English

Dataset pht006202.v1.p1: This sample attributes table includes body site where sample was collected, analyte type, tumor status, histological type, postmenstrual age at time of rectal swab, and day of life at time of rectal swab, Z score of body weight at rectal swab, microbiome phase, read count, medications taken in the past week (n=6 variables; corticosteroid, motility, proton pump inhibitors, H2 receptor antagonists, diurectics, and antimicrobials), and nutrients consumed in the past week (n=11 variables; protein, lipid, total enteral calories, total calories, total carbohydrates, total lipids, total proteins, enteral calories, enteral carbohydrates, enteral lipids, and enteral proteins).

4 forms  
  1. StudyEvent: Prematurity and Respiratory Outcome Program
    1. Dataset pht006199.v1.p1: The subject consent data table contains subject IDs, consent group information, and subject aliases.
    2. Dataset pht006200.v1.p1: This subject sample mapping data table includes a mapping of study subject IDs to sample IDs. Samples are the final preps submitted for genotyping, sequencing, and/or expression data. For example, if one patient (subject ID) gave one sample, and that sample was processed differently to generate 2 sequencing runs, there would be two rows, both using the same subject ID, but having 2 unique sample IDs. The data table also includes sample aliases and sample use.
    3. Dataset pht006201.v1.p1: This subject phenotype data table includes the subject's sex, race, ethnicity, cohort assignment based on full term or pre-term at gestational birth, gestational age, birth weight and mode, day of life and diagnosis of NEC.
    4. Dataset pht006202.v1.p1: This sample attributes table includes body site where sample was collected, analyte type, tumor status, histological type, postmenstrual age at time of rectal swab, and day of life at time of rectal swab, Z score of body weight at rectal swab, microbiome phase, read count, medications taken in the past week (n=6 variables; corticosteroid, motility, proton pump inhibitors, H2 receptor antagonists, diurectics, and antimicrobials), and nutrients consumed in the past week (n=11 variables; protein, lipid, total enteral calories, total calories, total carbohydrates, total lipids, total proteins, enteral calories, enteral carbohydrates, enteral lipids, and enteral proteins).
Data dictionary
Description

Data dictionary

Alias
UMLS CUI [1,1]
C2707520
De-identified Sample ID
Description

SAMPLE_ID

Data type

string

Alias
UMLS CUI [1,1]
C1299222
dbGaP ID
phv00282757.v1.p1
Postmenstrual age at time of rectal swab
Description

RECTAL_CGA

Data type

float

Measurement units
  • weeks
Alias
UMLS CUI [1,1]
C3828508
UMLS CUI [1,2]
C0444215
dbGaP ID
phv00282758.v1.p1
weeks
Day of life at time of rectal swab
Description

RECTAL_DOL

Data type

integer

Alias
UMLS CUI [1,1]
C0443281
UMLS CUI [1,2]
C0439228
UMLS CUI [1,3]
C0444215
dbGaP ID
phv00282759.v1.p1
Microbiome phase
Description

PHASE

Data type

integer

Alias
UMLS CUI [1,1]
C2985398
UMLS CUI [1,2]
C0205390
dbGaP ID
phv00282760.v1.p1
RNA read count
Description

READ_COUNT

Data type

integer

Alias
UMLS CUI [1,1]
C0035668
UMLS CUI [1,2]
C5236470
dbGaP ID
phv00282761.v1.p1
Z score of body weight at time of rectal sample
Description

WEIGHT_Z_SCORE

Data type

float

Alias
UMLS CUI [1,1]
C0005910
UMLS CUI [1,2]
C0871421
UMLS CUI [2,1]
C0444215
dbGaP ID
phv00282762.v1.p1
Whether corticosteroids were taken in the past week
Description

CORTICOSTERIOD_PW

Data type

text

Alias
UMLS CUI [1,1]
C0149783
UMLS CUI [1,2]
C2987125
dbGaP ID
phv00282763.v1.p1
Whether motility agents were taken in the past week
Description

MOTILITY_PW

Data type

text

Alias
UMLS CUI [1,1]
C2987125
UMLS CUI [1,2]
C1268865
dbGaP ID
phv00282764.v1.p1
Whether proton pump inhibitors were taken in the past week
Description

PROTON_PUMP_INHIBITORS_PW

Data type

text

Alias
UMLS CUI [1,1]
C2987125
UMLS CUI [1,2]
C0358591
dbGaP ID
phv00282755.v1.p1
Whether H2 receptor antagonists were taken in the past week
Description

H2_RECEPTORY_ANTAGONIST_PW

Data type

text

Alias
UMLS CUI [1,1]
C2987125
UMLS CUI [1,2]
C0019593
dbGaP ID
phv00282766.v1.p1
Whether a diuretic was taken in the past week
Description

