ID

46128

Beskrivning

Principal Investigator: Gloria Pryhuber, University of Rochester Rochester, Rochester, NY, USA MeSH: Infant, Premature,Infant, Newborn,Premature Birth,Term Birth,Microbiota,Gastrointestinal Microbiome,T-Lymphocytes,Bronchopulmonary Dysplasia,Respiratory Tract Diseases https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001347 *Public health importance*: Babies born preterm, approximately 1 out of every 9 live births in the United States, have significant respiratory morbidity over the first two years of life, exacerbated by respiratory viral infections. Many (50%) return to pediatricians, emergency rooms and pulmonologists with symptoms of respiratory dysfunction (SRD): intermittent or chronic wheezing, poor growth and an excess of upper and lower respiratory tract infections (LRTI). SRD correlate inversely with gestational age and weight at birth and is more common in those with chronic lung disease of prematurity, yet its incidence and severity varies widely among both the prematurely born and those born at term. There is evidence from clinical studies and animal models that risks of LRTI and recurrent wheezing is influenced by gut and respiratory flora and by T cell responses to infection. Information gained from this study will be used to identify characteristics, risk factors and potential mechanisms for early and persistent lung disease in children born at term and born preterm. This Clinical Research Study will investigate the relationships between sequential respiratory viral infections, patterns of intestinal and respiratory bacterial colonization, and adaptive cellular immune phenotypes which are associated with increased susceptibility to respiratory infections and long term respiratory morbidity in preterm and full term infants. We hypothesize that the timing and acquisition of specific viral infections and bacterial species are directly related to respiratory morbidity in the first year of life as defined by SRD and by measures of pulmonary function. We hypothesize that cellular and molecular immuno-maturity are altered due to factors presented by premature birth in such a way as to promote chronic inflammatory and cytotoxic damage to the lung, with subsequent enhanced, damaging responses to infectious agents and environmental irritants. Our preliminary studies demonstrate both feasibility and expertise in mutiparameter immunophenotyping of small volume peripheral blood samples obtained from premature infants including gene expression arrays of flow cytometry sorted cells. We will use new technologies for known viral identification, as well as high-throughput metagenome sequencing of RNA and DNA virus like particles (VLP) to be used for viral discovery in infant respiratory sample and use of high-throughput pyrosequencing (454T) of bacterial 16S rRNA to determine shifts in bacterial community structure, occurring in pre-term (PT) as compared to full term (FT) infants, over the first year of life. Finally, we present statistical approaches to stratify disease risk predictors using multivariate logistic regression modeling approaches. We propose to evaluate T cell phenotypic and functional profiles relative to viral and predominant bacterial exposures according to highly complementary, but independent, Specific Objectives. *Objective 1*: To determine if viral respiratory infections and patterns of respiratory and gut bacterial community structure (microbiome) in prematurely born babies predict the rate and degree of immunologic maturation, and pulmonary dysfunction, measured from birth to 36 weeks corrected gestational age (CGA). *Objective 2*: To determine the relationship between respiratory viral infections and disease severity up to one year CGA, and the lymphocyte (Lc) phenotypes documented at term gestation (birth for term infants and 36 wks/NICU discharge in preterm infants) and at one year CGA. Three secondary outcomes of this objective will be to a) relate the quantity, type and severity of viral infections with pulmonary function at one and three years of life, b) relate the viral community structure to severity of viral infections and c) to seek evidence of modulation of viral susceptibility by bacterial respiratory and gut community structure (microbiome). The relationship of colonization with known and non-identified bacterial species in both the respiratory tract and the gut will be evaluated. Flow cytometry data corresponding to this study can be found within Immport study SDY1302. Positive and negative controls for microbiome samples are uploaded under SRA bioproject PRJNA474485. Microbiome samples corresponding to PRISM2 are distinguished from PRISM1 via "_PRISM2" appended to the sample name. Within the positive and negative controls, PRISM1 controls are uploaded as bam files and PRISM2 controls are uploaded as paired fastq. Samples ending in -08 correspond to TLDA qPCR results for a given sample. There is a column for each pathogen tested and a column to indicate where that pathogen was bacteria or virus.

Länk

dbGaP study id = phs001347

Nyckelord

Versioner (1)
  1. 11/11/24 11/11/24 - Dr. Christian Niklas
Rättsinnehavare

Gloria Pryhuber, University of Rochester Rochester, Rochester, NY, USA

Uppladdad den

November 11, 2024

DOI

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Licens

Creative Commons BY 4.0
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dbGaP phs001347 Prematurity, Respiratory Outcomes, Immune System, and Microbiome Study (PRISM)

Engelsk

This sample attributes table contains sample IDs, visit, postmenstrual ages at time of nsasal or rectal swab sampling, day of life of the nasal or rectal tests, body site, read counts, analyte type, tumor status, histological type, region of bacteria being sequenced, presence of bacteria or virus (Adenovirus, Bocavirus, Bordetella pertussis, Coronavirus 1-4, Chlamydophila pneumoniae, Enterobacteriaceae, Flu A, Flu B, Haemophilus influenzae, Human metapneumovirus, Moraxella, Mycoplasma hominis, Mycoplasma pneumoniae, parechovirus, PIV 1-3, Rhinovirus, RSV, Streptococcus pneumoniae, and Ureaplasma) within the sample, corresponding bacteria or virus classification, hospital admissions, due to wheezing or breathing problems, admitted to intensive care, admissions due to RSV, sick visits, sick visits due to wheezing or breathing problems or wheezing unknown, has baby chest sounded wheezy or whistling, occurred with or without colds, chest wheezy during daytime or nighttime, diagnosed with wheezing by doctor, cough without cold, coughing during daytime or nighttime, number of colds, breathing and heart rate monitor, oxygen therapy, CPAP or BIPAP, ventilator, trach or breathing tube, feeding tube in nose or stomach, other equipment used, is baby receiving breast milk, is baby receiving breast milk exclusively, did baby receive breast milk since last visit, for how many months did baby receive breast milk for more than half of feedings, does baby eat any non-milk foods, and what non-milk foods does baby eat.

