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DDR: an index method for large time-series datasets

Jiyuan An, Yi-Ping Phoebe Chen, Hanxiong Chen
2005 Information Systems  
Consequently, the tree index structure is not a suitable method for time-series datasets. In this paper, we propose a two-phase (filtering and refinement) method for searching time-series datasets.  ...  The tree index structure is a traditional method for searching similar data in large datasets. It is based on the presupposition that most sub-trees are pruned in the searching process.  ...  We would like to thank Eamonn Keogh of University of California-Riverside for his valuable comments.  ... 
doi:10.1016/ fatcat:yn3jvkbqcnbg5gc5secentzjbe

Population-level diversity-disease relationship (P-DDR) in the human microbiome associated diseases

Wendy Li, Zhanshan Sam Ma
2021 Computational and Structural Biotechnology Journal  
We analyzed the diversity-disease relationship at cohort scale based on a collection of 23 datasets covering the major human MADs.  ...  Here we aim to expand the current DDR study from individual focus to population level, which can offer important insights for understanding the epidemiology of MADs.  ...  All datasets analyzed in this study are available in public domain and see Table S1 for the detailed access information for each of the 23 datasets.  ... 
doi:10.1016/j.csbj.2021.04.032 pmid:33995921 pmcid:PMC8102914 fatcat:nhwnoazau5f7nlyekhi2437jpe

Using Temporal Correlation to Optimize Stereo Matching in Video Sequences

Ming LI, Li SHI, Xudong CHEN, Sidan DU, Yang LI
2019 IEICE transactions on information and systems  
The large computational complexity makes stereo matching a big challenge in real-time application scenario.  ...  However, no existing method considered temporal consistency of disparity for algorithm acceleration.  ...  It's more like an optional method that we can choose to use it for higher accuracy or shorter computational time.  ... 
doi:10.1587/transinf.2018edp7273 fatcat:ccm5ugvadvemjiox2e7yz2ltfa

Model identification of ARIMA family using genetic algorithms

Chorng-Shyong Ong, Jih-Jeng Huang, Gwo-Hshiung Tzeng
2005 Applied Mathematics and Computation  
ARIMA is a popular method to analyze stationary univariate time series data.  ...  Three examples of times series data sets are used for testing the effectiveness of GA, together with a real case of DRAM price forecasting to illustrate an application in the semiconductor industry.  ...  The time series graph of the unemployment dataset. Fig. A. 1 . 1 The time series graph of the GNP dataset. Fig. A. 3 . 3 The time series graph of the sales dataset.  ... 
doi:10.1016/j.amc.2004.06.044 fatcat:2bvdzf6l5vcffdfshp6dxmy2ja

Evaluating impact of experimental design on accuracy of parameter estimation and model selection efficiency: T cell clustering as a case study [article]

Harshana Rajakaruna, Vitaly V Ganusov
2022 bioRxiv   pre-print
The type of data collected also has an impact; following T cell clustering around individual parasites over time (called as longitudinal (LT) data) allows for a more precise and less biased estimates of  ...  As a case study we develop a series of power analyses to determine optimal sample sizes that allow for accurate estimation of model parameters and for discrimination between alternative models describing  ...  LTL methods; for example, there were examples when LTL method provided a relatively large estimate of the T cell exit rate from the cluster while CSL method provided near zero estimate (Figure 3C ).  ... 
doi:10.1101/2022.03.30.486434 fatcat:wvv4payzmrci5k7x7dwskchoe4

A dynamical systems based framework for dimension reduction [article]

Ryeongkyung Yoon, Braxton Osting
2022 arXiv   pre-print
The DDR method is implemented and compared on synthetic and example datasets to other dimension reductions methods, including PCA, t-SNE, and Umap.  ...  We propose a novel framework for learning a low-dimensional representation of data based on nonlinear dynamical systems, which we call dynamical dimension reduction (DDR).  ...  We would like to thank Harish Bhat for helpful discussions in the early stages of this work.  ... 
arXiv:2204.08155v1 fatcat:6gl5nqdzmzgmfhnoagsju327g4

Comparison of Flood Frequency Analysis Methods for Ungauged Catchments in France

Jean Odry, Patrick Arnaud
2017 Geosciences  
Many methods are currently employed for this, ranging from statistical distribution fitting to simulation approaches.  ...  The results suggest that FFA from the statistical family largely relies on the regionalisation step, whereas the simulation-based method is more stable regarding regionalisation.  ...  resolution) at an hourly time-step.  ... 
doi:10.3390/geosciences7030088 fatcat:oytedghgsfhldacmz6grnl53i4

Accelerating Binary String Comparisons with a Scalable, Streaming-Based System Architecture based on FPGAs

Sarah Pilz, Florian Porrmann, Martin Kaiser, Jens Hagemeyer, James M. Hogan, Ulrich Rückert
2020 Algorithms  
This makes our FPGA design 86 times faster than a highly optimized CPU implementation. Compared to a GPU design, executed on an NVIDIA GTX1060, it performs nearly five times faster.  ...  Modern applications which involve comparisons across large data sets—such as large sequence sets in molecular biology—are by their nature computationally intensive.  ...  There remains some possibility that for large datasets focused on a particular taxonomic group-such as the 43,000 Staphylococcus aureus genomes present in Staphopia [37] -that the signature densities  ... 
doi:10.3390/a13020047 fatcat:bl4g3mnwe5d5tjtu34kmreiciu

