nach oben

Erschienen in:

2014 | OriginalPaper | Buchkapitel

Lecture 4 Biomedical Databases: Acquisition, Storage, Information Retrieval, and Use

verfasst von : Andreas Holzinger

Erschienen in: Biomedical Informatics

Verlag: Springer International Publishing

Einloggen

Aktivieren Sie unsere intelligente Suche, um passende Fachinhalte oder Patente zu finden.

search-config

KI-gestützte Suche

Aus

Abstract

At the end of this lecture, you:

Sie haben noch keine Lizenz? Dann Informieren Sie sich jetzt über unsere Produkte:

Springer Professional "Wirtschaft+Technik"

Online-Abonnement

Mit Springer Professional "Wirtschaft+Technik" erhalten Sie Zugriff auf:

über 102.000 Bücher
über 537 Zeitschriften

aus folgenden Fachgebieten:

Automobil + Motoren
Bauwesen + Immobilien
Business IT + Informatik
Elektrotechnik + Elektronik
Energie + Nachhaltigkeit
Finance + Banking
Management + Führung
Marketing + Vertrieb
Maschinenbau + Werkstoffe
Versicherung + Risiko

Jetzt Wissensvorsprung sichern!

Jetzt informieren

Springer Professional "Technik"

Online-Abonnement

Mit Springer Professional "Technik" erhalten Sie Zugriff auf:

über 67.000 Bücher
über 390 Zeitschriften

aus folgenden Fachgebieten:

Automobil + Motoren
Bauwesen + Immobilien
Business IT + Informatik
Elektrotechnik + Elektronik
Energie + Nachhaltigkeit
Maschinenbau + Werkstoffe

Jetzt Wissensvorsprung sichern!

Jetzt informieren

Springer Professional "Wirtschaft"

Online-Abonnement

Mit Springer Professional "Wirtschaft" erhalten Sie Zugriff auf:

über 67.000 Bücher
über 340 Zeitschriften

aus folgenden Fachgebieten:

Bauwesen + Immobilien
Business IT + Informatik
Finance + Banking
Management + Führung
Marketing + Vertrieb
Versicherung + Risiko

Jetzt Wissensvorsprung sichern!

Jetzt informieren

Vorheriges Kapitel Lecture 3 Structured Data: Coding and Classification

Nächstes Kapitel Lecture 5 Semi-structured, Weakly Structured, and Unstructured Data

Nur mit Berechtigung zugänglich

Aronson A, Rindflesch T, Browne A (1994) Exploiting a large thesaurus for information retrieval RIAO Recherche d’Information assistee par Ordinateur—Computer-aided information retrieval, pp 197–216

Baeza-Yates R, Ribeiro-Neto B (2011) Modern information retrieval: the concepts and technology behind search. Pearson, Harlow

Bastiao-Silva LA, Costa C, Silva A, Oliveira JL (2011) A PACS gateway to the cloud. 6th Iberian conference on information systems and technologies (CISTI), pp 1–6

Bemmel JHV, Musen MA (1997) Handbook of medical informatics. Springer, Heidelberg

Berman JJ (2013a) Chapter 2—Identification, deidentification, and reidentification. In: Berman JJ (ed) Principles of big data. Morgan Kaufmann, Boston, pp 15–33CrossRef

Berman JJ (2013b) Chapter 4—Introspection. In: Berman JJ (ed) Principles of big data. Morgan Kaufmann, Boston, pp 49–61CrossRef

Bleiholder J, Naumann F (2008) Data fusion. ACM Comput Surv 41(1):1CrossRef

Blum RL, Wiederhold GC (1985) Studying hypotheses on a time-oriented clinical database: an overview of the RX project. Computer-assisted medical decision making. Springer, New York, NY, pp 242–253

Brazma A, Hingamp P, Quackenbush J, Sherlock G, Spellman P, Stoeckert C, Aach J, Ansorge W, Ball CA, Causton HC, Gaasterland T, Glenisson P, Holstege FCP, Kim IF, Markowitz V, Matese JC, Parkinson H, Robinson A, Sarkans U, Schulze-Kremer S, Stewart J, Taylor R, Vilo J, Vingron M (2001) Minimum information about a microarray experiment (MIAME)[mdash]toward standards for microarray data. Nat Genet 29(4):365–371CrossRef

