Sample Set Annotation Tool: Diagnosis of childhood bacterial and viral infection using host RNA expression - Meningococcal validation cohort - GSE72829-GPL6883 - [Sepsis, Meningococcal sepsis (Meningococcal septicemia)]

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Genome-wide analysis of transcriptional profiles in children <17 years of age with bacterial or viral infections or with clinical features suggestive of infection. This series is also deposited as (GSE80496).

Hypothesis

Experimental Design

Patients were recruited at or after presentation to hospital. Blood was collected into PAX gene tubes (PreAnalytiX). Total RNA integrity was assessed using an Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA). Labeled cRNA was hybridized to Illumina Human Ref8 Beadchips. Numbers of arrays analysed were as follows: Meningococal disease (n=24), Healthy adult controls (n=21)

Experimental Variables

Sepsis (2021 ICD-10-CM code* = A41)

Meningococcal sepsis (2021 ICD-10-CM code* = A39.4)

Controls

Methods

The data were quantile normalised after background subtraction.

Additional Information

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE72829

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80496

Expected Samples:

45 Samples Loaded: 45

Species

Human (Homo sapiens)

Sample Source

Whole Blood

Disease

Sepsis and Meningococcal Sepsis

Treatment Protocol

Growth Protocol

Extraction Protocol

Standard PAXgene blood RNA extraction kit protocol (Qiagen)

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Gender	!Sample_title	disease state
GSM2128369	male	Healthy Control 01	healthy
GSM2128370	male	Healthy Control 02	healthy
GSM2128371	female	Healthy Control 03	healthy
GSM2128372	female	Healthy Control 04	healthy
GSM2128373	female	Healthy Control 05	healthy

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File

Samples Viewer / Editor

All fields are editable except the "Sample ID" column. To edit a cell, click within the cell. To edit a "date" cell, click on the calendar icon. To cancel an edit, press the ESC key.

Sample ID	Gender	!Sample Title	Disease state
GSM2128369	male	Healthy Control 01	healthy
GSM2128370	male	Healthy Control 02	healthy
GSM2128371	female	Healthy Control 03	healthy
GSM2128372	female	Healthy Control 04	healthy
GSM2128373	female	Healthy Control 05	healthy
GSM2128374	male	Healthy Control 06	healthy
GSM2128375	female	Healthy Control 07	healthy
GSM2128376	female	Healthy Control 08	healthy
GSM2128377	female	Healthy Control 09	healthy
GSM2128378	male	Healthy Control 10	healthy
GSM2128379	female	Healthy Control 11	healthy
GSM2128380	female	Healthy Control 12	healthy
GSM2128381	male	Healthy Control 13	healthy
GSM2128382	female	Healthy Control 14	healthy
GSM2128383	female	Healthy Control 15	healthy
GSM2128384	male	Healthy Control 16	healthy
GSM2128385	male	Healthy Control 17	healthy
GSM2128386	male	Healthy Control 18	healthy
GSM2128387	male	Healthy Control 19	healthy
GSM2128388	male	Healthy Control 20	healthy
GSM2128389	male	Healthy Control 21	healthy
GSM2128390	female	Meningitis Sepsis 01	sepsis and meningitis
GSM2128391	female	Meningitis Sepsis 02	sepsis and meningitis
GSM2128392	female	Meningitis Sepsis 03	sepsis and meningitis
GSM2128393	male	Sepsis 01	sepsis
GSM2128394	male	Sepsis 02	sepsis
GSM2128395	female	Sepsis 03	sepsis
GSM2128396	male	Sepsis 04	sepsis
GSM2128397	female	Sepsis 05	sepsis
GSM2128398	male	Sepsis 06	sepsis
GSM2128399	male	Sepsis 07	sepsis
GSM2128400	male	Sepsis 08	sepsis
GSM2128401	male	Sepsis 09	sepsis
GSM2128402	male	Sepsis 10	sepsis
GSM2128403	male	Sepsis 11	sepsis
GSM2128404	male	Sepsis 12	sepsis
GSM2128405	male	Sepsis 13	sepsis
GSM2128406	male	Sepsis 14	sepsis
GSM2128407	male	Sepsis 15	sepsis
GSM2128408	female	Sepsis 16	sepsis
GSM2128409	male	Sepsis 17	sepsis
GSM2128410	female	Sepsis 18	sepsis
GSM2128411	male	Sepsis 19	sepsis
GSM2128412	female	Sepsis 20	sepsis
GSM2128413	male	Sepsis 21	sepsis

Group Sets View in Gene Expression Browser

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Disease state	Default	View
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Module Analysis

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SIDRA