ID

45699

Descrizione

Principal Investigator: Ann Falsey, MD, University of Rochester, Rochester, NY, USA MeSH: Respiratory Tract Infections https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001248 Accurate tests for microbiologic diagnosis of lower respiratory tract infections (LRTI) are needed. Gene expression profiling of whole blood represents a powerful new approach for analysis of the host response during respiratory infection that can be used to supplement pathogen detection testing. Using qPCR, we prospectively validated the differential expression of 10 genes previously shown to discriminate bacterial and non-bacterial LRTI confirming the utility of this approach. In addition, a novel approach using RNAseq analysis identified 141 genes differentially expressed in LRTI subjects with bacterial infection. Using "pathway-informed" dimension reduction, we identified a novel 11 gene set (selected from lymphocyte, α-linoleic acid metabolism, and IGF regulation pathways) and demonstrated a predictive accuracy for bacterial LRTI (nested CV-AUC=0.87). RNAseq represents a new and an unbiased tool to evaluate host gene expression for the diagnosis of LRTI.

collegamento

dbGaP study = phs001248

Keywords

versioni (1)
  1. 12/05/23 12/05/23 - Simon Heim
Titolare del copyright

Ann Falsey, MD, University of Rochester, Rochester, NY, USA

Caricato su

12 maggio 2023

DOI

Per favore, per richiedere un accesso.

Licenza

Creative Commons BY 4.0
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dbGaP phs001248 Gene Array to Predict Bacterial Infection with in Respiratory Illness

Inglese

Eligibility Criteria

5 moduli  
Inclusion and exclusion criteria
Descrizione

Inclusion and exclusion criteria

Alias
UMLS CUI [1,1]
C1512693
UMLS CUI [1,2]
C0680251
*Inclusion Criteria:*
Descrizione

*Inclusion Criteria:*

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C1512693
Adults over 21 years of age.
Descrizione

Adults over 21 years of age.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0001779
Hospitalized with symptoms or admission diagnoses compatible with a respiratory infection (diagnoses of AECOPD, bronchitis, asthma, upper respiratory infection, influenza, viral syndrome, respiratory failure and congestive heart failure with infection, pneumonia and/or symptoms of wheezing, dyspnea, cough, sputum production, nasal congestion, sore throat, hoarseness).
Descrizione

Hospitalized with symptoms or admission diagnoses compatible with a respiratory infection (diagnoses of AECOPD, bronchitis, asthma, upper respiratory infection, influenza, viral syndrome, respiratory failure and congestive heart failure with infection, pneumonia and/or symptoms of wheezing, dyspnea, cough, sputum production, nasal congestion, sore throat, hoarseness).

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0019993
UMLS CUI [1,2]
C1628992
UMLS CUI [1,3]
C0035243
UMLS CUI [1,4]
C0024117
UMLS CUI [1,5]
C0006277
UMLS CUI [1,6]
C0004096
UMLS CUI [1,7]
C0041912
UMLS CUI [1,8]
C0021400
UMLS CUI [1,9]
C0042740
UMLS CUI [1,10]
C0018802
UMLS CUI [1,11]
C1145670
UMLS CUI [1,12]
C0032285
UMLS CUI [1,13]
C0043144
UMLS CUI [1,14]
C0013404
UMLS CUI [1,15]
C0010200
UMLS CUI [1,16]
C0242104
UMLS CUI [1,17]
C0027424
UMLS CUI [1,18]
C0242429
UMLS CUI [1,19]
C0019825
Subject or authorized representative will provide informed consent prior to any study procedure.
Descrizione

Subject or authorized representative will provide informed consent prior to any study procedure.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0021430
*Exclusion Criteria:*
Descrizione

*Exclusion Criteria:*

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0680251
Undergoing immunosuppression as a result of an underlying illness or treatment.
Descrizione

Undergoing immunosuppression as a result of an underlying illness or treatment.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C4048329
UMLS CUI [1,2]
C0008679
UMLS CUI [1,3]
C0087111
Using oral or parenteral steroids for greater than 2 weeks prior to admission or other immunosuppressive or cytotoxic drugs.
Descrizione

Using oral or parenteral steroids for greater than 2 weeks prior to admission or other immunosuppressive or cytotoxic drugs.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0038317
UMLS CUI [1,2]
C0442027
UMLS CUI [1,3]
C4522267
UMLS CUI [1,4]
C1948053
UMLS CUI [1,5]
C0021079
UMLS CUI [1,6]
C0304497
Antibiotic use within 5 days of admission to the hospital.
Descrizione

Antibiotic use within 5 days of admission to the hospital.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0003232
UMLS CUI [1,2]
C1948053
UMLS CUI [1,3]
C0184666
History of receiving immunoglobulin or other blood products within 1 week prior to enrollment in this study.
Descrizione

History of receiving immunoglobulin or other blood products within 1 week prior to enrollment in this study.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0262926
UMLS CUI [1,2]
C0021027
UMLS CUI [1,3]
C0486441
UMLS CUI [1,4]
C0332152
UMLS CUI [1,5]
C4283762
Ongoing active infection at another site in addition to respiratory illness.
Descrizione

Ongoing active infection at another site in addition to respiratory illness.

