What clinical information does HMP metadata have?
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17 months ago
cuicui • 0

Hi:) community, I am not very clear about the metadata contained in the hmp1 project. I read the hmp_2012 paper, it is said "metadata j included subject age, subject diet, BMI, pulse, introitus pH, posterior fornix pH, temperature, gender, ethnicity, breastfeeding, subjects having given birth, diastolic and systolic blood pressure, weight, or height."

Are these all metadata information if the access to dbGap can be approved?

But in the website, it is also written: https://www.hmpdacc.org/overview/faq.php Q: How can I access the metadata for HMP1 metagenomic samples? A: Metadata for all samples is available through the project catalog. Additional metadata (such as age, medical history, dietary habits, etc.) is kept confidential by the NIH and accessible only to authorized users through NCBI dbGAP. Researchers can request access to this data through this page. Click on the link to request authorized access.

I couldn't find any further information about which kinds of clinical information is recorded in the metadata of hmp. I appreciate your help!

HMP metadata • 430 views
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Hi community, I think I found the answer. It is not list in details in paper. But in dbGap database, they have a description for this project. https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000228.v4.p1&phv=158680&phd=3190&pha=&pht=1184&phvf=&phdf=&phaf=&phtf=&dssp=1&consent=&temp=1

There is a part called : Authorized Access

In this category: There is one sentence "List of components downloadable from Authorized Access "

The list of components is a linkage for a pdf file. In this file, they have phenotype-individuals-traits that describe details of which kind of phenotype info is collected.

In brief, they have :

  1. The data table contains data that were collected from the Suppplemental Questions Form (DSU) upon the completion of HMP study enrollment. Variables include additional health history such as dietary habits, breastfeeding, birthing history, delivery method, and if the subject failed any initial screenings prior to enrollment.
  2. phenotype-individual-traits : The Targeted Physical Forms (DTP), Medical History Screening Forms (DHX), and the Visit Documentation Forms (DVD) have been combined into a single data table.
  3. The Demographics Form (DEM) and the Eligibility Checklist (ENR) have been combined into a single data table. The DEM variables include sociodemographic measurements such as gender, ethnicity, race, and place of birth, while the ENR variables include the enrollment/first sampling time of subjects (n=1 variable) and administrative variables (n=4 variables).
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