5 Formulär  
  1. StudyEvent: Prematurity Respiratory Outcomes Immune System and Microbiome Study
    1. Eligibility Criteria
    2. The subject consent file includes subject IDs, consent information, subject aliases, and study ID.
    3. This data table contains 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.
    4. This subject phenotype table contains subject IDs, cohort, sex, ethnic, race, gestational ages at birth and discharge, birth mode, bronchopulmonary dysplasia status, persistent repiratory disease after one year, oxygen AUC (Area Under the ROC curve) at 7 and 14 days, days on 7 variables (oxygen, mechanical ventilation, high frequency ventilation, cpap, nasal cannula gt 1 lmp, any respiratory support, and nasal cannula), maximum mean airway pressure, last PMA and DOL on ETT for GT 2 days in a row, exposure to furry animals in the home, asthma, allergies and eczema within siblings, BMI of the mother at the time of delivery, chlorioamnionitis, season of birth, derived respiratory severity score, oxygen AUC for first 14 days of life, and difference between FIO2 weeks 1 and 2.
    5. This sample attributes table contains sample IDs, visit, postmenstrual ages at time of nsasal or rectal swab sampling, day of life of the nasal or rectal tests, body site, read counts, analyte type, tumor status, histological type, region of bacteria being sequenced, presence of bacteria or virus (Adenovirus, Bocavirus, Bordetella pertussis, Coronavirus 1-4, Chlamydophila pneumoniae, Enterobacteriaceae, Flu A, Flu B, Haemophilus influenzae, Human metapneumovirus, Moraxella, Mycoplasma hominis, Mycoplasma pneumoniae, parechovirus, PIV 1-3, Rhinovirus, RSV, Streptococcus pneumoniae, and Ureaplasma) within the sample, corresponding bacteria or virus classification, hospital admissions, due to wheezing or breathing problems, admitted to intensive care, admissions due to RSV, sick visits, sick visits due to wheezing or breathing problems or wheezing unknown, has baby chest sounded wheezy or whistling, occurred with or without colds, chest wheezy during daytime or nighttime, diagnosed with wheezing by doctor, cough without cold, coughing during daytime or nighttime, number of colds, breathing and heart rate monitor, oxygen therapy, CPAP or BIPAP, ventilator, trach or breathing tube, feeding tube in nose or stomach, other equipment used, is baby receiving breast milk, is baby receiving breast milk exclusively, did baby receive breast milk since last visit, for how many months did baby receive breast milk for more than half of feedings, does baby eat any non-milk foods, and what non-milk foods does baby eat.
pht006797
Beskrivning

pht006797

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

SAMPLE_ID

Datatyp

string

Alias
UMLS CUI [1,1]
C4684638
UMLS CUI [1,2]
C1299222
Label describing the purpose of the visit
Beskrivning

Visit

Datatyp

string

Alias
UMLS CUI [1,1]
C1704447
Body site where sample was collected
Beskrivning

BODY_SITE

Datatyp

string

Alias
UMLS CUI [1,1]
C0449705
Cell or tissue type or subtype of sample
Beskrivning

HISTOLOGICAL_TYPE

Datatyp

string

Alias
UMLS CUI [1,1]
C2347026
UMLS CUI [1,2]
C0007634
UMLS CUI [1,3]
C0332307
UMLS CUI [2,1]
C2347026
UMLS CUI [2,2]
C0007634
UMLS CUI [2,3]
C0449560
UMLS CUI [3,1]
C1292533
UMLS CUI [3,2]
C0332307
UMLS CUI [4,1]
C1292533
UMLS CUI [4,2]
C0449560
Analyte Type
Beskrivning

ANALYTE_TYPE

Datatyp

string

Alias
UMLS CUI [1,1]
C4744818
Tumor status
Beskrivning

IS_TUMOR

Datatyp

text

Alias
UMLS CUI [1,1]
C0475752
Region of bacteria being sequenced
Beskrivning

Region_16S

Datatyp

string

Alias
UMLS CUI [1,1]
C0004611
UMLS CUI [1,2]
C0205147
UMLS CUI [1,3]
C1519249
Number of reads measured in the sample
Beskrivning

OTU_ReadCount

Datatyp

text

Alias
UMLS CUI [1,1]
C2347026
UMLS CUI [1,2]
C0242485
UMLS CUI [1,3]
C0237753
Postmenstrual Age (weeks) at time of nasal swab sampling
Beskrivning

nasalCGA

Datatyp

float

Alias
UMLS CUI [1,1]
C3828508
UMLS CUI [1,2]
C3669207
Day of life of the nasal test
Beskrivning

nasalDol

Datatyp

text

Alias
UMLS CUI [1,1]
C3669207
UMLS CUI [1,2]
C5401457
Postmenstrual Age (weeks) at time of rectal swab sampling
Beskrivning

rectalCGA

Datatyp

float

Alias
UMLS CUI [1,1]
C3828508
UMLS CUI [1,2]
C0444215
Day of life of the rectal test
Beskrivning

rectalDol

Datatyp

text

Alias
UMLS CUI [1,1]
C0444215
UMLS CUI [1,2]
C5401457
Presence of Adenovirus within the sample
Beskrivning

