1 / 12

Beyond Laboratory Notebooks: Next Era Biological D ata Hurdles for

Beyond Laboratory Notebooks: Next Era Biological D ata Hurdles for Information S torage, Access and Distribution Richard Slayden, PhD. Microbiology, Immunology & Pathology. Evolution of the laboratory notebook: From recording to logging. Example of data explosion: Traditional sequencing.

otylia
Download Presentation

Beyond Laboratory Notebooks: Next Era Biological D ata Hurdles for

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Beyond Laboratory Notebooks: Next Era Biological Data Hurdles for Information Storage, Access and Distribution Richard Slayden, PhD. Microbiology, Immunology & Pathology

  2. Evolution of the laboratory notebook: From recording to logging

  3. Example of data explosion: Traditional sequencing

  4. Example of data explosion: Next Generation Sequencing Published literature using AB SOLiD SOLiD sequencer: 14 days and 20 000 US$ (~10x coverage) Proton: 4 hrs- 1,000’s bacteria, Human genome (~$2,000)

  5. Complexity of the data set: From the Bench to the Data Workflow & complexity of the information required

  6. Next Generation Sequencing: Complexity of the data set • Scientific Applications-Genome sequencing, whole transcriptome, modifications, structural variations • Workflow: Material type (ie. DNA or RNA) & sample preparation (Total RNA vs mRNA) • Workflow: library preparation & sequencing run-mate-pair or fragment • Computational Resources: Reference or de novo sequence assembly • Data reduction: Data Analysis- What portion of the data is analyzable, condensation, biologically relevant criteria • Secondary comparative analysis-Applied analysis, incorporation with historical data

  7. Current Data recording, management and distribution • Current Data Storage: • Individual local computers or servers • Not readily accessible by multi local investigators • Not accessible by outside collaborators • Not routinely backed-up • Deletion of large raw data sets • Data cannot be integrated into multi-investigator programs

  8. Beyond a single laboratory-Data access between experimental sites Foothill Campus

  9. Beyond a single laboratory-interaction between experimental sites

  10. Beyond a single laboratory-interaction between experimental sites

  11. Towards a collaborative notebook-Envisioned Support Needs Data Storage-maintenance, cost, updating hardware, backup, secure, dynamic Facilitate access to data files-from remote locations and software-software integration Movement of data-without corruption more important than speed Distribution of data files-across the US and beyond Automated work processing-send data from remote location and analysis Modern Help Desk-move beyond software updates and wireless mouse Facilitate the development of the COLLABORATIVE LABORATORY NOTEBOOK

  12. Questions:

More Related