Mark Lindsey

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Mark Lindsey
Personalized and Predictive Medicine
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• Patient Clinical Database
• Focus on asthma
• One of most frequently reported cause of visits
  to ED in children
• Also includes other allergic patients
• Allergic rhinitis
• Food allergies
• Atopic dermatitis
• EE and other conditions
• Allergy, Pulmonary clinics and Emergency
  Department
• 3400 children currently enrolled
• Given 6 page or 18 page questionnaire at initial
  visit
• Follow-up questionnaire
• PFT
• SPT
• CHSA
• RAST
• Physical Exam
• DNA
• mySQL database

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• Data Entry
• Until recently, much of data not easily
  accessible electronically
• Manual entry of nearly everything required
• Entry forms originally in Access
• Forms were redesigned using .NET
• Newer web-based data entry forms
• PHP/mySQL
• Currently working with BMI to obtain extracts of
  information from hospital system
• Mostly data from lab tests
• Questionnaires still in paper form and in Epic
  for Pulmonary Clinic

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• Clinic preparation
• Recruitment handled by few CRCs for multiple
  clinics
• Currently web-based interface being developed to
  assist in recruitment/follow-up process
• Eliminate need for shared Excel spreadsheet
• CRC can keep record of what data was collected
  from patient on each visit using interface
• Assist with post-clinic workflow
• Assist in determining who needs resampling of DNA
  or recapture of form data
• No need to manually look for each follow-up in
  spreadsheet

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• DNA sample management
• DNA collected from nearly all patients
• Many have multiple samplings
• Buccal swab
• Newer saliva collection method
• Samples are bar coded
• Stored in numbered boxes in both 4 and -80 C
• Graphical program written in .NET to manage
  storage and quantification information for each
  sample.
• Automatically assigns sampling ID to each sample
• Keeps track of DNA usage
• Allows user to print labels
• Plan to develop into web-based interface

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• Combining clinical and genetic information
• Functionality built into sample mgmt. interface
  to allow searching of DNA samples/genotypes by
  outcome, such as Diagnosis, test result, etc.
• Genotyping
• Currently planning SNP arrays
• Both cases and controls must meet certain
  criteria to be eligible for genotyping.
• Demographic requirements
• Primary outcomes
• Secondary outcomes
• DNA quality/quantity requirements
• Scripts written to extract patients that meet
  criteria and potential candidates that require
  resampling

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• Other ongoing projects
• Web-based query interface
• Graphical object-based system
• Must be very simple yet powerful
• New version of questionnaire
• New data entry forms
• Possible project ideas
• Kiosk-based questionnaire for use by patients
• Interface to display genetic profiles by phenotype