Adeno

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C0001483
UMLS CUI [1,3]
C2347026
Hardcoded to virus, needed for analysis
Beskrivning

Adeno classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0001483
UMLS CUI [1,3]
C0936012
Presence of Bocavirus within the sample
Beskrivning

Boca

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C1641393
Hardcoded to virus, needed for analysis
Beskrivning

Boca classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C1641393
Presence of Bordetella pertussis within the sample
Beskrivning

B. pert

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0006017
Hardcoded to bacteria needed for analysis
Beskrivning

B. pert classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0006017
Presence of Coronavirus 1 within the sample
Beskrivning

Corona 1

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0332307
UMLS CUI [1,4]
C0206422
UMLS CUI [1,5]
C0205447
Hardcoded to virus, needed for analysis
Beskrivning

Corona 1 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205447
Presence of Coronavirus 2 within the sample
Beskrivning

Corona 2

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205448
Hardcoded to virus, needed for analysis
Beskrivning

Corona 2 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205448
Presence of Coronavirus 3 within the sample
Beskrivning

Corona 3

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205449
Hardcoded to virus, needed for analysis
Beskrivning

Corona 3 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205449
Presence of Coronavirus 4 within the sample
Beskrivning

Corona 4

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205450
Hardcoded to virus, needed for analysis
Beskrivning

Corona 4 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0206422
UMLS CUI [1,4]
C0332307
UMLS CUI [1,5]
C0205450
Presence of Chlamydophila pneumoniae within the sample
Beskrivning

C. pneu

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0887972
Hardcoded to bacteria needed for analysis
Beskrivning

C. pneu classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0887972
Presence of Enterobacteriaceae within the sample
Beskrivning

Entero XL

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0014346
Hardcoded to bacteria needed for analysis
Beskrivning

Entero XL classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0014346
Presence of Flu A within the sample
Beskrivning

Flu A

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0029347
Hardcoded to virus, needed for analysis
Beskrivning

Flu A classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0029347
Presence of Flu B within the sample
Beskrivning

Flu B

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0029348
Hardcoded to virus, needed for analysis
Beskrivning

Flu B classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0029348
Presence of Haemophilus influenzae within the sample
Beskrivning

H. influ

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0018483
Hardcoded to bacteria needed for analysis
Beskrivning

H. influ classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0018483
Presence of Human metapneumovirus within the sample
Beskrivning

hMPV

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0949907
Hardcoded to virus, needed for analysis
Beskrivning

hMPV classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0949907
Presence of Mycoplasma hominis within the sample
Beskrivning

M. hom

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0317838
Hardcoded to bacteria needed for analysis
Beskrivning

M. hom classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0317838
Presence of Mycoplasma pneumoniae within the sample
Beskrivning

M. pneu

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0026941
Hardcoded to bacteria needed for analysis
Beskrivning

M. pneu classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0026941
Presence of parechovirus within the sample
Beskrivning

Parecho

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0950102
Hardcoded to virus, needed for analysis
Beskrivning

Parecho classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0950102
Presence of PIV 1 within the sample
Beskrivning

PIV 1

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0600289
Hardcoded to virus, needed for analysis
Beskrivning

PIV 1 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0600289
Presence of PIV 2 within the sample
Beskrivning

PIV 2

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0030391
Hardcoded to virus, needed for analysis
Beskrivning

PIV 2 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0030391
Presence of PIV 3 within the sample
Beskrivning

PIV 3

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0030392
Hardcoded to virus, needed for analysis
Beskrivning

PIV 3 classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0030392
Presence of Rhinovirus within the sample
Beskrivning

Rhino

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0035473
Hardcoded to bacteria needed for analysis
Beskrivning

Rhino classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0035473
Presence of RSV within the sample
Beskrivning

RSV

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0035236
Hardcoded to virus, needed for analysis
Beskrivning

RSV classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0035236
Presence of Streptococcus pneumoniae within the sample
Beskrivning

S. pneu

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0038410
Hardcoded to virus, needed for analysis
Beskrivning

S. pneu classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0038410
Presence of Ureaplasma within the sample
Beskrivning

Urea

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0041944
Hardcoded to bacteria needed for analysis
Beskrivning