Tipo di dati

boolean

Alias
UMLS CUI [1,1]
C0205177
UMLS CUI [1,2]
C3714514
UMLS CUI [1,3]
C1515974
UMLS CUI [1,4]
C0332287
UMLS CUI [1,5]
C0035204
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Similar models

Eligibility Criteria

5 moduli
Name
genere
Description | Question | Decode (Coded Value)
Tipo di dati
Alias
Item Group
Inclusion and exclusion criteria
C1512693 (UMLS CUI [1,1])
C0680251 (UMLS CUI [1,2])
*Inclusion Criteria:*
Item
*Inclusion Criteria:*
boolean
C1512693 (UMLS CUI [1,1])
Adults over 21 years of age.
Item
Adults over 21 years of age.
boolean
C0001779 (UMLS CUI [1,1])
Hospitalized with symptoms or admission diagnoses compatible with a respiratory infection (diagnoses of AECOPD, bronchitis, asthma, upper respiratory infection, influenza, viral syndrome, respiratory failure and congestive heart failure with infection, pneumonia and/or symptoms of wheezing, dyspnea, cough, sputum production, nasal congestion, sore throat, hoarseness).
Item
Hospitalized with symptoms or admission diagnoses compatible with a respiratory infection (diagnoses of AECOPD, bronchitis, asthma, upper respiratory infection, influenza, viral syndrome, respiratory failure and congestive heart failure with infection, pneumonia and/or symptoms of wheezing, dyspnea, cough, sputum production, nasal congestion, sore throat, hoarseness).
boolean
C0019993 (UMLS CUI [1,1])
C1628992 (UMLS CUI [1,2])
C0035243 (UMLS CUI [1,3])
C0024117 (UMLS CUI [1,4])
C0006277 (UMLS CUI [1,5])
C0004096 (UMLS CUI [1,6])
C0041912 (UMLS CUI [1,7])
C0021400 (UMLS CUI [1,8])
C0042740 (UMLS CUI [1,9])
C0018802 (UMLS CUI [1,10])
C1145670 (UMLS CUI [1,11])
C0032285 (UMLS CUI [1,12])
C0043144 (UMLS CUI [1,13])
C0013404 (UMLS CUI [1,14])
C0010200 (UMLS CUI [1,15])
C0242104 (UMLS CUI [1,16])
C0027424 (UMLS CUI [1,17])
C0242429 (UMLS CUI [1,18])
C0019825 (UMLS CUI [1,19])
Subject or authorized representative will provide informed consent prior to any study procedure.
Item
Subject or authorized representative will provide informed consent prior to any study procedure.
boolean
C0021430 (UMLS CUI [1,1])
*Exclusion Criteria:*
Item
*Exclusion Criteria:*
boolean
C0680251 (UMLS CUI [1,1])
Undergoing immunosuppression as a result of an underlying illness or treatment.
Item
Undergoing immunosuppression as a result of an underlying illness or treatment.
boolean
C4048329 (UMLS CUI [1,1])
C0008679 (UMLS CUI [1,2])
C0087111 (UMLS CUI [1,3])
Using oral or parenteral steroids for greater than 2 weeks prior to admission or other immunosuppressive or cytotoxic drugs.
Item
Using oral or parenteral steroids for greater than 2 weeks prior to admission or other immunosuppressive or cytotoxic drugs.
boolean
C0038317 (UMLS CUI [1,1])
C0442027 (UMLS CUI [1,2])
C4522267 (UMLS CUI [1,3])
C1948053 (UMLS CUI [1,4])
C0021079 (UMLS CUI [1,5])
C0304497 (UMLS CUI [1,6])
Antibiotic use within 5 days of admission to the hospital.
Item
Antibiotic use within 5 days of admission to the hospital.
boolean
C0003232 (UMLS CUI [1,1])
C1948053 (UMLS CUI [1,2])
C0184666 (UMLS CUI [1,3])
History of receiving immunoglobulin or other blood products within 1 week prior to enrollment in this study.
Item
History of receiving immunoglobulin or other blood products within 1 week prior to enrollment in this study.
boolean
C0262926 (UMLS CUI [1,1])
C0021027 (UMLS CUI [1,2])
C0486441 (UMLS CUI [1,3])
C0332152 (UMLS CUI [1,4])
C4283762 (UMLS CUI [1,5])
Ongoing active infection at another site in addition to respiratory illness.
Item
Ongoing active infection at another site in addition to respiratory illness.
boolean
C0205177 (UMLS CUI [1,1])
C3714514 (UMLS CUI [1,2])
C1515974 (UMLS CUI [1,3])
C0332287 (UMLS CUI [1,4])
C0035204 (UMLS CUI [1,5])
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