Sample Set Annotation Tool: Whole blood mRNA expression profiling of host molecular networks in neonatal sepsis

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

We aimed to identify the gene network and pathway biology associated with neonatal sepsis by determining genome-wide alterations in host RNA in infected infants

Hypothesis

Experimental Design

Samples were obtained from control and infected human neonates.

Experimental Variables

Controls

Methods

Additional Information

Expected Samples:

20 Samples Loaded: 20

Species

Human (Homo sapiens)

Sample Source

Whole Blood , Neonatal

Disease

Sepsis

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	!Sample Title	Gender	tissue	Bloodculture result	Corrected gestational age at sample (weeks+days)
GSM1404213	Con209	Male	peripheral blood	n/a	37+4
GSM1404214	Con213	Male	peripheral blood	n/a	30+5
GSM1404215	Con220	Male	peripheral blood	n/a	34+2
GSM1404216	Con260	Male	peripheral blood	n/a	29+3
GSM1404217	Con270	Male	peripheral blood	n/a	32+5

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File

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Sample ID	!Sample Title	Gender	Tissue	Bloodculture result	Corrected gestational age at sample (weeks+days)	On antibiotics at time of sample	Other positive results	Birthweight (g)	Group name
GSM1404213	Con209	Male	peripheral blood	n/a	37+4	No		1120	Control
GSM1404214	Con213	Male	peripheral blood	n/a	30+5	No		890	Control
GSM1404215	Con220	Male	peripheral blood	n/a	34+2	No		1515	Control
GSM1404216	Con260	Male	peripheral blood	n/a	29+3	No		820	Control
GSM1404217	Con270	Male	peripheral blood	n/a	32+5	No		1875	Control
GSM1404218	Con293	Male	peripheral blood	n/a	29+3	No		855	Control
GSM1404219	Inf216	Female	peripheral blood	Enterococcus	34+3	Yes		810	Infected
GSM1404220	Inf226	Male	peripheral blood	Enterococcus & Staph. warneri	33+1	No	BC next day grew Staphylococcus warneri	1385	Infected
GSM1404221	Inf239	Male	peripheral blood	Pseudomonas aeruginosa & Coagulase -ve Staph. aureus	27+5	No	Next day, peritoneal swab enterococcus, pseudomonas aeruginosa and klebsiella oxytoca	680	Infected
GSM1404222	Inf262	Female	peripheral blood	Group B Strep.	39+6	No		690	Infected
GSM1404223	Inf271	Male	peripheral blood	Staph. epidermidis	35+6	Yes	grew yeasts 2 days later	1040	Infected
GSM1404224	Inf275	Male	peripheral blood	Coagulase -ve Staph. aureus	39+0	Yes		1255	Infected
GSM1404225	Inf287	Female	peripheral blood	E. coli	34+6	Yes		880	Infected
GSM1404226	Inf297	Male	peripheral blood	Serratia marcescens	35+4	No		1490	Infected
GSM1404227	Inf299	Male	peripheral blood	Serratia marcescens	36+2	Yes		1490	Infected
GSM1404228	NEC253	Female	peripheral blood	n/a	36+2	Yes	Coagulase -ve Staph. aureus previous day	1390	Necrotising colitis
GSM1404229	NEC283	Male	peripheral blood	n/a	31+5	Yes	Enterobacter cloacae, 6 days previously	1490	Necrotising colitis
GSM1404230	Vir228	Male	peripheral blood	n/a	34+3	No	Rhinovirus PCR +ve	1920	Virus infected
GSM1404231	Vir269	Male	peripheral blood	CMV	35+5	No		1290	Virus infected
GSM1404232	Vir278	Male	peripheral blood	n/a	32+2	No	Rhinovirus PCR +ve	855	Virus infected

Group Sets View in Gene Expression Browser

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Module Analysis

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SIDRA