Urea classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0041944
Number hospital admissions
Beskrivning

huadmit

Datatyp

float

Alias
UMLS CUI [1,1]
C1265611
UMLS CUI [1,2]
C0184666
Due to wheezing or breathing problems
Beskrivning

huwheeze

Datatyp

float

Alias
UMLS CUI [1,1]
C0678226
UMLS CUI [1,2]
C0043144
UMLS CUI [2,1]
C0678226
UMLS CUI [2,2]
C3641913
Admitted to intensive care
Beskrivning

huicu

Datatyp

string

Alias
UMLS CUI [1,1]
C0583239
Admissions due to RSV
Beskrivning

hursv

Datatyp

string

Alias
UMLS CUI [1,1]
C0184666
UMLS CUI [1,2]
C0678226
UMLS CUI [1,3]
C0035236
Sick visits
Beskrivning

huervt

Datatyp

float

Alias
UMLS CUI [1,1]
C2010702
UMLS CUI [1,2]
C0545082
Sick visits unknown
Beskrivning

huervtunk

Datatyp

string

Alias
UMLS CUI [1,1]
C2010702
UMLS CUI [1,2]
C0545082
UMLS CUI [1,3]
C0439673
Sick visits due to wheezing or breathing problems
Beskrivning

huerwz

Datatyp

float

Alias
UMLS CUI [1,1]
C2010702
UMLS CUI [1,2]
C0545082
UMLS CUI [1,3]
C0678226
UMLS CUI [1,4]
C0043144
UMLS CUI [2,1]
C2010702
UMLS CUI [2,2]
C0545082
UMLS CUI [2,3]
C0678226
UMLS CUI [2,4]
C3641913
Sick visits due to wheezing unk
Beskrivning

huerwzunk

Datatyp

string

Alias
UMLS CUI [1,1]
C2010702
UMLS CUI [1,2]
C0545082
UMLS CUI [1,3]
C0678226
UMLS CUI [1,4]
C0043144
UMLS CUI [1,5]
C0439673
Has baby chest sounded wheezy or whistling
Beskrivning

sswheeze

Datatyp

string

Alias
UMLS CUI [1,1]
C0021270
UMLS CUI [1,2]
C0817096
UMLS CUI [1,3]
C0043144
UMLS CUI [2,1]
C0021270
UMLS CUI [2,2]
C0817096
UMLS CUI [2,3]
C0425483
Occurred with colds
Beskrivning

sscold

Datatyp

string

Alias
UMLS CUI [1,1]
C2745955
UMLS CUI [1,2]
C0009443
Occurred apart from colds
Beskrivning

ssacold

Datatyp

string

Alias
UMLS CUI [1,1]
C2745955
UMLS CUI [1,2]
C1705847
UMLS CUI [1,3]
C0009443
Chest wheezy during daytime
Beskrivning

sswday

Datatyp

string

Alias
UMLS CUI [1,1]
C0817096
UMLS CUI [1,2]
C0043144
UMLS CUI [1,3]
C0332169
Chest wheezy during nighttime
Beskrivning

sswnight

Datatyp

string

Alias
UMLS CUI [1,1]
C0817096
UMLS CUI [1,2]
C0043144
UMLS CUI [1,3]
C0240526
Diagnosed with wheezing by doctor
Beskrivning

ssdxw

Datatyp

string

Alias
UMLS CUI [1,1]
C0031831
UMLS CUI [1,2]
C0011900
UMLS CUI [1,3]
C0043144
Cough without cold
Beskrivning

sscough

Datatyp

string

Alias
UMLS CUI [1,1]
C0010200
UMLS CUI [1,2]
C0332288
UMLS CUI [1,3]
C0009443
Coughing during daytime
Beskrivning

sscday

Datatyp

string

Alias
UMLS CUI [1,1]
C0010200
UMLS CUI [1,2]
C0332169
Coughing during nighttime
Beskrivning

sscnight

Datatyp

string

Alias
UMLS CUI [1,1]
C0010200
UMLS CUI [1,2]
C0240526
Number of colds
Beskrivning

sshcold

Datatyp

float

Alias
UMLS CUI [1,1]
C1265611
UMLS CUI [1,2]
C0009443
Breathing and Heart Rate Monitor
Beskrivning

qsmonitor

Datatyp

string

Alias
UMLS CUI [1,1]
C4551528
UMLS CUI [2,1]
C0513707
Oxygen Therapy
Beskrivning

qsoxygen_fup

Datatyp

string

Alias
UMLS CUI [1,1]
C0184633
CPAP or BIPAP
Beskrivning

qscpaphome

Datatyp

string

Alias
UMLS CUI [1,1]
C0199451
UMLS CUI [2,1]
C1956423
Ventilator
Beskrivning

qsventhome

Datatyp

string

Alias
UMLS CUI [1,1]
C0087153
Trach or breathing tube
Beskrivning

qstrachfup

Datatyp

string

Alias
UMLS CUI [1,1]
C0184106
Feeding tube in nose
Beskrivning

qsngtb

Datatyp

string

Alias
UMLS CUI [1,1]
C0192456
Feeding tube in stomach
Beskrivning

qsgastro

Datatyp

string

Alias
UMLS CUI [1,1]
C0349717
Other equipment used
Beskrivning

qsoths

Datatyp

string

Alias
UMLS CUI [1,1]
C0205394
UMLS CUI [1,2]
C0014672
Describe other equipment
Beskrivning

qothtechs

Datatyp

string

Alias
UMLS CUI [1,1]
C0205394
UMLS CUI [1,2]
C0014672
UMLS CUI [1,3]
C0678257
Is baby receiving breast milk
Beskrivning

fup1_bmilk

Datatyp

string

Alias
UMLS CUI [1,1]
C0006147
Is baby receiving breast milk exclusively
Beskrivning

fup1_bmilk_excl

Datatyp

string

Alias
UMLS CUI [1,1]
C0006147
UMLS CUI [1,2]
C1548966
Did baby receive breast milk since last visit
Beskrivning

