Sample Set Annotation Tool: Transcriptional profiles of pediatric SLE neutrophils and Healthy neutrophils cultured with SLE sera or Interferon-GSE27427

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Mature neutrophis were freshly isolated from blood of pediatric systemic lupus erythematosus (SLE) patients and healthy donors. Illumina microarray was used to assess transcriptional changes between SLE group and Control group. To uderstand further the gene expression difference between SLE and healthy neutrofils, neutrophils from healthy donors were cultured with autologous sera, SLE sera or Interferon and microarray data was used to compare with fresh SLE neutrophils.

Hypothesis

Experimental Design

(Expt 1) Neutrophils from 21 SLE samples (19 patients) and 12 healthy donors were isolated, and extracted RNAs were used generate microarray data.(Expt 2) Neutrophils isolated from 2 healthy children (not used in the first experiment) were cultured with autologous sera (control), Interferon alpha (100U and 1000U), and 4 SLE sera and 6 SLE sera for 6 hours and RNAs were extract for microarray experiment.

Experimental Variables

Controls

Methods

Additional Information

Garcia-Romo GS, Caielli S, Vega B, Connolly J et al. Netting neutrophils are major inducers of type I IFN production in pediatric systemic lupus erythematosus. Sci Transl Med 2011 Mar 9;3(73):73ra20. PMID: 21389264

Expected Samples:

47 Samples Loaded: 47

Species

Human (Homo sapiens)

Sample Source

Neutrophils

Disease

Systemic Lupus Erythematosus

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Age	Gender	!Sample_title	cell type	race
GSM678067	16	F	SLE-214_Fresh_Neutro	Neutrophil	Hispanic
GSM678068	12	F	SLE-215_Fresh_Neutro	Neutrophil	Hispanic
GSM678069	12	M	SLE-216_Fresh_Neutro	Neutrophil	Caucasian
GSM678070	8	M	H229_Fresh_Neutro	Neutrophil	Caucasian
GSM678071	9	M	H158_Fresh_Neutro	Neutrophil	Caucasian

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File
sampleset4000039_sampleannotations (1).csv Sample Set Spreadsheet

Samples Viewer / Editor

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Sample ID	Age	Gender	!Sample Title	Cell type	Race	Treatment	Disease state	Culture condition
GSM678067	16	F	SLE-214_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678068	12	F	SLE-215_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678069	12	M	SLE-216_Fresh_Neutro	Neutrophil	Caucasian	None	SLE	SLE_PMN
GSM678070	8	M	H229_Fresh_Neutro	Neutrophil	Caucasian	None	control	HD_PMN
GSM678071	9	M	H158_Fresh_Neutro	Neutrophil	Caucasian	None	control	HD_PMN
GSM678072	20	F	H186_Fresh_Neutro	Neutrophil	African American	None	control	HD_PMN
GSM678073	20	M	H187_Fresh_Neutro	Neutrophil	African American	None	control	HD_PMN
GSM678074	13	F	H92_Fresh_Neutro	Neutrophil	Caucasian	None	control	HD_PMN
GSM678075	17	F	H188_Fresh_Neutro	Neutrophil	Hispanic	None	control	HD_PMN
GSM678076	14	F	H189_Fresh_Neutro	Neutrophil	Caucasian	None	control	HD_PMN
GSM678077	13	M	H234_Fresh_Neutro	Neutrophil	Hispanic	None	control	HD_PMN
GSM678078	17	F	H235_Fresh_Neutro	Neutrophil	Hispanic	None	control	HD_PMN
GSM678079	9	F	H34_Neutro + Autologous_serum	Neutrophil	Hispanic	Autologous serum	control	HDPMN_Serum
GSM678080	9	F	H34_Neutro + SLE-60_serum	Neutrophil	Hispanic	SLE Patient serum	control	HD_PMN+SLEserum
GSM678081	9	F	H34_Neutro + SLE-80_serum	Neutrophil	Hispanic	SLE Patient serum	control	HD_PMN+SLEserum
GSM678082	9	F	H34_Neutro + SLE-150_serum	Neutrophil	Hispanic	SLE Patient serum	control	HD_PMN+SLEserum
GSM678083	9	F	H34_Neutro + SLE-214_serum	Neutrophil	Hispanic	SLE Patient serum	control	HD_PMN+SLEserum
GSM678084	16	F	H19_Neutro + Autologous_serum	Neutrophil	Caucasian	Autologous serum	control	HDPMN_Serum
GSM678085	16	F	H19_Neutro + SLE-80_serum	Neutrophil	Caucasian	SLE Patient serum	control	HD_PMN+SLEserum
GSM678086	16	F	H19_Neutro + SLE-121_serum	Neutrophil	Caucasian	SLE Patient serum	control	HD_PMN+SLEserum
GSM678087	16	F	H19_Neutro + SLE-205_serum	Neutrophil	Caucasian	SLE Patient serum	control	HD_PMN+SLEserum
GSM678088	16	F	H19_Neutro + SLE-226_serum	Neutrophil	Caucasian	SLE Patient serum	control	HD_PMN+SLEserum
GSM678089	16	F	H19_Neutro + SLE-243_serum	Neutrophil	Caucasian	SLE Patient serum	control	HD_PMN+SLEserum
GSM678090	16	F	H19_Neutro + SLE-249_serum	Neutrophil	Caucasian	SLE Patient serum	control	HD_PMN+SLEserum
GSM678091	16	F	H19_Neutro + IFNa_100U	Neutrophil	Caucasian	Interferon alpha	control	HDPMN_IFNa100
GSM678092	16	F	H19_Neutro + IFNa_1000U	Neutrophil	Caucasian	Interferon alpha	control	HDPMN_IFNa1000
GSM678093	18	F	H190_Fresh_Neutro	Neutrophil	Caucasian	None	control	HD_PMN
GSM678094	4	M	H195_Fresh_Neutro	Neutrophil	Hispanic	None	control	HD_PMN
GSM678095	16	F	SLE-150_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678096	12	F	SLE-201A_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678097	15	M	SLE-203_Fresh_Neutro	Neutrophil	Caucasian	None	SLE	SLE_PMN
GSM678098	16	F	SLE-80_Fresh_Neutro	Neutrophil	African American	None	SLE	SLE_PMN
GSM678099	14	F	SLE-205_Fresh_Neutro	Neutrophil	Caucasian	None	SLE	SLE_PMN
GSM678100	13	F	SLE-206_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678101	12	F	SLE-201B_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678102	15	F	SLE-169_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678103	17	F	SLE-170_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678104	15	F	SLE-176_Fresh_Neutro	Neutrophil	Caucasian	None	SLE	SLE_PMN
GSM678105	16	F	SLE-65_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678106	11	F	SLE-202_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678107	12	F	SLE-201C_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678108	15	F	SLE-79_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678109	17	F	SLE-55_Fresh_Neutro	Neutrophil	African American	None	SLE	SLE_PMN
GSM678110	18	F	SLE-114_Fresh_Neutro	Neutrophil	African American	None	SLE	SLE_PMN
GSM678111	4	F	H204_Fresh_Neutro	Neutrophil	Caucasian	None	control	HD_PMN
GSM678112	18	F	SLE-158_Fresh_Neutro	Neutrophil	Hispanic	None	SLE	SLE_PMN
GSM678113	17	F	SLE-193_Fresh_Neutro	Neutrophil	African American	None	SLE	SLE_PMN

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