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Compressive genomics for protein databases

N. M. Daniels, A. Gallant, J. Peng, L. J. Cowen, M. Baym, B. Berger
2013 Bioinformatics  
large protein databases via precisely these tools.  ...  The key idea is that we introduce a local similarity-based compression scheme that allows us to operate directly on the compressed data.  ...  ACKNOWLEDGEMENTS The authors thank Norman Ramsey and Po-Ru Loh for helpful discussions about the compression approach.  ... 
doi:10.1093/bioinformatics/btt214 pmid:23812995 pmcid:PMC3851851 fatcat:5bbjn4adpzbfthn2shhg5qlija

BVI-DVC: A Training Database for Deep Video Compression [article]

Di Ma, Fan Zhang, David R. Bull
2020 arXiv   pre-print
In this paper, a new extensive and representative video database, BVI-DVC, is presented for training CNN-based video compression systems, with specific emphasis on machine learning tools that enhance conventional  ...  Deep learning methods are increasingly being applied in the optimisation of video compression algorithms and can achieve significantly enhanced coding gains, compared to conventional approaches.  ...  In this paper, a new video database, referred as BVI-DVC, is proposed for training CNN-based video coding algorithms, in particular those tools that enhance the performance of conventional compression  ... 
arXiv:2003.13552v2 fatcat:mctebqfpovaqnhdeycfrfcaism

tsdb: A Compressed Database for Time Series [chapter]

Luca Deri, Simone Mainardi, Francesco Fusco
2012 Lecture Notes in Computer Science  
Relational databases and popular tools such as the Round-Robin Database show their limitations when handling a large number of time series.  ...  This paper describes a novel compressed time series database named tsdb whose goal is to allow large time series to be stored and consolidated in realtime with limited disk space usage.  ...  Figure 2 shows typical performance of the tools we have evaluated, when adding a variable number of data points on an empty database.  ... 
doi:10.1007/978-3-642-28534-9_16 fatcat:q3ir2lvlfrhnxdb37lvwzctkcu

Protein database search using compressed k-mer vocabularies

Lawrence Buckingham, Shlomo Geva, James M. Hogan
2018 Proceedings of the 23rd Australasian Document Computing Symposium on ZZZ - ADCS '18  
ALGORITHM The proposed algorithm indexes a sequence database by extracting a compressed k-mer vocabulary from the database, and using the vocabulary to define a binary vector space.  ...  A clustering procedure is used to extract a compressed vocabulary from the set of all k-symbol words (k-mers) observed in the database.  ... 
doi:10.1145/3291992.3291997 dblp:conf/adcs/BuckinghamGH18 fatcat:yblbhgkqmzeq5cbyygf2nnsiji

Compression-Based Tools for Navigation with an Image Database

Antonella Di Lillo, Ajay Daptardar, Kevin Thomas, James A. Storer, Giovanni Motta
2012 Algorithms  
These second and third stages rely on compression-based tools (dimensionality reduction, vector quantization, and coding) that are enhanced by knowledge of (approximate) location of objects.  ...  We present tools that can be used within a larger system referred to as a passive assistant.  ...  For the query step, we have used forward compression, where database codebooks are used to compress the query image (rather than backward compression, where each image in the database is compressed with  ... 
doi:10.3390/a5010001 fatcat:yo6pxklz35aczbrh5qd7x6v3gu

A Compressed Video Steganography using TPVD

Sherly A P, Amritha P P
2010 International Journal of Database Management Systems  
This paper proposes a new Compressed Video Steganographic scheme. In this algorithm, data hiding operations are executed entirely in the compressed domain.  ...  In this scheme all the processes are defined and executed in the compressed domain. Though decompression is not required.  ...  Two important parameters for evaluating the performance of a steganographic system are capacity and imperceptibility.  ... 
doi:10.5121/ijdms.2010.2307 fatcat:w2byadwssbbzbm5lzbon37ni3a

Performing joins without decompression in a compressed database system

S. J. O'Connell, N. Winterbottom
2003 SIGMOD record  
A novel compression algorithm is reported, which enables the processing of queries without decompressing data needed to perform join operations in a database built on a triple store.  ...  There has been much work on compressing database indexes, but less on compressing the data itself. We examine the performance gains to be made by compression outside the index.  ...  To guide the design process, a tool has been developed to model the performance of the emerging implementation.  ... 
doi:10.1145/640990.640991 fatcat:k4jjxmwa3rh6jpilds7vsxagya

Integrating compression and execution in column-oriented database systems

Daniel Abadi, Samuel Madden, Miguel Ferreira
2006 Proceedings of the 2006 ACM SIGMOD international conference on Management of data - SIGMOD '06  
Column-oriented database system architectures invite a reevaluation of how and when data in databases is compressed.  ...  In this paper, we discuss how we extended C-Store (a column-oriented DBMS) with a compression sub-system.  ...  Our purpose is to explore the performance and architectural implications of integrating a wide range of compression schemes into a column-oriented database.  ... 
doi:10.1145/1142473.1142548 dblp:conf/sigmod/AbadiMF06 fatcat:iryintvas5a7jnqa22pyxh2ekq

Efficiently Querying the Indexed Compressed XML Data (IQX)

