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Application of Sequence Alignment to Location Tracking Data

Application of Sequence Alignment to Location Tracking Data. Mark Meyer MD MPH 12-14-2005 6.873/HST951 Final Presentation. Introduction. Location tracking data consist of a sequence of receivers which denotes the movement of a tag Problems Doesn’t always pick up tag

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Application of Sequence Alignment to Location Tracking Data

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  1. Application of Sequence Alignment to Location Tracking Data Mark Meyer MD MPH 12-14-2005 6.873/HST951 Final Presentation

  2. Introduction • Location tracking data consist of a sequence of receivers which denotes the movement of a tag • Problems • Doesn’t always pick up tag • May “lose” and “find” tag • May jump between receivers

  3. Introduction • Needle localization for breast biopsy patients may visit the same clinical area at different stages in the clinical process • Location does not paint complete picture

  4. Introduction • Sequence alignment treats locations and stages in a clinical workflow like nucleotides • Accounts for noisy data • Accounts for deviation from clinical process • Helps detect type of patient and stage in clinical process

  5. Methods • Write sequence alignment program • PHP script • Obtain location data • mySQL dump of raw data • Process via PHP scripts to clean data • Create workflow templates

  6. Results

  7. Results

  8. Results

  9. Results • Take data and make an array of locations in order • $data=array('chk', 'wt', 'chng', 'chk', 'tt', 'trha', 'htrha', 'rnst', 'trha', 'sdsur', 'sdsur', 'sdsun', 'sdsur', 'sdsun', 'sdsur', 'rwt', 'rwt', 'exam', 'exam', 'exam', 'hall', 'trha', 'htrha', 'trha', 'tt', 'tr', 'htrha', 'sdsur', 'sdsun');

  10. Results • Create workflow template from theoretical workflow or location tracking data • Sample clinical workflow • $template=array('chk', 'wt', 'chng', 'sdsur', 'hall', 'exam', 'hall', 'trha', 'tr', 'sdsur');

  11. Results

  12. Results

  13. Results • Can we determine the stage in the clinical process? • Let’s take part of the process as: • $data=array('chk', 'wt', 'chng', 'chk', 'tt', 'trha', 'htrha', 'rnst', 'trha', 'sdsur', 'sdsur');

  14. Results • Then look at the scores as we step through the template: • ('chk') = 20 • ('chk', 'wt') = 18 • ('chk', 'wt', 'chng‘) = 16 • ('chk', 'wt', 'chng', 'sdsur') = 14 • ('chk', 'wt', 'chng', 'sdsur', 'hall') = 15 • ('chk', 'wt', 'chng', 'sdsur', 'hall', 'exam') = 17 • ('chk', 'wt', 'chng', 'sdsur', 'hall', 'exam', 'hall') = 19 • ('chk', 'wt', 'chng', 'sdsur', 'hall', 'exam', 'hall', 'trha') = 18 • ('chk', 'wt', 'chng', 'sdsur', 'hall', 'exam', 'hall', 'trha', 'tr') = 19 • ('chk', 'wt', 'chng', 'sdsur', 'hall', 'exam', 'hall', 'trha', 'tr', 'sdsur') = 17

  15. Results • Data feed • $data=array('chk', 'wt', 'chng', 'chk', 'tt', 'trha', 'htrha', 'rnst', 'trha', 'sdsur', 'sdsur'); • Template section • ('chk', 'wt', 'chng', 'sdsur') = 14

  16. Discussion • Location data can be matched to clinical process templates via sequence alignment • Can be used to determine location in clinical process • With additional templates, can be used to predict type of patient or detect process exceptions

  17. Questions?

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