Health services research, diagnosis, and prognosis

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Current Notes (2023)

2023 January 30

Benjamin Collins (Ellen Clayton), Biomedical Informatics, Biomedical Ethics and Society

Development of a measure for patient literacy of artificial intelligence in healthcare. Planning sample size for testing and validation of scale and statistical analysis of results. Mentor confirmed.

2023 January 23

Matt Christensen (Michael Ward), Pulmonary and Critical Care Medicine

We aim to develop a clinical prediction score to estimate the risk of a MRSA infection among patients diagnosed with Sepsis in the ED.

1) feedback on appropriate population? We can analyze data from all ED encounters, or use data from an existing clinical trial (ACORN) which enrolled patients at VUMC with an order for an anti-pseudomonal antibiotic.

2) How to estimate sample size for building a clinical prediction tool?

3) Which method to use for building clinical prediction score (ehr based that can be augmented by provider input)? - principle component analysis? - sequential component selection? - Others? Mentor confirmed.

Clinic Notes:
  • Looking to do risk predictions score for MRSA. Aims: 1. Compare performance of existing strategies (risk factors, syndrome-specific scores, MRSA PCR) for predicting MRSA risk to current practice (provided order for anti-MRSA). 2. Derive an automated EHR based MRS risk score in sepsis and validate internally. Population: adults with suspected sepsis. Effective sample size: number of MRSA*3.
  • Recommendations:
    • Try to collapse variables that act similarly (variable reduction).
    • Broader population (from a non-study) vs. narrower population (from a regulated prior study): use the clinical trial data to get a model, and not assume the model is calibrated correctly for low-severity patients. Weakness: when real data has many noise predictors, obtaining intercept needs to be carefully done.
    • Wouldn't recommend accessing sensitivity/specificity.
    • Can use C index or AUC (area under the curve) to assess the discriminative power of the prediction score.

Carson Moore (Thomas F. Scherr), Chemistry

I work in the Mobile Health for Global Health group. We are currently working on a project that maps human schistosomiasis infections and environmental factors related to the spread of this disease. We are interested in consulting with the Biostats Core to work on calculating the number of sites needed to sample and number of intermediate host snails needed to collect to provide statistically valid results, and assistance on determining the best methods to randomly sample mapped areas. Mentor confirmed.
Clinic Notes:

  • Interested in schistosomiasis infections. Would like to know the best way to sample to validate the risk map (existence of snails).
  • Recommendations:
    • Do not recommend classification method (presence/absence of snails). Consider semiparametric model that uses ranks (more abundance means higher in rank).
    • Use lift curve (as in marketing) for areas.
    • Consider geospatial models that account for correlation between areas. Use random effects in the model.
    • Stratifying regions valid for resource savings, whereas complete randomization assures unbiasness.
Topic attachments
I Attachment Action Size Date Who Comment
BoxPlotR.RR BoxPlotR.R manage 5.7 K 17 Apr 2006 - 11:44 QingxiaChen  
InforegardingwhatmySPSSfilesays.docdoc InforegardingwhatmySPSSfilesays.doc manage 24.5 K 17 Apr 2006 - 11:44 QingxiaChen  
LOA_condensed_data.sxcsxc LOA_condensed_data.sxc manage 22.1 K 04 Dec 2006 - 09:17 PatrickArbogast Data from Edward Butterworth
Oluwole_Biostat_Clinic.xlsxls Oluwole_Biostat_Clinic.xls manage 46.5 K 25 Aug 2014 - 11:30 SharonPhillips data file for Olalekan Oluwole
StatisticalAnalysisRequest.docdoc StatisticalAnalysisRequest.doc manage 22.5 K 17 Apr 2006 - 10:26 QingxiaChen  
WellsIschemicCollat.pngpng WellsIschemicCollat.png manage 37.0 K 31 Jan 2011 - 13:58 MattShotwell  
WellsIschemicEF.pngpng WellsIschemicEF.png manage 37.4 K 31 Jan 2011 - 13:55 MattShotwell  
analysisEXT analysis manage 3.9 K 11 Feb 2006 - 20:30 QingxiaChen  
biost_clinic_stephanie_vaughn.csvcsv biost_clinic_stephanie_vaughn.csv manage 4.3 K 23 Apr 2007 - 11:37 PatrickArbogast  
biost_clinic_stephanie_vaughn.dtadta biost_clinic_stephanie_vaughn.dta manage 1.7 K 01 May 2007 - 11:12 PatrickArbogast Stata datafile for Stephanie Vaughn
biost_clinic_stephanie_vaughn.loglog biost_clinic_stephanie_vaughn.log manage 8.1 K 01 May 2007 - 11:13 PatrickArbogast Analysis results for Stephanie Vaughn from April 30th clinic
biost_clinic_stephanie_vaughn.xlsxls biost_clinic_stephanie_vaughn.xls manage 25.0 K 23 Apr 2007 - 11:37 PatrickArbogast  
boxplotdata.csvcsv boxplotdata.csv manage 2.7 K 17 Apr 2006 - 10:27 QingxiaChen  
clinicimage.jpgjpg clinicimage.jpg manage 134.8 K 14 Aug 2020 - 10:15 DalePlummer  
clintCarroll.sxcsxc clintCarroll.sxc manage 40.4 K 26 Feb 2006 - 21:30 FrankHarrell Clint Carroll Langerhans Data
clintCarrollabstract.sxwsxw clintCarrollabstract.sxw manage 8.7 K 26 Feb 2006 - 21:27 FrankHarrell Clint Carroll Langerhans Abstract
specificaims.docdoc specificaims.doc manage 25.5 K 13 Feb 2006 - 10:11 ChuanZhou Specific Aims
tang.rdarda tang.rda manage 13.4 K 19 Dec 2009 - 08:42 FrankHarrell Data from Yi Wei Tang processed using R code above
Topic revision: r806 - 23 Jan 2023, YueGao

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