DIURETIC_PW

Data type

text

Alias
UMLS CUI [1,1]
C2987125
UMLS CUI [1,2]
C0012798
dbGaP ID
phv00282767.v1.p1
Whether antimicrobials were taken in the past week
Description

ANTIMICROBIAL_PW

Data type

text

Alias
UMLS CUI [1,1]
C2987125
UMLS CUI [1,2]
C0443071
dbGaP ID
phv00282768.v1.p1
Ratio of total grams of protein in the past week over total calories taken in the past week, per kg body weight
Description

PERCENT_PROTEIN

Data type

float

Alias
UMLS CUI [1,1]
C0456603
UMLS CUI [1,2]
C5437053
UMLS CUI [1,3]
C1556156
UMLS CUI [1,4]
C2987125
dbGaP ID
phv00282769.v1.p1
Ratio of total grams of lipid in the past week over total calories taken in the past week, per kg body weight
Description

PERCENT_LIPID

Data type

float

Alias
UMLS CUI [1,1]
C0456603
UMLS CUI [1,2]
C0556196
UMLS CUI [1,3]
C1556156
UMLS CUI [1,4]
C2987125
dbGaP ID
phv00282770.v1.p1
Ratio of total enteral calories in the past week over total calories taken in the past week, per kg body weight
Description

CAL_RATIO

Data type

float

Alias
UMLS CUI [1,1]
C0456603
UMLS CUI [1,2]
C0086225
UMLS CUI [1,3]
C1556156
UMLS CUI [1,4]
C2987125
dbGaP ID
phv00282771.v1.p1
Total calories taken in the past week, per kg body weight
Description

TOTAL_CAL_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C1556156
UMLS CUI [1,2]
C2987125
dbGaP ID
phv00282772.v1.p1
Calories per kg per day
Total carbs taken in the last week, per kg body weight
Description

TOTAL_CARB_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C0012170
UMLS CUI [1,2]
C2987125
dbGaP ID
phv00282773.v1.p1
Calories per kg per day
Total lipids taken in the last week, per kg body weight
Description

TOTAL_LIPID_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C0556196
UMLS CUI [1,2]
C2987125
dbGaP ID
phv00282774.v1.p1
Calories per kg per day
Total proteins taken in the last week, per kg body weight
Description

TOTAL_PROTEIN_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C5437053
UMLS CUI [1,2]
C2987125
dbGaP ID
phv00282775.v1.p1
Calories per kg per day
Enteral calories in the past week, per kg body weight
Description

ENTERAL_CAL_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C0086225
UMLS CUI [1,2]
C1556156
UMLS CUI [1,3]
C2987125
dbGaP ID
phv00282776.v1.p1
Calories per kg per day
Enteral carbs taken in the last week, per kg body weight
Description

ENTERAL_CARB_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C0086225
UMLS CUI [1,2]
C0012170
UMLS CUI [1,3]
C2987125
dbGaP ID
phv00282777.v1.p1
Calories per kg per day
Enteral lipids taken in the last week, per kg body weight
Description

ENTERAL_LIPID_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C0086225
UMLS CUI [1,2]
C0556196
UMLS CUI [1,3]
C2987125
dbGaP ID
phv00282778.v1.p1
Calories per kg per day
Enteral proteins taken in the last week, per kg body weight
Description

ENTERAL_PROTEIN_PW

Data type

float

Measurement units
  • Calories per kg per day
Alias
UMLS CUI [1,1]
C0086225
UMLS CUI [1,2]
C5437053
UMLS CUI [1,3]
C2987125
dbGaP ID
phv00282779.v1.p1
Calories per kg per day
Body site where sample was collected
Description

BODY_SITE

Data type

text

Alias
UMLS CUI [1,1]
C1515974
UMLS CUI [1,2]
C0200345
dbGaP ID
phv00282780.v1.p1
Analyte Type
Description

ANALYTE_TYPE

Data type

text

Alias
UMLS CUI [1,1]
C0443354
UMLS CUI [1,2]
C0332307
dbGaP ID
phv00282781.v1.p1
Tumor status
Description

IS_TUMOR

Data type

string

Alias
UMLS CUI [1,1]
C0027651
dbGaP ID
phv00282782.v1.p1
Cell or tissue type or subtype of sample
Description

HISTOLOGICAL_TYPE

Data type

text

Alias
UMLS CUI [1,1]
C0449475
UMLS CUI [1,2]
C0370003
UMLS CUI [2,1]
C0040300
UMLS CUI [2,2]
C0370003
UMLS CUI [3,1]
C0040300
UMLS CUI [3,2]
C0449560
UMLS CUI [3,3]
C0370003
dbGaP ID
phv00282783.v1.p1
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Similar models

Dataset pht006202.v1.p1: This sample attributes table includes body site where sample was collected, analyte type, tumor status, histological type, postmenstrual age at time of rectal swab, and day of life at time of rectal swab, Z score of body weight at rectal swab, microbiome phase, read count, medications taken in the past week (n=6 variables; corticosteroid, motility, proton pump inhibitors, H2 receptor antagonists, diurectics, and antimicrobials), and nutrients consumed in the past week (n=11 variables; protein, lipid, total enteral calories, total calories, total carbohydrates, total lipids, total proteins, enteral calories, enteral carbohydrates, enteral lipids, and enteral proteins).

