Cloud Processing of 1000 Genomes Sequencing Data Using Amazon Web Service

被引：0
|
作者：
Huang, Zhuoyi [1 ]
Yu, Jin [1 ]
Yu, Fuli [1 ]
机构：
[1] Baylor Coll Med, Human Genome Sequencing Ctr, Houston, TX 77030 USA
来源：
2013 IEEE GLOBAL CONFERENCE ON SIGNAL AND INFORMATION PROCESSING (GLOBALSIP) | 2013年
关键词：
AWS cloud computing; 1000 Genomes project; SNP calling; genotype imputation;
D O I：
暂无
中图分类号：
TM [电工技术]; TN [电子技术、通信技术];
学科分类号：
0808 ; 0809 ;
摘要：
We deployed the genetic variant pipeline SNPTools in the cloud utilizing the Amazon Web Service (AWS). With the cloud SNPTools pipeline, we performed the SNP calling and genotype imputation on the 1000 Genomes Project Phase 3 data and assessed the quality of SNPs. We also explored different strategies of exploiting Amazon Elastic Cloud Compute instances and the Amazon Simple Storage Service in order to optimize the performance and cost of cloud computing. Our analysis shows that cloud computing will be indispensable to the Next Generation Sequencing data processing.
引用
收藏
页码：49 / 52
页数：4
相关论文
共 50 条
  • [31] Detection of RHD and RHCE Structural Variations Using High Coverage Whole Genome Sequencing Data from the 1000 Genomes Project
    Aguad, Maria
    Vege, Sunitha
    Floch, Aline
    Halls, Justin
    Westhoff, Connie M.
    Lane, William J.
    TRANSFUSION, 2021, 61 : 129A - 130A
  • [32] Exploring cloud-based Web Processing Service: A case study on the implementation of CMAQ as a Service
    Zhang, Chen
    Di, Liping
    Sun, Ziheng
    Lin, Li
    Yu, Eugene G.
    Gaigalas, Juozas
    ENVIRONMENTAL MODELLING & SOFTWARE, 2019, 113 : 29 - 41
  • [33] Experiences building Globus Genomics: a next-generation sequencing analysis service using Galaxy, Globus, and Amazon Web Services
    Madduri, Ravi K.
    Sulakhe, Dinanath
    Lacinski, Lukasz
    Liu, Bo
    Rodriguez, Alex
    Chard, Kyle
    Dave, Utpal J.
    Foster, Ian T.
    CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE, 2014, 26 (13): : 2266 - 2279
  • [34] Service Management in the Edge Cloud for Stream Processing of IoT Data
    Moussa, Hachem
    Yen, I-Ling
    Bastani, Farokh
    2020 IEEE 13TH INTERNATIONAL CONFERENCE ON CLOUD COMPUTING (CLOUD 2020), 2020, : 91 - 98
  • [35] Security as a Service using Data Steganography in Cloud
    Ramachandran, Anitha Balaji
    Paramjothi, Pradeepan
    Mukherjee, Saswati
    PROCEEDINGS OF THE INTERNATIONAL CONFERENCE ON CLOUD SECURITY MANAGEMENT (ICCSM-2013), 2013, : 81 - 90
  • [36] Temporary Materialized Views in Cloud Data Warehouses through a Web Service
    Abdelaziz, Ettaoufik
    Mohamed, Ouzzif
    PROCEEDINGS OF 2017 3RD INTERNATIONAL CONFERENCE OF CLOUD COMPUTING TECHNOLOGIES AND APPLICATIONS (CLOUDTECH), 2017, : 144 - 149
  • [37] Improving data transfer performance of web service workflows in the cloud environment
    Zhang, Donglai
    Coddington, Paul
    Wendelborn, Andrew L.
    INTERNATIONAL JOURNAL OF COMPUTATIONAL SCIENCE AND ENGINEERING, 2013, 8 (03) : 198 - 209
  • [38] A generalized web service model for geophysical data processing and modeling
    Morozov, Igor
    Reilkoff, Brian
    Chubak, Glenn
    COMPUTERS & GEOSCIENCES, 2006, 32 (09) : 1403 - 1410
  • [39] Improving data transfer performance of web service workflows in the cloud environment
    Zhang, D. (donglai.zhang@adelaide.edu.au), 2013, Inderscience Enterprises Ltd., 29, route de Pre-Bois, Case Postale 856, CH-1215 Geneva 15, CH-1215, Switzerland (08)
  • [40] Analysis of genomic variation in non-coding elements using population-scale sequencing data from the 1000 Genomes Project
    Mu, Xinmeng Jasmine
    Lu, Zhi John
    Kong, Yong
    Lam, Hugo Y. K.
    Gerstein, Mark B.
    NUCLEIC ACIDS RESEARCH, 2011, 39 (16) : 7058 - 7076
12345