High-Performance In-Memory Genome Data Analysis

1. Front Matter

   Pages i-xxi

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2. Innovations for Personalized Medicine

   • Hasso Plattner, Matthieu-P. Schapranow, Franziska Häger

   Pages 1-27

3. Data Processing in Personalized Medicine

   1. Front Matter

      Pages 29-30

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   2. Modeling Genome Data Processing Pipelines

      • Marie Schäffer

      Pages 31-53

   3. Scheduling and Execution of Genome Data Processing Pipelines

      • Cornelius Bock

      Pages 55-74

   4. Exchanging Medical Knowledge

      • Franz Liedke

      Pages 75-100

   5. Billing Processes in Personalized Medicine

      • Joseph Bethge

      Pages 101-123

4. Real-Time Data Analysis in Personalized Medicine

   1. Front Matter

      Pages 125-126

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   2. Real-time Analysis of Patient Cohorts

      • Ricarda Schüler

      Pages 127-152

   3. Ad-hoc Analysis of Genetic Pathways

      • Dominik Müller

      Pages 153-180

   4. Combined Search in Structured and Unstructured Medical Data

      • David Heller

      Pages 181-206

   5. Real-time Collaboration in the Course of Personalized Medicine

      • Hasso Plattner, Matthieu-P. Schapranow

      Pages 207-216

5. Back Matter

   Pages 217-223

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Recent achievements in hardware and software developments have enabled the introduction of a revolutionary technology: in-memory data management. This technology supports the flexible and extremely fast analysis of massive amounts of data, such as diagnoses, therapies, and human genome data. This book shares the latest research results of applying in-memory data management to personalized medicine, changing it from computational possibility to clinical reality. The authors provide details on innovative approaches to enabling the processing, combination, and analysis of relevant data in real-time. The book bridges the gap between medical experts, such as physicians, clinicians, and biological researchers, and technology experts, such as software developers, database specialists, and statisticians. Topics covered in this book include - amongst others - modeling of genome data processing and analysis pipelines, high-throughput data processing, exchange of sensitive data and protection of intellectual property. Beyond that, it shares insights on research prototypes for the analysis of patient cohorts, topology analysis of biological pathways, and combined search in structured and unstructured medical data, and outlines completely new processes that have now become possible due to interactive data analyses. 

• Data Exploration
• Data Protection
• Evidence-Based Therapy
• Genomics
• In-Memory Data Management
• Individualized Therapy
• Modeling
• Next-Generation Sequencing
• Personalized Medicine
• Privacy
• Real-Time Analysis

• Enterprise Platform and Integration Concepts, Hasso-Plattner-Institute, Potsdam, Germany

  Hasso Plattner

• Enterprise Platform and Integration Concepts Chair, Hasso Plattner Institute, Potsdam, Germany

  Matthieu-P. Schapranow

Prof. Dr. h.c. Hasso Plattner is the chair of the "Enterprise Platform and Integration Concepts" research group at the Hasso Plattner Institute (HPI), which focuses mainly on in-memory data management for enterprise architectures. He is author and co-author of over 50 scientific publications and has served conferences, such as ACM SIGMOD, as keynote speaker. He is author of "In-Memory Data Management" and currently serves as a visiting professor at the Stanford University Institute of Design. Hasso Plattner is also a co-founder of SAP AG, where he served as CEO until 2003 and has since been chairman of the supervisory board. SAP AG today is the leading vendor of enterprise software solutions. In his role as chief software advisor, he concentrates on defining the mid- and long-term technology strategy and direction of SAP. Dr. Matthieu-P. Schapranow is the principal investigator of life sciences at the chair of Prof. Plattner at Hasso Plattner Institute. He holds a PhD, MSc and BSc in Software Engineering. In this position, he is responsible for research efforts applying in-memory technology to scientific areas in life sciences. In addition, he is a valued member of the Berlin Cancer Society.

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