Campbell M, Hoane AJ, Hsu F-H (2002) Deep blue. Artif Intell 134(1):57–83CrossRefMATH

Canfora G, Cerulo L (2004) A taxonomy of information retrieval models and tools. J Comput Inf Technol 12(3):175–194

Chute CG, Beck SA, Fisk TB, Mohr DN (2010) The Enterprise Data Trust at Mayo Clinic: a semantically integrated warehouse of biomedical data. J Am Med Inform Assoc 17(2):131–135CrossRef

Doan A, Halevy A, Ives Z (2012) 19—The future of data integration. In: Doan A, Halevy A, Ives Z (eds) Principles of data integration. Morgan Kaufmann, Boston, pp 453–457CrossRef

Efthimiadis E (1996) Query expansion. In: Williams ME (ed) Annual review of information systems and technology (ARIST), Vol 31, pp 121–187

Fayyad U, Piatetsky-Shapiro G, Smyth P (1996) The KDD process for extracting useful knowledge from volumes of data. Commun ACM 39(11):27–34CrossRef

Flicek P, Amode MR, Barrell D, Beal K, Brent S, Chen Y, Clapham P, Coates G, Fairley S, Fitzgerald S, Gordon L, Hendrix M, Hourlier T, Johnson N, Kahari A, Keefe D, Keenan S, Kinsella R, Kokocinski F, Kulesha E, Larsson P, Longden I, Mclaren W, Overduin B, Pritchard B, Riat HS, Rios D, Ritchie GR, Ruffier M, Schuster M, Sobral D, Spudich G, Tang YA, Trevanion S, Vandrovcova J, Vilella AJ, White S, Wilder SP, Zadissa A, Zamora J, Aken BL, Birney E, Cunningham F, Dunham I, Durbin R, Fernandez-Suarez XM, Herrero J, Hubbard TJ, Parker A, Proctor G, Vogel J, Searle SM (2011) Ensembl 2011. Nucleic Acids Res 39(Database issue):D800–D806CrossRef

Gardner RM, Pryor TA, Warner HR (1999) The HELP hospital information system: update 1998. Int J Med Inform 54(3):169–182CrossRef

Gigerenzer G, Gaissmaier W (2011) Heuristic decision making. In: Fiske ST, Schacter DL, Taylor SE (eds) Annual review of psychology, vol 62. Palo Alto, Annual Reviews, pp 451–482

Gschwandtner T, Gärtner J, Aigner W, Miksch S (2012) A taxonomy of dirty time-oriented data. In: Quirchmayr G, Basl J, You I, Xu L, Weippl E (eds) Multidisciplinary research and practice for information systems. Springer, Berlin, pp 58–72CrossRef

Hastie T, Tibshirani R, Friedman J (2009) The elements of statistical learning: data mining, inference, and prediction, 2nd edn. Springer, New YorkCrossRef

Haux R (2006) Health information systems-past, present, future. Int J Med Inform 75(3–4):268–281CrossRef

Haux R, Lagemann A, Knaup P, Schmücker P, Winter A (1998) Management von Informationssystemen: Analyse, Bewertung, Auswahl, Bereitstellung und Einführung von Informationssystemkomponenten am Beispiel von Krankenhausinformationssystemen. Teubner, StuttgartCrossRefMATH

Hawkins RC (2005) The evidence based medicine approach to diagnostic testing: practicalities and limitations. Clin Biochem Rev 26(2):7

Hearst MA (1999) Untangling text data mining. Proceedings of the 37th annual meeting of the Association for Computational Linguistics on computational linguistics. Association for Computational Linguistics, pp 3–10

Hermjakob H, Palazzi L, Lewington C, Mudali S, Kerrien S, Orchard S, Vingron M, Roechert B, Roepstorff P, Valencia A (2004) IntAct: an open source molecular interaction database. Nucleic Acids Res 32(Suppl 1):D452–D455CrossRef