dymilkhome1

Datatyp

string

Alias
UMLS CUI [1,1]
C0006147
UMLS CUI [1,2]
C1711239
UMLS CUI [1,3]
C1517741
UMLS CUI [1,4]
C0545082
For how many months did baby receive breast milk for more than half of feedings
Beskrivning

dyfeedhome1

Datatyp

string

Alias
UMLS CUI [1,1]
C0040223
UMLS CUI [1,2]
C0006147
UMLS CUI [1,3]
C5549115
UMLS CUI [1,4]
C2148613
Does baby eat any non-milk foods
Beskrivning

fup1_nonmilk

Datatyp

string

Alias
UMLS CUI [1,1]
C2148613
UMLS CUI [1,2]
C0205394
UMLS CUI [1,3]
C0006147
What non-milk foods does baby eat
Beskrivning

fup1_nonmilk_log

Datatyp

string

Alias
UMLS CUI [1,1]
C0016452
UMLS CUI [1,2]
C2348235
UMLS CUI [1,3]
C0205394
UMLS CUI [1,4]
C0006147
Hardcoded to bacteria needed for analysis
Beskrivning

Moraxella classification

Datatyp

string

Alias
UMLS CUI [1,1]
C0008902
UMLS CUI [1,2]
C0936012
UMLS CUI [1,3]
C0026536
Presence of Moraxella within the sample
Beskrivning

Moraxella

Datatyp

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C2347026
UMLS CUI [1,3]
C0026536
Number of reads measured in the sample within the PRISM2 study
Beskrivning

OTU_ReadCount2

Datatyp

text

Alias
UMLS CUI [1,1]
C2347026
UMLS CUI [1,2]
C0242485
UMLS CUI [1,3]
C0237753
UMLS CUI [1,4]
C0332285
UMLS CUI [1,5]
C0008976
Tillbaka till toppen

Similar models

This sample attributes table contains sample IDs, visit, postmenstrual ages at time of nsasal or rectal swab sampling, day of life of the nasal or rectal tests, body site, read counts, analyte type, tumor status, histological type, region of bacteria being sequenced, presence of bacteria or virus (Adenovirus, Bocavirus, Bordetella pertussis, Coronavirus 1-4, Chlamydophila pneumoniae, Enterobacteriaceae, Flu A, Flu B, Haemophilus influenzae, Human metapneumovirus, Moraxella, Mycoplasma hominis, Mycoplasma pneumoniae, parechovirus, PIV 1-3, Rhinovirus, RSV, Streptococcus pneumoniae, and Ureaplasma) within the sample, corresponding bacteria or virus classification, hospital admissions, due to wheezing or breathing problems, admitted to intensive care, admissions due to RSV, sick visits, sick visits due to wheezing or breathing problems or wheezing unknown, has baby chest sounded wheezy or whistling, occurred with or without colds, chest wheezy during daytime or nighttime, diagnosed with wheezing by doctor, cough without cold, coughing during daytime or nighttime, number of colds, breathing and heart rate monitor, oxygen therapy, CPAP or BIPAP, ventilator, trach or breathing tube, feeding tube in nose or stomach, other equipment used, is baby receiving breast milk, is baby receiving breast milk exclusively, did baby receive breast milk since last visit, for how many months did baby receive breast milk for more than half of feedings, does baby eat any non-milk foods, and what non-milk foods does baby eat.

