Proof-of-Concept Integration of Heterogeneous Biobank IT Infrastructures into a Hybrid Biobanking Network

被引:11
作者
Mate, Sebastian [1 ]
Kadioglu, Dennis [1 ,2 ]
Majeed, Raphael W. [3 ]
Stoehr, Mark R. [3 ]
Folz, Michael [4 ]
Vormstein, Patric [4 ,5 ,6 ]
Storf, Holger [4 ,5 ,6 ]
Brucker, Daniel P. [5 ,6 ,7 ]
Keune, Dietmar [8 ]
Zerbe, Norman [9 ,10 ]
Hummel, Michael [9 ,10 ,11 ]
Senghas, Karsten [12 ]
Prokosch, Hans-Ulrich [1 ]
Lablans, Martin [12 ]
机构
[1] Univ Erlangen Nurnberg, Med Informat, Erlangen, Germany
[2] Johannes Gutenberg Univ Mainz, Univ Med Ctr, Inst Med Biostat Epidemiol & Informat, Mainz, Germany
[3] Justus Liebig Univ, German Ctr Lung Res DZL, UGMLC, Giessen, Germany
[4] Univ Hosp Frankfurt, Med Informat Grp, Frankfurt, Germany
[5] German Canc Consortium DKTK, Partner Site Frankfurt, Heidelberg, Germany
[6] German Canc Res Ctr, Heidelberg, Germany
[7] Univ Hosp Frankfurt, Univ Canc Ctr UCT Frankfurt, Frankfurt, Germany
[8] Charite Comprehens Canc Ctr, Clin Canc Registry, Berlin, Germany
[9] Charite Univ Med Berlin, Inst Pathol, Berlin, Germany
[10] Cent Biobank Charite ZeBanC, Berlin, Germany
[11] German Canc Res Ctr, German Biobank Node, Heidelberg, Germany
[12] German Canc Res Ctr, Med Informat Translat Oncol, Heidelberg, Germany
来源
GERMAN MEDICAL DATA SCIENCES: VISIONS AND BRIDGES | 2017年 / 243卷
关键词
Translational medical research; biobank network; federated queries; cohort identification; German Biobank Node; INFORMATICS; SAMPLES; SUITE;
D O I
10.3233/978-1-61499-808-2-100
中图分类号
TP [自动化技术、计算机技术];
学科分类号
0812 ;
摘要
Cross-institutional biobank networks hold the promise of supporting medicine by enabling the exchange of associated samples for research purposes. Various initiatives, such as BBMRI-ERIC and German Biobank Node (GBN), aim to interconnect biobanks for enabling the compilation of joint biomaterial collections. However, building software platforms to facilitate such collaboration is challenging due to the heterogeneity of existing biobank IT infrastructures and the necessary efforts for installing and maintaining additional software components. As a remedy, this paper presents the concept of a hybrid network for interconnecting already existing software components commonly found in biobanks and a proof-of-concept implementation of two prototypes involving four biobanks of the German Biobank Node. Here we demonstrate the successful bridging of two IT systems found in many German biobanks - Samply and i2b2.
引用
收藏
页码:100 / 104
页数:5
相关论文
共 18 条
  • [1] Integrated Data Repository Toolkit (IDRT) A Suite of Programs to Facilitate Health Analytics on Heterogeneous Medical Data
    Bauer, C. R. K. D.
    Ganslandt, T.
    Baum, B.
    Christoph, J.
    Engel, I.
    Loebe, M.
    Mate, S.
    Staeubert, S.
    Drepper, J.
    Prokosch, H. -U.
    Winter, A.
    Sax, U.
    [J]. METHODS OF INFORMATION IN MEDICINE, 2016, 55 (02) : 125 - 135
  • [2] Linkage of Data from Diverse Data Sources (LDS): A Data Combination Model Provides Clinical Data of Corresponding Specimens in Biobanking Information System
    Eminaga, Okyaz
    Ozgur, Enver
    Semjonow, Axel
    Herden, Jan
    Akbarov, Ilgar
    Tok, Ali
    Engelmann, Udo
    Wille, Sebastian
    [J]. JOURNAL OF MEDICAL SYSTEMS, 2013, 37 (05)
  • [3] The Biobank Portal for Partners Personalized Medicine: A Query Tool for Working with Consented Biobank Samples, Genotypes, and Phenotypes Using i2b2
    Gainer, Vivian S.
    Cagan, Andrew
    Castro, Victor M.
    Duey, Stacey
    Ghosh, Bhaswati
    Goodson, Alyssa P.
    Goryachev, Sergey
    Metta, Reeta
    Wang, Taowei David
    Wattanasin, Nich
    Murphy, Shawn N.
    [J]. JOURNAL OF PERSONALIZED MEDICINE, 2016, 6 (01):
  • [4] Biomaterial banks are crucial to developing genetically-based prevention concepts
    Hummel, Michael
    Rufenach, Cornelia
    [J]. BUNDESGESUNDHEITSBLATT-GESUNDHEITSFORSCHUNG-GESUNDHEITSSCHUTZ, 2015, 58 (02) : 127 - 130
  • [5] Exploiting Distributed, Heterogeneous and Sensitive Data Stocks while Maintaining the Owner's Data Sovereignty
    Lablans, M.
    Kadioglu, D.
    Muscholl, M.
    Ueckert, F.
    [J]. METHODS OF INFORMATION IN MEDICINE, 2015, 54 (04) : 346 - 352
  • [6] Lablans M, 2016, BUNDESGESUNDHEITSBLA, V59, P373, DOI 10.1007/s00103-015-2299-y
  • [7] Providing Trust and Interoperability to Federate Distributed Biobanks
    Lablans, Martin
    Bartholomaeus, Sebastian
    Ueckert, Frank
    [J]. USER CENTRED NETWORKED HEALTH CARE, 2011, 169 : 644 - 648
  • [8] Quantifying the use of bioresources for promoting their sharing in scientific research
    Mabile, Laurence
    Dalgleish, Raymond
    Thorisson, Gudmundur A.
    Deschenes, Mylene
    Hewitt, Robert
    Carpenter, Jane
    Bravo, Elena
    Filocamo, Mirella
    Gourraud, Pierre Antoine
    Harris, Jennifer R.
    Hofman, Paul
    Kauffmann, Francine
    Munoz-Fernandez, Maria Angeles
    Pasterk, Markus
    Cambon-Thomsen, Anne
    [J]. GIGASCIENCE, 2013, 2
  • [9] caTissue Suite to Open Specimen: Developing an extensible, open source, web-based biobanking management system
    McIntosh, Leslie D.
    Sharma, Mukesh K.
    Mulvihill, David
    Gupta, Snehil
    Juehne, Anthony
    George, Bijoy
    Khot, Suhas B.
    Kaushal, Atul
    Watson, Mark A.
    Nagarajan, Rakesh
    [J]. JOURNAL OF BIOMEDICAL INFORMATICS, 2015, 57 : 456 - 464
  • [10] SHRINE: Enabling Nationally Scalable Multi-Site Disease Studies
    McMurry, Andrew J.
    Murphy, Shawn N.
    MacFadden, Douglas
    Weber, Griffin
    Simons, William W.
    Orechia, John
    Bickel, Jonathan
    Wattanasin, Nich
    Gilbert, Clint
    Trevvett, Philip
    Churchill, Susanne
    Kohane, Isaac S.
    [J]. PLOS ONE, 2013, 8 (03):