ID

45575

Description

Principal Investigator: Mark Silverberg, MD., PhD, Zane Cohen Centre for Digestive Diseases, Mount Sinai Hospital, Toronto, ON, CANADA MeSH: Inflammatory Bowel Diseases,Crohn Disease,Colitis, Ulcerative,Pouchitis,Adenomatous Polyposis Coli https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000659 This study involved evaluation of the tissue associated microbiome of the ileal pouch following surgery for ulcerative colitis (UC) or familial adenomatous polyposis (FAP). Individuals were recruited, with biopsies taken from the ileal pouch and the pre-pouch ileum, microbial DNA was extracted and sequenced using 454 pyrosequencing. Total bacterial community structure and abundance were evaluated to determine which changes were characteristic of inflammatory phenotypes including pouchitis (inflammation of the ileal pouch) and a Crohn's disease-like phenotype.

Link

dbGaP study = phs000659

Keywords

  1. 1/24/23 1/24/23 - Simon Heim
Copyright Holder

Mark Silverberg, MD., PhD, Zane Cohen Centre for Digestive Diseases, Mount Sinai Hospital, Toronto, ON, CANADA

Uploaded on

January 24, 2023

DOI

To request one please log in.

License

Creative Commons BY 4.0

Model comments :

You can comment on the data model here. Via the speech bubbles at the itemgroups and items you can add comments to those specificially.

Itemgroup comments for :

Item comments for :

In order to download data models you must be logged in. Please log in or register for free.

dbGaP phs000659 Mount Sinai Hospital (MSH, Toronto, CANADA) pelvic pouch microbiome study

Phenotype dataset includes information about e.g. disease outcome and biopsy site.

pht003523
Description

pht003523

Alias
UMLS CUI [1,1]
C3846158
De-identified Sample ID
Description

SampleID

Data type

text

Alias
UMLS CUI [1,1]
C4684638
UMLS CUI [1,2]
C1299222
Barcode Sequence
Description

BarcodeSequence

Data type

text

Alias
UMLS CUI [1,1]
C2348184
UMLS CUI [1,2]
C0004738
De-identified Subject ID
Description

SUBJECT_ID

Data type

text

Alias
UMLS CUI [1,1]
C4684638
UMLS CUI [1,2]
C2348585
Sequencing batch
Description

Batch

Data type

text

Alias
UMLS CUI [1,1]
C1561491
UMLS CUI [1,2]
C1948031
Site of biopsy
Description

Location

Data type

string

Alias
UMLS CUI [1,1]
C0449705
UMLS CUI [1,2]
C0005558
Post-surgical phenotypic classification group
Description

OUTCOME_GROUP

Data type

string

Alias
UMLS CUI [1,1]
C0032790
UMLS CUI [1,2]
C0008902
UMLS CUI [1,3]
C0031437

Similar models

Phenotype dataset includes information about e.g. disease outcome and biopsy site.

Name
Type
Description | Question | Decode (Coded Value)
Data type
Alias
Item Group
pht003523
C3846158 (UMLS CUI [1,1])
SampleID
Item
De-identified Sample ID
text
C4684638 (UMLS CUI [1,1])
C1299222 (UMLS CUI [1,2])
BarcodeSequence
Item
Barcode Sequence
text
C2348184 (UMLS CUI [1,1])
C0004738 (UMLS CUI [1,2])
SUBJECT_ID
Item
De-identified Subject ID
text
C4684638 (UMLS CUI [1,1])
C2348585 (UMLS CUI [1,2])
Batch
Item
Sequencing batch
text
C1561491 (UMLS CUI [1,1])
C1948031 (UMLS CUI [1,2])
Location
Item
Site of biopsy
string
C0449705 (UMLS CUI [1,1])
C0005558 (UMLS CUI [1,2])
OUTCOME_GROUP
Item
Post-surgical phenotypic classification group
string
C0032790 (UMLS CUI [1,1])
C0008902 (UMLS CUI [1,2])
C0031437 (UMLS CUI [1,3])

Please use this form for feedback, questions and suggestions for improvements.

Fields marked with * are required.

Do you need help on how to use the search function? Please watch the corresponding tutorial video for more details and learn how to use the search function most efficiently.

Watch Tutorial