Holzinger A (2003) Experiences with User Centered Development (UCD) for the Front End of the Virtual Medical Campus Graz. In: Jacko JA, Stephanidis C (eds) Human-computer interaction, theory and practice. Lawrence Erlbaum, Mahwah, NJ, pp 123–127

Holzinger A (2013) Human–computer interaction & knowledge discovery (HCI-KDD): what is the benefit of bringing those two fields to work together? In: Alfredo Cuzzocrea C, Simos DE, Weippl E, Xu L (eds) Multidisciplinary research and practice for information systems, vol 8127, Lecture notes in computer science (LNCS). Springer, Heidelberg, pp 319–328

Holzinger A, Baernthaler M, Pammer W, Katz H, Bjelic-Radisic V, Ziefle M (2011) Investigating paper vs. screen in real-life hospital workflows: performance contradicts perceived superiority of paper in the user experience. Int J Hum Comput Stud 69(9):563–570CrossRef

Holzinger A, Geierhofer R, Ackerl S, Searle G (2005) CARDIAC@VIEW: the user centered development of a new medical image viewer. In: Zara J, Sloup J (eds) Central European multimedia and virtual reality conference (available in Eurographics Library). Czech Technical University (CTU), Prague, pp 63–68

Holzinger A, Geierhofer R, Errath M (2007) Semantische Informationsextraktion in medizinischen Informationssystemen. Informatik Spektrum 30(2):69–78CrossRef

Holzinger A, Simonic K-M (eds) (2011) Information quality in e-Health, vol 7058, Lecture notes in computer science (LNCS). Springer, Heidelberg

Hotho A, Nürnberger A, Paaß G (2005) A brief survey of text mining. GLDV J Comput Linguist Lang Technol 20(1):19–62

Johnston T, Weis R (2010) Managing time in relational databases: how to design, update and query temporal data. Morgan Kaufmann, San Francisco

Kampen AV (2013) Medical bioinformatics and e-bioscience [Online]. http://www.bioinformaticslaboratory.nl/twiki/bin/view/BioLab/EducationMIK1-2. Accessed 22 Apr 2013

Kell DB (2007) The virtual human: towards a global systems biology of multiscale, distributed biochemical network models. IUBMB Life 59(11):689–695CrossRef

Kingsland LC, Harbourt AM, Syed EJ, Schuyler PL (1993) Coach: applying UMLS knowledge sources in an expert searcher environment. Bull Med Libr Assoc 81:178–183

Kreuzthaler M, Bloice MD, Faulstich L, Simonic KM, Holzinger A (2011) A comparison of different retrieval strategies working on medical free texts. J Univ Computer Sci 17(7):1109–1133

Lenz R, Reichert M (2007) IT support for healthcare processes-premises, challenges, perspectives. Data Knowl Eng 61(1):39–58CrossRef

Lenzerini M (2002) Data integration: a theoretical perspective. Proceedings of the twenty-first ACM SIGMOD-SIGACT-SIGART symposium on principles of database systems. ACM, pp 233–246

Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novere N, Laibe C (2010) BioModels database: an enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol 4:92CrossRef

Louie B, Mork P, Martin-Sanchez F, Halevy A, Tarczy-Hornoch P (2007) Data integration and genomic medicine. J Biomed Inform 40(1):5–16CrossRef

Maimon O, Rokach L (eds) (2010) Data mining and knowledge discovery handbook, 2nd edn. Springer, New YorkMATH

Masic I, Milinovic K (2012) On-line biomedical databases–the best source for quick search of the scientific information in the biomedicine. Acta Inform Med 20(2):72CrossRef

Page L, Brin S, Motwani R, Winograd T (1999) The PageRank citation ranking: bringing order to the web. Technical Report Stanford InfoLab

Piatetsky-Shapiro G (2000) Knowledge discovery in databases: 10 years after. ACM SIGKDD Explor Newslett 1(2):59–61CrossRef

Plattner H (2013) A course in in-memory data management: the inner mechanics of in-memory databases. Springer, HeidelbergCrossRef