5 Formulär
  1. StudyEvent: Prematurity Respiratory Outcomes Immune System and Microbiome Study
    1. Eligibility Criteria
    2. The subject consent file includes subject IDs, consent information, subject aliases, and study ID.
    3. This data table contains 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.
    4. This subject phenotype table contains subject IDs, cohort, sex, ethnic, race, gestational ages at birth and discharge, birth mode, bronchopulmonary dysplasia status, persistent repiratory disease after one year, oxygen AUC (Area Under the ROC curve) at 7 and 14 days, days on 7 variables (oxygen, mechanical ventilation, high frequency ventilation, cpap, nasal cannula gt 1 lmp, any respiratory support, and nasal cannula), maximum mean airway pressure, last PMA and DOL on ETT for GT 2 days in a row, exposure to furry animals in the home, asthma, allergies and eczema within siblings, BMI of the mother at the time of delivery, chlorioamnionitis, season of birth, derived respiratory severity score, oxygen AUC for first 14 days of life, and difference between FIO2 weeks 1 and 2.
    5. This sample attributes table contains sample IDs, visit, postmenstrual ages at time of nsasal or rectal swab sampling, day of life of the nasal or rectal tests, body site, read counts, analyte type, tumor status, histological type, region of bacteria being sequenced, presence of bacteria or virus (Adenovirus, Bocavirus, Bordetella pertussis, Coronavirus 1-4, Chlamydophila pneumoniae, Enterobacteriaceae, Flu A, Flu B, Haemophilus influenzae, Human metapneumovirus, Moraxella, Mycoplasma hominis, Mycoplasma pneumoniae, parechovirus, PIV 1-3, Rhinovirus, RSV, Streptococcus pneumoniae, and Ureaplasma) within the sample, corresponding bacteria or virus classification, hospital admissions, due to wheezing or breathing problems, admitted to intensive care, admissions due to RSV, sick visits, sick visits due to wheezing or breathing problems or wheezing unknown, has baby chest sounded wheezy or whistling, occurred with or without colds, chest wheezy during daytime or nighttime, diagnosed with wheezing by doctor, cough without cold, coughing during daytime or nighttime, number of colds, breathing and heart rate monitor, oxygen therapy, CPAP or BIPAP, ventilator, trach or breathing tube, feeding tube in nose or stomach, other equipment used, is baby receiving breast milk, is baby receiving breast milk exclusively, did baby receive breast milk since last visit, for how many months did baby receive breast milk for more than half of feedings, does baby eat any non-milk foods, and what non-milk foods does baby eat.
Name
Typ
Description | Question | Decode (Coded Value)
Datatyp
Alias
Item Group
pht006797
C3846158 (UMLS CUI [1,1])
SAMPLE_ID
Item
De-identified Sample ID
string
C4684638 (UMLS CUI [1,1])
C1299222 (UMLS CUI [1,2])
Visit
Item
Label describing the purpose of the visit
string
C1704447 (UMLS CUI [1,1])
BODY_SITE
Item
Body site where sample was collected
string
C0449705 (UMLS CUI [1,1])
HISTOLOGICAL_TYPE
Item
Cell or tissue type or subtype of sample
string
C2347026 (UMLS CUI [1,1])
C0007634 (UMLS CUI [1,2])
C0332307 (UMLS CUI [1,3])
C2347026 (UMLS CUI [2,1])
C0007634 (UMLS CUI [2,2])
C0449560 (UMLS CUI [2,3])
C1292533 (UMLS CUI [3,1])
C0332307 (UMLS CUI [3,2])
C1292533 (UMLS CUI [4,1])
C0449560 (UMLS CUI [4,2])
ANALYTE_TYPE
Item
Analyte Type
string
C4744818 (UMLS CUI [1,1])
Item
Tumor status
text
C0475752 (UMLS CUI [1,1])
IS_TUMOR
Code List
Tumor status
CL Item
Is not a tumor (N)
C0027651 (UMLS CUI [1,1])
C1518422 (UMLS CUI [1,2])
CL Item
Is Tumor (TRUE)
C0027651 (UMLS CUI [1,1])
Region_16S
Item
Region of bacteria being sequenced
string
C0004611 (UMLS CUI [1,1])
C0205147 (UMLS CUI [1,2])
C1519249 (UMLS CUI [1,3])
OTU_ReadCount
Item
Number of reads measured in the sample
text
C2347026 (UMLS CUI [1,1])
C0242485 (UMLS CUI [1,2])
C0237753 (UMLS CUI [1,3])
nasalCGA
Item
Postmenstrual Age (weeks) at time of nasal swab sampling
float
C3828508 (UMLS CUI [1,1])
C3669207 (UMLS CUI [1,2])
nasalDol
Item
Day of life of the nasal test
text
C3669207 (UMLS CUI [1,1])
C5401457 (UMLS CUI [1,2])
rectalCGA
Item
Postmenstrual Age (weeks) at time of rectal swab sampling
float
C3828508 (UMLS CUI [1,1])
C0444215 (UMLS CUI [1,2])
rectalDol
Item
Day of life of the rectal test
text
C0444215 (UMLS CUI [1,1])
C5401457 (UMLS CUI [1,2])
Item
Presence of Adenovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C0001483 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
Adeno
Code List
Presence of Adenovirus within the sample
CL Item
no (0)
CL Item
yes (1)
Adeno classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0001483 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Bocavirus within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C1641393 (UMLS CUI [1,3])
Boca
Code List
Presence of Bocavirus within the sample
CL Item
no (0)
CL Item
yes (1)
Boca classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C1641393 (UMLS CUI [1,3])
Item
Presence of Bordetella pertussis within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0006017 (UMLS CUI [1,3])
B. pert
Code List
Presence of Bordetella pertussis within the sample
CL Item
no (0)
CL Item
yes (1)
B. pert classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0006017 (UMLS CUI [1,3])