4 forms
  1. StudyEvent: Prematurity and Respiratory Outcome Program
    1. Dataset pht006199.v1.p1: The subject consent data table contains subject IDs, consent group information, and subject aliases.
    2. Dataset pht006200.v1.p1: This subject sample mapping data table includes a mapping of study subject IDs to sample IDs. Samples are the final preps submitted for genotyping, sequencing, and/or expression data. For example, if one patient (subject ID) gave one sample, and that sample was processed differently to generate 2 sequencing runs, there would be two rows, both using the same subject ID, but having 2 unique sample IDs. The data table also includes sample aliases and sample use.
    3. Dataset pht006201.v1.p1: This subject phenotype data table includes the subject's sex, race, ethnicity, cohort assignment based on full term or pre-term at gestational birth, gestational age, birth weight and mode, day of life and diagnosis of NEC.
    4. Dataset pht006202.v1.p1: This sample attributes table includes body site where sample was collected, analyte type, tumor status, histological type, postmenstrual age at time of rectal swab, and day of life at time of rectal swab, Z score of body weight at rectal swab, microbiome phase, read count, medications taken in the past week (n=6 variables; corticosteroid, motility, proton pump inhibitors, H2 receptor antagonists, diurectics, and antimicrobials), and nutrients consumed in the past week (n=11 variables; protein, lipid, total enteral calories, total calories, total carbohydrates, total lipids, total proteins, enteral calories, enteral carbohydrates, enteral lipids, and enteral proteins).
Name
Type
Description | Question | Decode (Coded Value)
Data type
Alias
Item Group
Data dictionary
C2707520 (UMLS CUI [1,1])
SAMPLE_ID
Item
De-identified Sample ID
string
C1299222 (UMLS CUI [1,1])
phv00282757.v1.p1 (dbGaP ID)
RECTAL_CGA
Item
Postmenstrual age at time of rectal swab
float
C3828508 (UMLS CUI [1,1])
C0444215 (UMLS CUI [1,2])
phv00282758.v1.p1 (dbGaP ID)
RECTAL_DOL
Item
Day of life at time of rectal swab
integer
C0443281 (UMLS CUI [1,1])
C0439228 (UMLS CUI [1,2])
C0444215 (UMLS CUI [1,3])
phv00282759.v1.p1 (dbGaP ID)
PHASE
Item
Microbiome phase
integer
C2985398 (UMLS CUI [1,1])
C0205390 (UMLS CUI [1,2])
phv00282760.v1.p1 (dbGaP ID)
READ_COUNT
Item
RNA read count
integer
C0035668 (UMLS CUI [1,1])
C5236470 (UMLS CUI [1,2])
phv00282761.v1.p1 (dbGaP ID)
WEIGHT_Z_SCORE
Item
Z score of body weight at time of rectal sample
float
C0005910 (UMLS CUI [1,1])
C0871421 (UMLS CUI [1,2])
C0444215 (UMLS CUI [2,1])
phv00282762.v1.p1 (dbGaP ID)
CORTICOSTERIOD_PW
Item
Whether corticosteroids were taken in the past week
text
C0149783 (UMLS CUI [1,1])
C2987125 (UMLS CUI [1,2])
phv00282763.v1.p1 (dbGaP ID)
MOTILITY_PW
Item
Whether motility agents were taken in the past week
text
C2987125 (UMLS CUI [1,1])
C1268865 (UMLS CUI [1,2])
phv00282764.v1.p1 (dbGaP ID)
PROTON_PUMP_INHIBITORS_PW
Item
Whether proton pump inhibitors were taken in the past week
text
C2987125 (UMLS CUI [1,1])
C0358591 (UMLS CUI [1,2])
phv00282755.v1.p1 (dbGaP ID)
H2_RECEPTORY_ANTAGONIST_PW
Item
Whether H2 receptor antagonists were taken in the past week
text
C2987125 (UMLS CUI [1,1])
C0019593 (UMLS CUI [1,2])