Diversity-disease relationships and shared species analyses for human microbiome-associated diseases

Zhanshan Ma, Lianwei Li, Nicholas J. Gotelli
2019 The ISME Journal  
In the DDR analysis, the average effect size across studies did not differ from zero for a comparison of healthy versus diseased individuals.  ...  However, it is still unclear whether there is a consistent diversity-disease relationship (DDR) for the human MADs, and whether there are consistent differences in the taxonomic composition of microbiomes  ...  Mechanistic (etiological) understanding of human MADs will take additional research, and we believe establishing a formal theory of the DDR patterns for human MADs at this time is still premature.  ... 
doi:10.1038/s41396-019-0395-y pmid:30894688 pmcid:PMC6775969 fatcat:3zmrgzhhwbf53egv4trcirsv7m

DNA Damage Response Checkpoint Activation Drives KP1019 Dependent Pre-Anaphase Cell Cycle Delay in S. cerevisiae

Lindsey A. Bierle, Kira L. Reich, Braden E. Taylor, Eliot B. Blatt, Sydney M. Middleton, Shawnecca D. Burke, Laura K. Stultz, Pamela K. Hanson, Janet F. Partridge, Mary E. Miller, Yanchang Wang
2015 PLoS ONE  
DNA damage-including that induced by many anticancer drugs-results in cell cycle delay or arrest, which can allow time for repair of DNA lesions.  ...  Importantly, we also find that deletion of RAD9, a gene required for the DDR, blocks drug-dependent changes in cell cycle progression, thereby establishing a causal link between the DDR and phenotypes  ...  and assayed for budding index and nuclear position as described in Materials and Methods.  ... 
doi:10.1371/journal.pone.0138085 pmid:26375390 pmcid:PMC4572706 fatcat:b7vggvgs7jerjlhshrjq4omkbe

Low-Power FPGA Implementation of Convolution Neural Network Accelerator for Pulse Waveform Classification

Chuanglu Chen, Zhiqiang Li, Yitao Zhang, Shaolong Zhang, Jiena Hou, Haiying Zhang
2020 Algorithms  
Then the CNN is realized on FPGA and optimized by a variety of memory access optimization methods.  ...  Furthermore, the accelerator classifies the pulse waveform in real time, which could help doctors make the diagnosis.  ...  Then we preprocess the collected data by a series of digital filters to obtain clearer signals and build a dataset.  ... 
doi:10.3390/a13090213 fatcat:bsybemrjebarvfcso7ycl4sobu

Document Domain Randomization for Deep Learning Document Layout Extraction [article]

Meng Ling and Jian Chen and Torsten Möller and Petra Isenberg and Tobias Isenberg and Michael Sedlmair and Robert S. Laramee and Han-Wei Shen and Jian Wu and C. Lee Giles
2021 arXiv   pre-print
We demonstrate competitive results using our DDR approach to extract nine document classes from the benchmark CS-150 and papers published in two domains, namely annual meetings of Association for Computational  ...  We compare DDR to conditions of style mismatch, fewer or more noisy samples that are more easily obtained in the real world.  ...  [7] provided an excellent review of leveraging graphical methods to generate simulated data for training-data generation in vision science.  ... 
arXiv:2105.14931v1 fatcat:rxv6pia6gvfqlka4sfckmotmqm

Model uncertainty and aggregated default probabilities: new evidence from Austria

Paul Hofmarcher, Stefan Kerbl, Bettina Grün, Michael Sigmund, Kurt Hornik
2014 Applied Economics  
We apply our approach to an Austrian dataset.  ...  Further research is needed to better understand the dynamics of firm failures, a highly relevant time-series for regulators and banks alike.  ...  As this dataset reflects the variable set of a macroeconomic forecasting model, our results can be used to integrate the time-series of credit defaults into the macro-model, or implement a stress testing  ... 
doi:10.1080/00036846.2013.859378 fatcat:dd5i6474kvayzg6uvupza4gzyq

Analyzing and dynamically indexing the query set

Juan Manuel Barrios, Benjamin Bustos, Tomáš Skopal
2014 Information Systems  
Thereafter, we present the Snake Table, which is an index structure designed for supporting streams of k-NN searches within a content-based similarity search framework.  ...  Most of the current metric indexes focus on indexing the collection of reference. In this work we study the problem of indexing the query set by exploiting some property that query objects may have.  ...  Another application is time series for shape retrieval [2] , where consecutive queries correspond to the same time series but shifted according to the temporal dimension.  ... 
doi:10.1016/ fatcat:z3y5uzc5jbcltpbkanmzgm7u5i

Efficient Computation of Reverse Skyline Queries

Evangelos Dellis, Bernhard Seeger
2007 Very Large Data Bases Conference  
In this paper, for the first time, we introduce the concept of Reverse Skyline Queries.  ...  Through extensive experiments with both real-world and synthetic datasets, we show that our algorithms can efficiently support reverse skyline queries.  ...  The authors would like to thank Ilya Vladimirskiy for initiating discussions that led to this paper.  ... 
dblp:conf/vldb/DellisS07 fatcat:wn6gpko32vecrf4mnmkx5bc55m
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