ID

45722

Descrição

Principal Investigator: Edward E. Walsh, M.D, University of Rochester Medical Center, Rochester, NY, USA MeSH: Respiratory Syncytial Virus Infections,Infant https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001201 A prospective multi-year clinical translational study including three cohorts of term infants experiencing their first Respiratory Syncytial Virus (RSV) season. All infants are less than or equal to nine months of age at study entry. The three subject cohorts represent the full spectrum of RSV disease severity and include a birth cohort, a cohort of infants hospitalized for RSV disease and infants evaluated at ambulatory settings for RSV infection. All infants are followed longitudinally and evaluated at recognition of acute RSV infection and twice during convalescence. Innate and adaptive immune status are comprehensively measured in association with clinical, environmental, viral, and bacteriologic factors. Genome-wide expression is assessed in the nasal airways, and in sorted peripheral blood lymphocytes. The study goal is to Identify host responses to RSV infection and factors associated with severe disease.

Link

dbGaP-study=phs001201

Palavras-chave

Versões (1)
  1. 24/05/2023 24/05/2023 - Chiara Middel
Titular dos direitos

Edward E. Walsh, M.D, University of Rochester Medical Center, Rochester, NY, USA

Transferido a

24 de maio de 2023

DOI

Para um pedido faça login.

Licença

Creative Commons BY 4.0
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dbGaP phs001201 ASsessing and Predicting Infant RSV Effects and Severity (AsPIRES) Study

Inglês

This sample attribute table contains sample ID, body site, analyte type, tumor status, histological type, publication, attribute, sequence number, sample days, presence of bacteria and virus (adenovirus, bocavirus, coronavirus, C. pneumoniae, enterobacteriaceae, Flu A or B, H. influenzae, metapneumovirus, catarrhalis, M. hominis, M. pneumoniae, parechovirus, PIV, rhinovirus, respiratory syncytial virus, S. pneumoniae, and ureaplasma), antibody titer scores of serum (Fa, Ga, Gb, RSV A, RSV B, nasal swab, and nasal wash), and read count.

9 Formulários  
  1. StudyEvent: SEV1
    1. Eligibility Criteria
    2. The subject consent file includes subject ID and consent information.
    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 ID, 12 genes (B2M, CD83, CES1, DNAI2, DNAH5, FOXRED1, GPI, KRT8, OAS1, PPIA, SOCS6, TYROBP) being expressed, and scores tied to gene expression.
    5. This subject phenotype table contains subject ID, delivery method, gestational age, birth weight, breastfeeding, family size, smoke exposure, enrollment season, sex, race, ethnicity, age at enrollment, and derived score for breastfeeding.
    6. This subject phenotype table contains subject ID, and any detected bacteria or virus pathogens including H.influenzae, M.catarrhalis, S.pneumoniae, coronavirus, and rhinovirus.
    7. This sample attribute table contains sample ID, and bacteria taxon including Moraxellaceae, Streptococcaceae, and Pasteurellaceae.
    8. This sample attribute table contains sample ID, body site, analyte type, tumor status, histological type, publication, attribute, sequence number, sample days, presence of bacteria and virus (adenovirus, bocavirus, coronavirus, C. pneumoniae, enterobacteriaceae, Flu A or B, H. influenzae, metapneumovirus, catarrhalis, M. hominis, M. pneumoniae, parechovirus, PIV, rhinovirus, respiratory syncytial virus, S. pneumoniae, and ureaplasma), antibody titer scores of serum (Fa, Ga, Gb, RSV A, RSV B, nasal swab, and nasal wash), and read count.
    9. This subject phenotype table contains subject ID, age at time of visit, presence of symptoms (wheezing, rales, retraction, cyanosis, apnea, lethargy, and poor air movement), maximum respiratory rate, worst saturated oxygen score, length of stay, strain of RSV (Respiratory Syncytial Virus), derived RSV severity score, RSV severity label, and antibiotic use.
pht007560
Descrição

pht007560

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

SAMPLE_ID

Tipo de dados

string

Alias
UMLS CUI [1,1]
C4684638
UMLS CUI [1,2]
C1299222
Body site where sample was collected
Descrição

BODY_SITE

Tipo de dados

string

Alias
UMLS CUI [1,1]
C0449705
Analyte Type
Descrição

ANALYTE_TYPE

Tipo de dados

string

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

IS_TUMOR

Tipo de dados

text

Alias
UMLS CUI [1,1]
C0475752
Cell or tissue type or subtype of sample
Descrição

HISTOLOGICAL_TYPE

Tipo de dados

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
PMID's of publications this sample is used in, seperated by semi colons
Descrição