Reichertz PL (2006) Hospital information systems—past, present, future. Int J Med Inform 75(3–4):282–299CrossRef

Robinson I, Webber J, Eifrem E (2013) Graph databases. O’Reilly Media, Sebastopol

Roden DM, Pulley JM, Basford MA, Bernard GR, Clayton EW, Balser JR, Masys DR (2008) Development of a large-scale de-identified DNA biobank to enable personalized medicine. Clin Pharmacol Therapeut 84(3):362–369CrossRef

Salton G, Buckley C (1988) Term-weighting approaches in automatic text retrieval. Inf Process Manag 24(5):513–523CrossRef

Salton G, Fox EA, Wu H (1983) Extended Boolean information retrieval. Commun ACM 26(11):1022–1036CrossRefMATHMathSciNet

Salton G, Wong A, Yang CS (1975) A vector space model for automatic indexing. Commun ACM 18(11):613–620CrossRefMATH

Shortliffe EH, Perrault LE, Wiederhold G, Fagan LM (2001) Medical informatics: computer applications in health care and biomedicine, 2nd edn. Springer, New YorkCrossRef

Silberschatz A, Korth HF, Sudarshan S (2010) Database system concepts, 6th edn. McGraw-Hill Hightstown, New York

Simonic K-M, Holzinger A (2010) Zur Bedeutung von Information in der Medizin. OCG J 35(1):8

Sreenivasaiah PK (2010) Current trends and new challenges of databases and web applications for systems driven biological research. Front Physiol 1:147CrossRef

Stein LD (2010) The case for cloud computing in genome informatics. Genome Biol 11(5)

Tata S, Patel JM (2007) Estimating the selectivity of tf-idf based cosine similarity predicates. ACM SIGMOD Rec 36(2):7–12CrossRef

Vallet D, Fernández M, Castells P (2005) An ontology-based information retrieval model. In: Gómez-Pérez A, Euzenat J (eds) The semantic web: research and applications. Springer, Berlin, pp 103–110

Van Rijsbergen CJ (1979) Information retrieval, 2nd edn. Butterworths, London

Waterson P, Glenn Y, Eason K (2012) Preparing the ground for the ‘paperless hospital’: a case study of medical records management in a UK outpatient services department. Int J Med Inform 81(2):114–129CrossRef

Wiltgen M, Holzinger A (2005) Visualization in bioinformatics: protein structures with physicochemical and biological annotations. In: Zara J, Sloup J (eds) Central European multimedia and virtual reality conference (available in EG Eurographics Library). Czech Technical University (CTU), Prague, pp 69–74

Wiltgen M, Holzinger A, Tilz GP (2007) Interactive analysis and visualization of macromolecular interfaces between proteins. In: Holzinger A (ed) HCI and usability for medicine and health care, vol 4799, Lecture notes in computer science (LNCS). Springer, Berlin, pp 199–212CrossRef

Witten IH, Frank E, Hall MA (2011) Data mining: practical machine learning tools and techniques. Morgan Kaufmann, San Francisco

Zhang M, Zhang H, Tjandra D, Wong STC (2004) DBMap: a space-conscious data visualization and knowledge discovery framework for biomedical data warehouse. IEEE Trans Inf Technol Biomed 8(3):343–353CrossRef

Titel: Lecture 4 Biomedical Databases: Acquisition, Storage, Information Retrieval, and Use
verfasst von: Andreas Holzinger
Verlag: Springer International Publishing
Buch: Biomedical Informatics
Print ISBN: 978-3-319-04527-6

Electronic ISBN: 978-3-319-04528-3

Copyright-Jahr: 2014
DOI: https://doi.org/10.1007/978-3-319-04528-3_4

Springer Professional

Abstract

Bitte loggen Sie sich ein, um Zugang zu Ihrer Lizenz zu erhalten.

Sie haben noch keine Lizenz? Dann Informieren Sie sich jetzt über unsere Produkte:

Springer Professional "Wirtschaft+Technik"

Springer Professional "Technik"

Springer Professional "Wirtschaft"