Radha Senthilkumar, Kannan Arputharaj
2011 International Journal of Database Management Systems  
As a result there has been an ever growing need for developing an efficient storage structure and high-performance techniques to query efficiently.  ...  Extensible Mark-up Language was designed to carry data which provides a platform to define own tags. XML documents are immense in nature.  ...  Start and End offset of the nodes is also stored so that searching range is limited and query performance is enhanced. More memory space is required to store the details.  ... 
doi:10.5121/ijdms.2011.3312 fatcat:6zcsy4vhfrcobbtp44ccmklnqa

Subjective quality assessment database of HDR images compressed with JPEG XT

Pavel Korshunov, Philippe Hanhart, Thomas Richter, Alessandro Artusi, Rafal Mantiuk, Touradj Ebrahimi
2015 2015 Seventh International Workshop on Quality of Multimedia Experience (QoMEX)  
One such issue is a lack of standards for HDR image compression. Another is the limited availability of suitable image datasets that are suitable for studying and evaluation of HDR image compression.  ...  In this paper, we address this problem by creating a publicly available dataset of 20 HDR images and corresponding versions compressed at four different bit rates with three profiles of the upcoming JPEG  ...  ACKNOWLEDGMENTS This work has been performed in the framework of Swiss SERI project "Compression and Evaluation of High Dynamic Range Image and Video", COST IC1005 The digital capture, storage, transmission  ... 
doi:10.1109/qomex.2015.7148119 dblp:conf/qomex/KorshunovHRAME15 fatcat:pywmofedvfbwnfk3msrye3de4e

A Multi-Resolution Compression Scheme for EfficientWindow Queries over Road Network Databases

Ali Khoshgozaran, Ali Khodaei, Mehdi Sharifzadeh, Cyrus Shahabi
2006 Sixth IEEE International Conference on Data Mining - Workshops (ICDMW'06)  
It uses line aggregation to reduce the number of relevant tuples and Huffman compression to achieve a multi-resolution compressed representation of a road network database.  ...  While several general vector data compression schemes have been studied by different communities, we propose a novel approach in vector data compression which is easily integrated within a geospatial query  ...  We also aim at enhancing our approach to dynamically choose between the two variants at the query time. Figure 1 . 1 A sample road segment LS 1 . Figure 2 . 2 Linestrings of vector database VD.  ... 
doi:10.1109/icdmw.2006.13 dblp:conf/icdm/KhoshgozaranKSS06 fatcat:2eq2txqiundvbku4j5lgtdqjlm


Z. Meral Özsoyoğlu
2012 ACM Transactions on Database Systems  
Sorting database tables before compressing them improves the compression rate. Can we do better than the lexicographical order?  ...  A new heuristic, Multiple Lists, which is a variant on Nearest Neighbor that trades off compression for a major running-time speedup, is a good option for very large tables.  ...  INTRODUCTION Database compression reduces storage while improving the performance of some queries.  ... 
doi:10.1145/2338626.2338627 fatcat:nbi27a6hhzbjlcu2e4kcwepxpa

Tools for compressed-domain video indexing and editing

Jianhao Meng, Shih-Fu Chang, Ishwar K. Sethi, Ramesh C. Jain
1996 Storage and Retrieval for Still Image and Video Databases IV  
Our compressed video editing techniques will enhance the reusability of existing compressed videos. Scene: a scene is confined to one or more shots which are taken in the same space [5] . 3.  ...  We have designed automatic tools in the compressed domain for extracting key visual features such as scene cut, dissolve, camera operations (zoom, pan), and moving object detection and tracking.  ...  A prototype system illustrating real-time editing and indexing of MPEG compressed video has be developed with enhanced graphical user interface support.  ... 
doi:10.1117/12.234795 dblp:conf/spieSR/MengC96 fatcat:xdol6zhjvvci3gulyywk7qerwm

A motion based scene tree for browsing and retrieval of compressed videos

Haoran Yi, Deepu Rajan, Liang-Tien Chia
2004 Proceedings of the 2nd ACM international workshop on Multimedia databases - MMDB '04  
This paper describes a fully automatic content-based approach for browsing and retrieval of MPEG-2 compressed video.  ...  The scene tree is shown to capture some semantic information as well as to provide a construct for hierarchical browsing of compressed videos.  ...  Tasks such as restoration, resolution enhancement, tracking etc. in compressed videos have been reported recently [15, 3, 17, 20] .  ... 
doi:10.1145/1032604.1032608 dblp:conf/mmdb/YiRC04 fatcat:ixsvw3b2bzgq5bqqvx7trbxmda

VORTEX: Video Retrieval and Tracking from Compressed Multimedia Databases—Multiple Object Tracking from MPEG-2 Bit Stream

Dan Schonfeld, Dan Lelescu
2000 Journal of Visual Communication and Image Representation  
In this paper, a novel approach to multiple object tracking from compressed multimedia databases is presented.  ...  This approach is intended to operate in a distributed environment, where users initiate video searches and retrieve relevant video information simultaneously from multiple compressed video archives.  ...  In this paper, we present a novel approach to video tracking for retrieval purposes from compressed multimedia databases (VORTEX).  ... 
doi:10.1006/jvci.1999.0432 fatcat:73f2nlzne5firbgunf767uoj2u
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