DNA-COMPACT: DNA COMpression Based on a Pattern-Aware Contextual Modeling Technique
Li P, Wang S, Kim J, Xiong H, Ohno-Machado L, Jiang X. DNA-COMPACT: DNA COMpression Based on a Pattern-Aware Contextual Modeling Technique. PLOS ONE 2013, 8: e80377. PMID: 24282536, PMCID: PMC3840021, DOI: 10.1371/journal.pone.0080377.Peer-Reviewed Original ResearchConceptsReference-free compressionDisk storage capacityCompression algorithmDecompression costData transferringArt algorithmsCompression performanceFile sizeGenome compressionCompression rateBit rateAlgorithmDNA compressionBiomedical researchersPerformance advantagesGenome dataModeling techniquesContextual modelImportant concernResearch purposesCompressionPerformanceStorage capacityBitsReference sequenceGenomes in the cloud: balancing privacy rights and the public good.
Ohno-Machado L, Farcas C, Kim J, Wang S, Jiang X. Genomes in the cloud: balancing privacy rights and the public good. AMIA Joint Summits On Translational Science Proceedings 2013, 2013: 128. PMID: 24303320.Peer-Reviewed Original ResearchGenome Sequence Compression with Distributed Source Coding
Wang S, Jiang X, Cui L, Dai W, Deligiannis N, Li P, Xiong H, Cheng S, Ohno-Machado L. Genome Sequence Compression with Distributed Source Coding. 2013, 525-525. DOI: 10.1109/dcc.2013.104.Peer-Reviewed Original ResearchEncoder sideSource codingFile sizeLow processing capabilitiesHigh computational complexityLimited communication bandwidthFile size reductionLow-density parity-check (LDPC) decodersCompression frameworkHash codingBandwidth usageCommunication bandwidthParity-check decoderSequence compressionCompression techniquesAdaptive code lengthComputational complexityProcessing capabilitiesSmall storageMemory requirementsGenome compressionFactor graphGenome dataCode lengthCoding