Publication

Tipo de dados

string

Alias
UMLS CUI [1,1]
C4288349
UMLS CUI [1,2]
C0034036
UMLS CUI [1,3]
C1524063
UMLS CUI [1,4]
C0370003
Sample use if not indicated in 5a
Descrição

Attribute

Tipo de dados

string

Alias
UMLS CUI [1,1]
C2347026
UMLS CUI [1,2]
C1524063
Number mapping to corresponding visit
Descrição

SequenceNum

Tipo de dados

text

Alias
UMLS CUI [1,1]
C0237753
UMLS CUI [1,2]
C1283195
UMLS CUI [1,3]
C0545082
Days since RSV onset at time of sample collection
Descrição

SampleDaysSinceOnset

Tipo de dados

integer

Alias
UMLS CUI [1,1]
C0040223
UMLS CUI [1,2]
C0574845
UMLS CUI [1,3]
C0035235
UMLS CUI [1,4]
C0011008
UMLS CUI [1,5]
C0200345
Presence of Adenovirus within the sample
Descrição

Adeno

Tipo de dados

text

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

Adeno classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Bocavirus within the sample
Descrição

Boca

Tipo de dados

text

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

Boca classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Bordetella pertussis within the sample
Descrição

B. pert

Tipo de dados

text

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

B. pert classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Coronavirus 1 within the sample
Descrição

Corona 1

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C0206422
UMLS CUI [1,3]
C2347026
Hardcoded to virus, needed for analysis
Descrição

Corona 1 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Coronavirus 2 within the sample
Descrição

Corona 2

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C5203676
UMLS CUI [1,3]
C2347026
Hardcoded to virus, needed for analysis
Descrição

Corona 2 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Coronavirus 3 within the sample
Descrição

Corona 3

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C0206422
UMLS CUI [1,3]
C2347026
Hardcoded to virus, needed for analysis
Descrição

Corona 3 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Coronavirus 4 within the sample
Descrição

Corona 4

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C0206422
UMLS CUI [1,3]
C2347026
Hardcoded to virus, needed for analysis
Descrição

Corona 4 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Chlamydophila pneumoniae within the sample
Descrição

C. pneu

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C0085504
UMLS CUI [1,3]
C2347026
Hardcoded to bacteria needed for analysis
Descrição

C. pneu classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Enterobacteriaceae within the sample
Descrição

Entero XL

Tipo de dados

text

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

Entero XL classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Flu A within the sample
Descrição

Flu A

Tipo de dados

text

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

Flu A classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Flu B within the sample
Descrição

Flu B

Tipo de dados

text

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

Flu B classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Haemophilus influenzae within the sample
Descrição

H. influ

Tipo de dados

text

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

H. influ classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Human metapneumovirus within the sample
Descrição

hMPV

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C1258014
UMLS CUI [1,3]
C2347026
Hardcoded to virus, needed for analysis
Descrição

hMPV classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Moraxella catarrhalis within the sample
Descrição

M. cat

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3854307
UMLS CUI [1,2]
C0006132
UMLS CUI [1,3]
C2347026
Hardcoded to bacteria needed for analysis
Descrição

M. cat classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Mycoplasma hominis within the sample
Descrição

M. hom

Tipo de dados

text

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

M. hom classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Mycoplasma pneumoniae within the sample
Descrição

M. pneu

Tipo de dados

text

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

M. pneu classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of parechovirus within the sample
Descrição

Parecho

Tipo de dados

text

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

Parecho classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of PIV 1 within the sample
Descrição

PIV 1

Tipo de dados

text

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

PIV 1 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of PIV 2 within the sample
Descrição

PIV 2

Tipo de dados

text

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

PIV 2 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of PIV 3 within the sample
Descrição

PIV 3

Tipo de dados

text

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

PIV 3 classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Rhinovirus within the sample
Descrição

Rhino

Tipo de dados

text

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

Rhino classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of RSV within the sample
Descrição

RSV

Tipo de dados

text

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

RSV classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Streptococcus pneumoniae within the sample
Descrição

S. pneu

Tipo de dados

text

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

S. pneu classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Presence of Ureaplasma within the sample
Descrição

Urea

Tipo de dados

text

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

Urea classification

Tipo de dados

string

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C1514873
UMLS CUI [1,3]
C0936012
Fa serum antibody titer score
Descrição

Fa Imputed Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C2229572
UMLS CUI [1,3]
C0449820
Ga serum antibody titer score
Descrição

Ga Imputed Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C2229572
UMLS CUI [1,3]
C0449820
Gb serum antibody titer score
Descrição

Gb Imputed Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C2229572
UMLS CUI [1,3]
C0449820
RSV A serum antibody titer score
Descrição

RSV A Neut Antibody Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C0035236
UMLS CUI [1,2]
C2229572
UMLS CUI [1,3]
C0449820
RSV B serum antibody titer score
Descrição