Item
Presence of Coronavirus 1 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0332307 (UMLS CUI [1,3])
C0206422 (UMLS CUI [1,4])
C0205447 (UMLS CUI [1,5])
Corona 1
Code List
Presence of Coronavirus 1 within the sample
CL Item
no (0)
CL Item
yes (1)
Corona 1 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205447 (UMLS CUI [1,5])
Item
Presence of Coronavirus 2 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205448 (UMLS CUI [1,5])
Corona 2
Code List
Presence of Coronavirus 2 within the sample
CL Item
no (0)
CL Item
yes (1)
Corona 2 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205448 (UMLS CUI [1,5])
Item
Presence of Coronavirus 3 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205449 (UMLS CUI [1,5])
Corona 3
Code List
Presence of Coronavirus 3 within the sample
CL Item
no (0)
CL Item
yes (1)
Corona 3 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205449 (UMLS CUI [1,5])
Item
Presence of Coronavirus 4 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205450 (UMLS CUI [1,5])
Corona 4
Code List
Presence of Coronavirus 4 within the sample
CL Item
no (0)
CL Item
yes (1)
Corona 4 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0206422 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0205450 (UMLS CUI [1,5])
Item
Presence of Chlamydophila pneumoniae within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0887972 (UMLS CUI [1,3])
C. pneu
Code List
Presence of Chlamydophila pneumoniae within the sample
CL Item
no (0)
CL Item
yes (1)
C. pneu classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0887972 (UMLS CUI [1,3])
Item
Presence of Enterobacteriaceae within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0014346 (UMLS CUI [1,3])
Entero XL
Code List
Presence of Enterobacteriaceae within the sample
CL Item
no (0)
CL Item
yes (1)
Entero XL classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0014346 (UMLS CUI [1,3])
Item
Presence of Flu A within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0029347 (UMLS CUI [1,3])
Flu A
Code List
Presence of Flu A within the sample
CL Item
no (0)
CL Item
yes (1)
Flu A classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0029347 (UMLS CUI [1,3])
Item
Presence of Flu B within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0029348 (UMLS CUI [1,3])
Flu B
Code List
Presence of Flu B within the sample
CL Item
no (0)
CL Item
yes (1)
Flu B classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0029348 (UMLS CUI [1,3])
Item
Presence of Haemophilus influenzae within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0018483 (UMLS CUI [1,3])
H. influ
Code List
Presence of Haemophilus influenzae within the sample
CL Item
no (0)
CL Item
yes (1)
H. influ classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0018483 (UMLS CUI [1,3])
Item
Presence of Human metapneumovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0949907 (UMLS CUI [1,3])
hMPV
Code List
Presence of Human metapneumovirus within the sample
CL Item
no (0)
CL Item
yes (1)
hMPV classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0949907 (UMLS CUI [1,3])
Item
Presence of Mycoplasma hominis within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0317838 (UMLS CUI [1,3])
M. hom
Code List
Presence of Mycoplasma hominis within the sample
CL Item
no (0)
CL Item
yes (1)
M. hom classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0317838 (UMLS CUI [1,3])
Item
Presence of Mycoplasma pneumoniae within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0026941 (UMLS CUI [1,3])
M. pneu
Code List
Presence of Mycoplasma pneumoniae within the sample
CL Item
no (0)
CL Item
yes (1)
M. pneu classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0026941 (UMLS CUI [1,3])
Item
Presence of parechovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0950102 (UMLS CUI [1,3])
Parecho
Code List
Presence of parechovirus within the sample
CL Item
no (0)
CL Item
yes (1)
Parecho classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0950102 (UMLS CUI [1,3])
Item
Presence of PIV 1 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0600289 (UMLS CUI [1,3])
PIV 1
Code List
Presence of PIV 1 within the sample
CL Item
no (0)
CL Item
yes (1)
PIV 1 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0600289 (UMLS CUI [1,3])
Item
Presence of PIV 2 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0030391 (UMLS CUI [1,3])
PIV 2
Code List
Presence of PIV 2 within the sample
CL Item
no (0)
CL Item
yes (1)
PIV 2 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0030391 (UMLS CUI [1,3])
Item
Presence of PIV 3 within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0030392 (UMLS CUI [1,3])
PIV 3
Code List
Presence of PIV 3 within the sample
CL Item
no (0)
CL Item
yes (1)
PIV 3 classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0030392 (UMLS CUI [1,3])
Item
Presence of Rhinovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0035473 (UMLS CUI [1,3])
Rhino
Code List
Presence of Rhinovirus within the sample
CL Item
no (0)
CL Item
yes (1)
Rhino classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0035473 (UMLS CUI [1,3])
Item
Presence of RSV within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0035236 (UMLS CUI [1,3])
RSV
Code List
Presence of RSV within the sample
CL Item
no (0)
CL Item
yes (1)
RSV classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0035236 (UMLS CUI [1,3])
