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  • Condensed Matter: Electronic Properties, etc.  (1)
  • Mathematical and Computer Sciences (General); Earth Resources and Remote Sensing  (1)
  • Polymorphism/mutation detection  (1)
  • 1
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    Ultra-fast local-haplotype variant calling using paired-end DNA-sequencing data reveals somatic mosaicism in tumor and normal blood samples (2016)
    Oxford University Press
    Details
    Publication Date: 2016-02-20
    Description: Somatic mosaicism refers to the existence of somatic mutations in a fraction of somatic cells in a single biological sample. Its importance has mainly been discussed in theory although experimental work has started to emerge linking somatic mosaicism to disease diagnosis. Through novel statistical modeling of paired-end DNA-sequencing data using blood-derived DNA from healthy donors as well as DNA from tumor samples, we present an ultra-fast computational pipeline, LocHap that searches for multiple single nucleotide variants (SNVs) that are scaffolded by the same reads. We refer to scaffolded SNVs as local haplotypes (LH). When an LH exhibits more than two genotypes, we call it a local haplotype variant (LHV). The presence of LHVs is considered evidence of somatic mosaicism because a genetically homogeneous cell population will not harbor LHVs. Applying LocHap to whole-genome and whole-exome sequence data in DNA from normal blood and tumor samples, we find wide-spread LHVs across the genome. Importantly, we find more LHVs in tumor samples than in normal samples, and more in older adults than in younger ones. We confirm the existence of LHVs and somatic mosaicism by validation studies in normal blood samples. LocHap is publicly available at http://www.compgenome.org/lochap .
    Keywords: Polymorphism/mutation detection
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
    Published by Oxford University Press
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  • 2
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    Ultralow-Frequency Collective Compression Mode and Strong Interlayer Coupling in Multilayer Black Phosphorus (2016)
    American Physical Society (APS)
    Details
    Publication Date: 2016-02-27
    Description: Author(s): Shan Dong, Anmin Zhang, Kai Liu, Jianting Ji, Y. G. Ye, X. G. Luo, X. H. Chen, Xiaoli Ma, Yinghao Jie, Changfeng Chen, Xiaoqun Wang, and Qingming Zhang The recent renaissance of black phosphorus (BP) as a two-dimensional (2D) layered material has generated tremendous interest, but its unique structural characters underlying many of its outstanding properties still need elucidation. Here we report Raman measurements that reveal an ultralow-frequency… [Phys. Rev. Lett. 116, 087401] Published Fri Feb 26, 2016
    Keywords: Condensed Matter: Electronic Properties, etc.
    Print ISSN: 0031-9007
    Electronic ISSN: 1079-7114
    Topics: Physics
    Published by American Physical Society (APS)
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  • 3
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    TRMM Version 8 Reprocessing Improvements and Incorporation into the GPM Data Suite (2018)
    In:  Other Sources
    Details
    Publication Date: 2019-07-13
    Description: The National Aeronautics and Space Administration (NASA) has always included data reprocessing as a major component of every science mission. A final reprocessing is typically a part of mission closeout (known as phase F).The Tropical Rainfall Measuring Mission (TRMM) is currently in phase F, and NASA is preparing for the last reprocessing of all the TRMM precipitation data as part of the closeout. This reprocessing includes improvements in calibration of both the TRMM Microwave Imager (TMI) and the TRMM Precipitation Radar (PR). An initial step in the version 8 reprocessing is the improvement of geolocation. The PR calibration is being updated by the Japan Aerospace Exploration Agency (JAXA) using data collected as part of the calibration of the Dual-Frequency Precipitation Radar (DPR) on the Global Precipitation Measurement (GPM) Core Observatory. JAXA undertook a major effort to ensure TRMM PR and GPM Ku-band calibration is consistent. A major component of the TRMM version 8 reprocessing is to create consistent retrievals with the GPM version 05 (V05) retrievals. To this end, the TRMM version 8 reprocessing uses retrieval algorithms based on the GPM V05 algorithms. This approach ensures consistent retrievals from December 1997 (the beginning of TRMM) through the current ongoing GPM retrievals. An outcome of this reprocessing is the incorporation of TRMM data products into the GPM data suite. Incorporation also means that GPM file naming conventions and reprocessed TRMM data carry the V05 data product version. This paper describes the TRMM version 8 reprocessing, focusing on the improvements in TMI level 1 products.
    Keywords: Mathematical and Computer Sciences (General); Earth Resources and Remote Sensing
    Type: GSFC-E-DAA-TN63592 , Journal of Atmospheric and Oceanic Technology (ISSN 0739-0572) (e-ISSN 1520-0426); 35; 6; 1181–1199
    Format: text
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