RSV B Neut Antibody Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C0035236
UMLS CUI [1,2]
C2229572
UMLS CUI [1,3]
C0449820
Nasal swab antibody titer score
Descrição

Nasal Swab Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C3669207
UMLS CUI [1,2]
C2229572
UMLS CUI [1,3]
C0449820
Nasal wash antibody titer score
Descrição

Nasal Wash Titer

Tipo de dados

text

Alias
UMLS CUI [1,1]
C0027423
UMLS CUI [1,2]
C0441648
UMLS CUI [1,3]
C2229572
Number of reads within the sample
Descrição

ReadCount

Tipo de dados

integer

Alias
UMLS CUI [1,1]
C3846158
UMLS CUI [1,2]
C2347026
RSV status at time of sample
Descrição

RsvStatus

Tipo de dados

string

Alias
UMLS CUI [1,1]
C0035236
UMLS CUI [1,2]
C0449438
UMLS CUI [1,3]
C0011008
UMLS CUI [1,4]
C0200345
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This sample attribute table contains sample ID, body site, analyte type, tumor status, histological type, publication, attribute, sequence number, sample days, presence of bacteria and virus (adenovirus, bocavirus, coronavirus, C. pneumoniae, enterobacteriaceae, Flu A or B, H. influenzae, metapneumovirus, catarrhalis, M. hominis, M. pneumoniae, parechovirus, PIV, rhinovirus, respiratory syncytial virus, S. pneumoniae, and ureaplasma), antibody titer scores of serum (Fa, Ga, Gb, RSV A, RSV B, nasal swab, and nasal wash), and read count.