Item
Presence of Streptococcus pneumoniae within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0038410 (UMLS CUI [1,3])
S. pneu
Code List
Presence of Streptococcus pneumoniae within the sample
CL Item
no (0)
CL Item
yes (1)
S. pneu classification
Item
Hardcoded to virus, needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0038410 (UMLS CUI [1,3])
Item
Presence of Ureaplasma within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0041944 (UMLS CUI [1,3])
Urea
Code List
Presence of Ureaplasma within the sample
CL Item
no (0)
CL Item
yes (1)
Urea classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0041944 (UMLS CUI [1,3])
huadmit
Item
Number hospital admissions
float
C1265611 (UMLS CUI [1,1])
C0184666 (UMLS CUI [1,2])
huwheeze
Item
Due to wheezing or breathing problems
float
C0678226 (UMLS CUI [1,1])
C0043144 (UMLS CUI [1,2])
C0678226 (UMLS CUI [2,1])
C3641913 (UMLS CUI [2,2])
huicu
Item
Admitted to intensive care
string
C0583239 (UMLS CUI [1,1])
hursv
Item
Admissions due to RSV
string
C0184666 (UMLS CUI [1,1])
C0678226 (UMLS CUI [1,2])
C0035236 (UMLS CUI [1,3])
huervt
Item
Sick visits
float
C2010702 (UMLS CUI [1,1])
C0545082 (UMLS CUI [1,2])
huervtunk
Item
Sick visits unknown
string
C2010702 (UMLS CUI [1,1])
C0545082 (UMLS CUI [1,2])
C0439673 (UMLS CUI [1,3])
huerwz
Item
Sick visits due to wheezing or breathing problems
float
C2010702 (UMLS CUI [1,1])
C0545082 (UMLS CUI [1,2])
C0678226 (UMLS CUI [1,3])
C0043144 (UMLS CUI [1,4])
C2010702 (UMLS CUI [2,1])
C0545082 (UMLS CUI [2,2])
C0678226 (UMLS CUI [2,3])
C3641913 (UMLS CUI [2,4])
huerwzunk
Item
Sick visits due to wheezing unk
string
C2010702 (UMLS CUI [1,1])
C0545082 (UMLS CUI [1,2])
C0678226 (UMLS CUI [1,3])
C0043144 (UMLS CUI [1,4])
C0439673 (UMLS CUI [1,5])
sswheeze
Item
Has baby chest sounded wheezy or whistling
string
C0021270 (UMLS CUI [1,1])
C0817096 (UMLS CUI [1,2])
C0043144 (UMLS CUI [1,3])
C0021270 (UMLS CUI [2,1])
C0817096 (UMLS CUI [2,2])
C0425483 (UMLS CUI [2,3])
sscold
Item
Occurred with colds
string
C2745955 (UMLS CUI [1,1])
C0009443 (UMLS CUI [1,2])
ssacold
Item
Occurred apart from colds
string
C2745955 (UMLS CUI [1,1])
C1705847 (UMLS CUI [1,2])
C0009443 (UMLS CUI [1,3])
sswday
Item
Chest wheezy during daytime
string
C0817096 (UMLS CUI [1,1])
C0043144 (UMLS CUI [1,2])
C0332169 (UMLS CUI [1,3])
sswnight
Item
Chest wheezy during nighttime
string
C0817096 (UMLS CUI [1,1])
C0043144 (UMLS CUI [1,2])
C0240526 (UMLS CUI [1,3])
ssdxw
Item
Diagnosed with wheezing by doctor
string
C0031831 (UMLS CUI [1,1])
C0011900 (UMLS CUI [1,2])
C0043144 (UMLS CUI [1,3])
sscough
Item
Cough without cold
string
C0010200 (UMLS CUI [1,1])
C0332288 (UMLS CUI [1,2])
C0009443 (UMLS CUI [1,3])
sscday
Item
Coughing during daytime
string
C0010200 (UMLS CUI [1,1])
C0332169 (UMLS CUI [1,2])
sscnight
Item
Coughing during nighttime
string
C0010200 (UMLS CUI [1,1])
C0240526 (UMLS CUI [1,2])
sshcold
Item
Number of colds
float
C1265611 (UMLS CUI [1,1])
C0009443 (UMLS CUI [1,2])
qsmonitor
Item
Breathing and Heart Rate Monitor
string
C4551528 (UMLS CUI [1,1])
C0513707 (UMLS CUI [2,1])
qsoxygen_fup
Item
Oxygen Therapy
string
C0184633 (UMLS CUI [1,1])
qscpaphome
Item
CPAP or BIPAP
string
C0199451 (UMLS CUI [1,1])
C1956423 (UMLS CUI [2,1])
qsventhome
Item
Ventilator
string
C0087153 (UMLS CUI [1,1])
qstrachfup
Item
Trach or breathing tube
string
C0184106 (UMLS CUI [1,1])
qsngtb
Item
Feeding tube in nose
string
C0192456 (UMLS CUI [1,1])
qsgastro
Item
Feeding tube in stomach
string
C0349717 (UMLS CUI [1,1])
qsoths
Item
Other equipment used
string
C0205394 (UMLS CUI [1,1])
C0014672 (UMLS CUI [1,2])
qothtechs
Item
Describe other equipment
string
C0205394 (UMLS CUI [1,1])
C0014672 (UMLS CUI [1,2])
C0678257 (UMLS CUI [1,3])
fup1_bmilk
Item
Is baby receiving breast milk
string
C0006147 (UMLS CUI [1,1])
fup1_bmilk_excl
Item
Is baby receiving breast milk exclusively
string
C0006147 (UMLS CUI [1,1])
C1548966 (UMLS CUI [1,2])
dymilkhome1
Item
Did baby receive breast milk since last visit
string
C0006147 (UMLS CUI [1,1])
C1711239 (UMLS CUI [1,2])
C1517741 (UMLS CUI [1,3])
C0545082 (UMLS CUI [1,4])
dyfeedhome1
Item
For how many months did baby receive breast milk for more than half of feedings
string
C0040223 (UMLS CUI [1,1])
C0006147 (UMLS CUI [1,2])
C5549115 (UMLS CUI [1,3])
C2148613 (UMLS CUI [1,4])
fup1_nonmilk
Item
Does baby eat any non-milk foods
string
C2148613 (UMLS CUI [1,1])
C0205394 (UMLS CUI [1,2])
C0006147 (UMLS CUI [1,3])
fup1_nonmilk_log
Item
What non-milk foods does baby eat
string
C0016452 (UMLS CUI [1,1])
C2348235 (UMLS CUI [1,2])
C0205394 (UMLS CUI [1,3])
C0006147 (UMLS CUI [1,4])
Moraxella classification
Item
Hardcoded to bacteria needed for analysis
string
C0008902 (UMLS CUI [1,1])
C0936012 (UMLS CUI [1,2])
C0026536 (UMLS CUI [1,3])
Item
Presence of Moraxella within the sample
text
C3854307 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
C0026536 (UMLS CUI [1,3])
Moraxella
Code List
Presence of Moraxella within the sample
CL Item
no (0)
CL Item
yes (1)
OTU_ReadCount2
Item
Number of reads measured in the sample within the PRISM2 study
text
C2347026 (UMLS CUI [1,1])
C0242485 (UMLS CUI [1,2])
C0237753 (UMLS CUI [1,3])
C0332285 (UMLS CUI [1,4])
C0008976 (UMLS CUI [1,5])
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