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Introduction to Biological Databases and Data Archiving

Learn about the creation of biological databases and data archiving. Explore experimental data pipelines, stakeholder involvement, and deposition, annotation, and release policies.

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Introduction to Biological Databases and Data Archiving

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  1. Introduction to Biological Databases and Data Archiving Creating Archive Requirements

  2. Outline • Experimental data pipelines • Stakeholder involvement • Deposition, annotation, release policies

  3. Experimental data pipelines:Introduction

  4. Experimental Methods Used for Structure Determination First 500 1995 First 500 1991 First 500 2012 Year

  5. Information Common to all Methods • Experimenter Information • Name, ORCID id • Citation/Bibliography • Author list, journal, volume, pages, year • Biological source • Source type: natural, recombinant, or synthetic • Natural source organism, e.g. Homo sapiens • Recombinant source organism, e.g. E. coli BL21(DE3) • Polymer sequence (protein, RNA, DNA)

  6. Method-specific Information • Relevant information to archive can be divided into four broad classes • sample description • experimental setup and conditions • experimental measurements produced • interpretation of the data

  7. X-ray Crystallography Nuclear Magnetic Resonance Spectroscopy (NMR) Electron Microscopy (3DEM)

  8. Sample

  9. Experiment

  10. Measurements/Data

  11. Interpretation/Final Model

  12. This work is licensed under Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International. Funded by Grant R25 LM012286 from the National Library of Medicine of the National Institutes of Health.

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