Data integration in microbial genomics ... - Jacobs University

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CHAPTER 8 CONCLUSION AND OUTLOOK “Ignorance more frequently begets confidence than does knowledge: it is those who know little, and not those who know much, who so positively assert that this or that problem will never be solved by science.” (Charles Darwin, The Descent of Man, 1871) 8.1 Life Sciences: The transition to a data-driven field of science As it was discussed, it is an indisputable fact that scientists in all disciplines of life sciences are facing an unprecedented data accumulation. Hence, the field is in a transition phase to a data-driven field of science. Other fields of science like physics or astronomy have long since undergone this transition. The challenges in these fields of science were mastered by the application of efficient data processing strategies and by applying state-of-the-art computer science methods and technologies. In order to gain knowledge, it is inevitable to also apply these strategies to the ever-increasing amount of sequence data in life science. In this thesis several strategies in this direction have been pursued. • Early contextual data acquisition and integration: It is necessary to preserve the context of the sequence data early on and to integrate contextual and sequence data as soon as possible to reduce manual input to a minimum and to enhance opportu-
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Max Planck Institute for Marine Mic
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List of abbreviations BLAST Basic L
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Thesis abstract Deoxyribonucleic ac
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4.2 Introduction . . . . . . . . .
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2 1. Introduction syntax: data leve
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4 1. Introduction used to derive ne
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6 1. Introduction croorganisms thri
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8 1. Introduction the middle at the
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10 1. Introduction marker genes hel
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12 1. Introduction what kind and wh
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14 1. Introduction possibilities li
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16 1. Introduction tual data acquis
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18 1. Introduction Doug Wendel, Owe
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CHAPTER 2 METABAR A tool for consis
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2.2. Background 23 molecular sequen
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2.2. Background 25 printing of data
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2.4. Results 27 KML export function
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2.4. Results 29 Figure 2.3: Screens
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2.5. Discussion 31 taking samples i
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2.5. Discussion 33 Handlebar MetaBa
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2.6. Conclusion 35 rine Microbiolog
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2.6. Conclusion 37 RK advised progr
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40 3. CDinFusion Genomic Standards
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42 3. CDinFusion sortium (GSC), an
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44 3. CDinFusion tiFASTA file with
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Page 63 and 64: CHAPTER 4 MIMARKS The Minimum infor
Page 65 and 66: 4.2. Introduction 57 edge generatio
Page 67 and 68: 4.3. Development of MIMARKS 59 in t
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Page 81 and 82: 5.4. User Access 73 5.4 User Access
Page 83 and 84: 5.4. User Access 75 tal context, co
Page 85: 5.5. Summary 77 access charge: Max
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Page 97 and 98: 7.2. GSC standards development 89 T
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Page 109 and 110: Bibliography [Ackoff, 1989] Ackoff,
Page 111 and 112: BIBLIOGRAPHY 103 throughput communi
Page 113 and 114: BIBLIOGRAPHY 105 [Floridi, 2003] Fl
Page 115 and 116: BIBLIOGRAPHY 107 [Hewson and Fuhrma
Page 117 and 118: BIBLIOGRAPHY 109 [Ludwig and Schlei
Page 119 and 120: BIBLIOGRAPHY 111 [Norvig, 2009] Nor
Page 121 and 122: BIBLIOGRAPHY 113 Hoffman, J. M., Re
Page 123 and 124: BIBLIOGRAPHY 115 [van der Staay et
Page 125: BIBLIOGRAPHY 117 [Zehr and Kudela,
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Data integration in microbial genomics ... - Jacobs University

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