genome Project (BDGP) study are annotated with ontology terms manually by human curators. We present a systematic approach for automating this task, because the number of images needing text descriptions is now rapidly increasing. We consider both improved feature representation and novel learning formulation to boost the annotation performance. For feature representation, we adapt the bag-of-words scheme commonly used in visual recognition problems so that the image group information in the BDGP study is retained. Moreover, images from multiple views can be integrated naturally in this representation. To reduce the quantization error caused by the bag-of-words representation, we propose an improved feature representation scheme based on the sparse learning technique. In the design of learning formulation, we propose a local regularization framework that can incorporate the correlations among terms explicitly. We further show that the resulting optimization problem admits an analytical solution. Experimental results show that the representation based on sparse learning outperforms the bag-of-words representation significantly. Results also show that incorporation of the term-term correlations improves the annotation performance consistently.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":" ","pages":"407-415"},"PeriodicalIF":0.0,"publicationDate":"2009-06-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3100181/pdf/nihms162013.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40111135","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Structured Correspondence Topic Models for Mining Captioned Figures in Biological Literature.","authors":"Amr Ahmed,&nbsp;Eric P Xing,&nbsp;William W Cohen,&nbsp;Robert F Murphy","doi":"10.1145/1557019.1557031","DOIUrl":"https://doi.org/10.1145/1557019.1557031","url":null,"abstract":"<p><p>A major source of information (often the most crucial and informative part) in scholarly articles from scientific journals, proceedings and books are the figures that directly provide images and other graphical illustrations of key experimental results and other scientific contents. In biological articles, a typical figure often comprises multiple panels, accompanied by either scoped or global captioned text. Moreover, the text in the caption contains important semantic entities such as protein names, gene ontology, tissues labels, etc., relevant to the images in the figure. Due to the avalanche of biological literature in recent years, and increasing popularity of various bio-imaging techniques, automatic retrieval and summarization of biological information from literature figures has emerged as a major unsolved challenge in computational knowledge extraction and management in the life science. We present a new structured probabilistic topic model built on a realistic figure generation scheme to model the structurally annotated biological figures, and we derive an efficient inference algorithm based on collapsed Gibbs sampling for information retrieval and visualization. The resulting program constitutes one of the key IR engines in our SLIF system that has recently entered the final round (4 out 70 competing systems) of the Elsevier Grand Challenge on Knowledge Enhancement in the Life Science. Here we present various evaluations on a number of data mining tasks to illustrate our method.</p>","PeriodicalId":74037,"journal":{"name":"KDD : proceedings. International Conference on Knowledge Discovery & Data Mining","volume":"2009 ","pages":"39-48"},"PeriodicalIF":0.0,"publicationDate":"2009-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1145/1557019.1557031","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32889028","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}