phv00282766.v1.p1 (dbGaP ID)
DIURETIC_PW
Item
Whether a diuretic was taken in the past week
text
C2987125 (UMLS CUI [1,1])
C0012798 (UMLS CUI [1,2])
phv00282767.v1.p1 (dbGaP ID)
ANTIMICROBIAL_PW
Item
Whether antimicrobials were taken in the past week
text
C2987125 (UMLS CUI [1,1])
C0443071 (UMLS CUI [1,2])
phv00282768.v1.p1 (dbGaP ID)
PERCENT_PROTEIN
Item
Ratio of total grams of protein in the past week over total calories taken in the past week, per kg body weight
float
C0456603 (UMLS CUI [1,1])
C5437053 (UMLS CUI [1,2])
C1556156 (UMLS CUI [1,3])
C2987125 (UMLS CUI [1,4])
phv00282769.v1.p1 (dbGaP ID)
PERCENT_LIPID
Item
Ratio of total grams of lipid in the past week over total calories taken in the past week, per kg body weight
float
C0456603 (UMLS CUI [1,1])
C0556196 (UMLS CUI [1,2])
C1556156 (UMLS CUI [1,3])
C2987125 (UMLS CUI [1,4])
phv00282770.v1.p1 (dbGaP ID)
CAL_RATIO
Item
Ratio of total enteral calories in the past week over total calories taken in the past week, per kg body weight
float
C0456603 (UMLS CUI [1,1])
C0086225 (UMLS CUI [1,2])
C1556156 (UMLS CUI [1,3])
C2987125 (UMLS CUI [1,4])
phv00282771.v1.p1 (dbGaP ID)
TOTAL_CAL_PW
Item
Total calories taken in the past week, per kg body weight
float
C1556156 (UMLS CUI [1,1])
C2987125 (UMLS CUI [1,2])
phv00282772.v1.p1 (dbGaP ID)
TOTAL_CARB_PW
Item
Total carbs taken in the last week, per kg body weight
float
C0012170 (UMLS CUI [1,1])
C2987125 (UMLS CUI [1,2])
phv00282773.v1.p1 (dbGaP ID)
TOTAL_LIPID_PW
Item
Total lipids taken in the last week, per kg body weight
float
C0556196 (UMLS CUI [1,1])
C2987125 (UMLS CUI [1,2])
phv00282774.v1.p1 (dbGaP ID)
TOTAL_PROTEIN_PW
Item
Total proteins taken in the last week, per kg body weight
float
C5437053 (UMLS CUI [1,1])
C2987125 (UMLS CUI [1,2])
phv00282775.v1.p1 (dbGaP ID)
ENTERAL_CAL_PW
Item
Enteral calories in the past week, per kg body weight
float
C0086225 (UMLS CUI [1,1])
C1556156 (UMLS CUI [1,2])
C2987125 (UMLS CUI [1,3])
phv00282776.v1.p1 (dbGaP ID)
ENTERAL_CARB_PW
Item
Enteral carbs taken in the last week, per kg body weight
float
C0086225 (UMLS CUI [1,1])
C0012170 (UMLS CUI [1,2])
C2987125 (UMLS CUI [1,3])
phv00282777.v1.p1 (dbGaP ID)
ENTERAL_LIPID_PW
Item
Enteral lipids taken in the last week, per kg body weight
float
C0086225 (UMLS CUI [1,1])
C0556196 (UMLS CUI [1,2])
C2987125 (UMLS CUI [1,3])
phv00282778.v1.p1 (dbGaP ID)
ENTERAL_PROTEIN_PW
Item
Enteral proteins taken in the last week, per kg body weight
float
C0086225 (UMLS CUI [1,1])
C5437053 (UMLS CUI [1,2])
C2987125 (UMLS CUI [1,3])
phv00282779.v1.p1 (dbGaP ID)
BODY_SITE
Item
Body site where sample was collected
text
C1515974 (UMLS CUI [1,1])
C0200345 (UMLS CUI [1,2])
phv00282780.v1.p1 (dbGaP ID)
ANALYTE_TYPE
Item
Analyte Type
text
C0443354 (UMLS CUI [1,1])
C0332307 (UMLS CUI [1,2])
phv00282781.v1.p1 (dbGaP ID)
IS_TUMOR
Item
Tumor status
string
C0027651 (UMLS CUI [1,1])
phv00282782.v1.p1 (dbGaP ID)
HISTOLOGICAL_TYPE
Item
Cell or tissue type or subtype of sample
text
C0449475 (UMLS CUI [1,1])
C0370003 (UMLS CUI [1,2])
C0040300 (UMLS CUI [2,1])
C0370003 (UMLS CUI [2,2])
C0040300 (UMLS CUI [3,1])
C0449560 (UMLS CUI [3,2])
C0370003 (UMLS CUI [3,3])
phv00282783.v1.p1 (dbGaP ID)
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