9 Formulários
  1. StudyEvent: SEV1
    1. Eligibility Criteria
    2. The subject consent file includes subject ID and consent information.
    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 ID, 12 genes (B2M, CD83, CES1, DNAI2, DNAH5, FOXRED1, GPI, KRT8, OAS1, PPIA, SOCS6, TYROBP) being expressed, and scores tied to gene expression.
    5. This subject phenotype table contains subject ID, delivery method, gestational age, birth weight, breastfeeding, family size, smoke exposure, enrollment season, sex, race, ethnicity, age at enrollment, and derived score for breastfeeding.
    6. This subject phenotype table contains subject ID, and any detected bacteria or virus pathogens including H.influenzae, M.catarrhalis, S.pneumoniae, coronavirus, and rhinovirus.
    7. This sample attribute table contains sample ID, and bacteria taxon including Moraxellaceae, Streptococcaceae, and Pasteurellaceae.
    8. This sample attribute table contains sample ID, body site, analyte type, tumor status, histological type, publication, attribute, sequence number, sample days, presence of bacteria and virus (adenovirus, bocavirus, coronavirus, C. pneumoniae, enterobacteriaceae, Flu A or B, H. influenzae, metapneumovirus, catarrhalis, M. hominis, M. pneumoniae, parechovirus, PIV, rhinovirus, respiratory syncytial virus, S. pneumoniae, and ureaplasma), antibody titer scores of serum (Fa, Ga, Gb, RSV A, RSV B, nasal swab, and nasal wash), and read count.
    9. This subject phenotype table contains subject ID, age at time of visit, presence of symptoms (wheezing, rales, retraction, cyanosis, apnea, lethargy, and poor air movement), maximum respiratory rate, worst saturated oxygen score, length of stay, strain of RSV (Respiratory Syncytial Virus), derived RSV severity score, RSV severity label, and antibiotic use.
Name
Tipo
Description | Question | Decode (Coded Value)
Tipo de dados
Alias
Item Group
pht007560
C3846158 (UMLS CUI [1,1])
SAMPLE_ID
Item
De-identified Sample ID
string
C4684638 (UMLS CUI [1,1])
C1299222 (UMLS CUI [1,2])
BODY_SITE
Item
Body site where sample was collected
string
C0449705 (UMLS CUI [1,1])
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 (Y)
C0027651 (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])
Publication
Item
PMID's of publications this sample is used in, seperated by semi colons
string
C4288349 (UMLS CUI [1,1])
C0034036 (UMLS CUI [1,2])
C1524063 (UMLS CUI [1,3])
C0370003 (UMLS CUI [1,4])
Attribute
Item
Sample use if not indicated in 5a
string
C2347026 (UMLS CUI [1,1])
C1524063 (UMLS CUI [1,2])
SequenceNum
Item
Number mapping to corresponding visit
text
C0237753 (UMLS CUI [1,1])
C1283195 (UMLS CUI [1,2])
C0545082 (UMLS CUI [1,3])
SampleDaysSinceOnset
Item
Days since RSV onset at time of sample collection
integer
C0040223 (UMLS CUI [1,1])
C0574845 (UMLS CUI [1,2])
C0035235 (UMLS CUI [1,3])
C0011008 (UMLS CUI [1,4])
C0200345 (UMLS CUI [1,5])
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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Bocavirus within the sample
text
C3854307 (UMLS CUI [1,1])
C1641393 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Bordetella pertussis within the sample
text
C3854307 (UMLS CUI [1,1])
C0006017 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Coronavirus 1 within the sample
text
C3854307 (UMLS CUI [1,1])
C0206422 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Coronavirus 2 within the sample
text
C3854307 (UMLS CUI [1,1])
C5203676 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Coronavirus 3 within the sample
text
C3854307 (UMLS CUI [1,1])
C0206422 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Coronavirus 4 within the sample
text
C3854307 (UMLS CUI [1,1])
C0206422 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Chlamydophila pneumoniae within the sample
text
C3854307 (UMLS CUI [1,1])
C0085504 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Enterobacteriaceae within the sample
text
C3854307 (UMLS CUI [1,1])
C0014346 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Flu A within the sample
text
C3854307 (UMLS CUI [1,1])
C0029347 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Flu B within the sample
text
C3854307 (UMLS CUI [1,1])
C0029348 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Haemophilus influenzae within the sample
text
C3854307 (UMLS CUI [1,1])
C0018483 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Human metapneumovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C1258014 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Moraxella catarrhalis within the sample
text
C3854307 (UMLS CUI [1,1])
C0006132 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
M. cat
Code List
Presence of Moraxella catarrhalis within the sample
CL Item
no (0)
CL Item
yes (1)
M. cat classification
Item
Hardcoded to bacteria needed for analysis
string
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Mycoplasma hominis within the sample
text
C3854307 (UMLS CUI [1,1])
C0317838 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Mycoplasma pneumoniae within the sample
text
C3854307 (UMLS CUI [1,1])
C0026941 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of parechovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C0950102 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of PIV 1 within the sample
text
C3854307 (UMLS CUI [1,1])
C0600289 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of PIV 2 within the sample
text
C3854307 (UMLS CUI [1,1])
C0030391 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of PIV 3 within the sample
text
C3854307 (UMLS CUI [1,1])
C0030392 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Rhinovirus within the sample
text
C3854307 (UMLS CUI [1,1])
C0035473 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of RSV within the sample
text
C3854307 (UMLS CUI [1,1])
C0035236 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Streptococcus pneumoniae within the sample
text
C3854307 (UMLS CUI [1,1])
C0038410 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Item
Presence of Ureaplasma within the sample
text
C3854307 (UMLS CUI [1,1])
C0041944 (UMLS CUI [1,2])
C2347026 (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
C3846158 (UMLS CUI [1,1])
C1514873 (UMLS CUI [1,2])
C0936012 (UMLS CUI [1,3])
Fa Imputed Titer
Item
Fa serum antibody titer score
text
C3846158 (UMLS CUI [1,1])
C2229572 (UMLS CUI [1,2])
C0449820 (UMLS CUI [1,3])
Ga Imputed Titer
Item
Ga serum antibody titer score
text
C3846158 (UMLS CUI [1,1])
C2229572 (UMLS CUI [1,2])
C0449820 (UMLS CUI [1,3])
Gb Imputed Titer
Item
Gb serum antibody titer score
text
C3846158 (UMLS CUI [1,1])
C2229572 (UMLS CUI [1,2])
C0449820 (UMLS CUI [1,3])
RSV A Neut Antibody Titer
Item
RSV A serum antibody titer score
text
C0035236 (UMLS CUI [1,1])
C2229572 (UMLS CUI [1,2])
C0449820 (UMLS CUI [1,3])
RSV B Neut Antibody Titer
Item
RSV B serum antibody titer score
text
C0035236 (UMLS CUI [1,1])
C2229572 (UMLS CUI [1,2])
C0449820 (UMLS CUI [1,3])
Nasal Swab Titer
Item
Nasal swab antibody titer score
text
C3669207 (UMLS CUI [1,1])
C2229572 (UMLS CUI [1,2])
C0449820 (UMLS CUI [1,3])
Nasal Wash Titer
Item
Nasal wash antibody titer score
text
C0027423 (UMLS CUI [1,1])
C0441648 (UMLS CUI [1,2])
C2229572 (UMLS CUI [1,3])
ReadCount
Item
Number of reads within the sample
integer
C3846158 (UMLS CUI [1,1])
C2347026 (UMLS CUI [1,2])
RsvStatus
Item
RSV status at time of sample
string
C0035236 (UMLS CUI [1,1])
C0449438 (UMLS CUI [1,2])
C0011008 (UMLS CUI [1,3])
C0200345 (UMLS CUI [1,4])
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