Sample Set Annotation Tool: Integrated genomic and prospective clinical studies show the importance of modular pleiotropy for disease susceptibility, diagnosis and treatment (dataset 1)

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Hypothesis

Experimental Design

Peripheral blood mononuclear cells (PBMCs) were collected from 8 high responders (HR) and 8 low responders (LR) to GC treatment. PBMCs were challenged with diluent, grass pollen extract (ALK-Abelló A/S; 100 ?g/mL) as well as grass pollen extract plus glucocorticoids (100ug/mL) for one week.

Experimental Variables

diluent, grass pollen extract (ALK-Abelló A/S; 100 ?g/mL) as well as grass pollen extract plus glucocorticoids (100ug/mL)

Controls

8 low responders

Methods

Additional Information

Expected Samples:

48 Samples Loaded: 48

Species

Human (Homo sapiens)

Sample Source

T cells (CD4+) , PBMC

Disease

Rhinitis

Treatment Protocol

PBMCs were collected from 8 high responders (HR) and 8 low responders (LR) to GC treatment and were challenged with diluent, grass pollen extract (ALK-Abelló A/S; 100 ?g/mL) as well as grass pollen extract plus glucocorticoids (100ug/mL) for one week.

Growth Protocol

Extraction Protocol

Total CD4+ T cells were enriched by MACS negative sorting. Total RNA was extracted using a miRNeasy Mini Kit (Qiagen, Valencia, CA, USA).

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	tissue	group	Cell type	treatment	patient
GSM1094383	whole blood	high_diluent	CD4+ T cells	diluent	9
GSM1094384	whole blood	low_allergen	CD4+ T cells	allergen	10
GSM1094385	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	11
GSM1094386	whole blood	high_allergen	CD4+ T cells	allergen	13
GSM1094387	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	12

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File
GSE44956_v1.csv Sample Set Spreadsheet
GSE44956_v1.csv Sample Set Spreadsheet

Samples Viewer / Editor

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Sample ID	Tissue	Group	Cell type	Treatment	Patient	Sample Title	Disease Status	Gc responder type
GSM1094383	whole blood	high_diluent	CD4+ T cells	diluent	9	HR_P9_D	seasonal allergic rhinitis (SAR)	high
GSM1094384	whole blood	low_allergen	CD4+ T cells	allergen	10	LR_P10_A	seasonal allergic rhinitis (SAR)	low
GSM1094385	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	11	HR_P11_T	seasonal allergic rhinitis (SAR)	high
GSM1094386	whole blood	high_allergen	CD4+ T cells	allergen	13	HR_P13_A	seasonal allergic rhinitis (SAR)	high
GSM1094387	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	12	HR_P12_T	seasonal allergic rhinitis (SAR)	high
GSM1094388	whole blood	low_diluent	CD4+ T cells	diluent	14	LR_P14_D	seasonal allergic rhinitis (SAR)	low
GSM1094389	whole blood	high_allergen	CD4+ T cells	allergen	16	HR_P16_A	seasonal allergic rhinitis (SAR)	high
GSM1094390	whole blood	high_diluent	CD4+ T cells	diluent	15	HR_P15_D	seasonal allergic rhinitis (SAR)	high
GSM1094391	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	10	LR_P10_T	seasonal allergic rhinitis (SAR)	low
GSM1094392	whole blood	high_diluent	CD4+ T cells	diluent	11	HR_P11_D	seasonal allergic rhinitis (SAR)	high
GSM1094393	whole blood	high_allergen	CD4+ T cells	allergen	12	HR_P12_A	seasonal allergic rhinitis (SAR)	high
GSM1094394	whole blood	high_diluent	CD4+ T cells	diluent	13	HR_P13_D	seasonal allergic rhinitis (SAR)	high
GSM1094395	whole blood	high_allergen	CD4+ T cells	allergen	15	HR_P15_A	seasonal allergic rhinitis (SAR)	high
GSM1094396	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	14	LR_P14_T	seasonal allergic rhinitis (SAR)	low
GSM1094397	whole blood	high_diluent	CD4+ T cells	diluent	16	HR_P16_D	seasonal allergic rhinitis (SAR)	high
GSM1094398	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	9	HR_P9_T	seasonal allergic rhinitis (SAR)	high
GSM1094399	whole blood	high_allergen	CD4+ T cells	allergen	9	HR_P9_A	seasonal allergic rhinitis (SAR)	high
GSM1094400	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	16	HR_P16_T	seasonal allergic rhinitis (SAR)	high
GSM1094401	whole blood	low_diluent	CD4+ T cells	diluent	10	LR_P10_D	seasonal allergic rhinitis (SAR)	low
GSM1094402	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	13	HR_P13_T	seasonal allergic rhinitis (SAR)	high
GSM1094403	whole blood	high_diluent	CD4+ T cells	diluent	12	HR_P12_D	seasonal allergic rhinitis (SAR)	high
GSM1094404	whole blood	low_allergen	CD4+ T cells	allergen	14	LR_P14_A	seasonal allergic rhinitis (SAR)	low
GSM1094405	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	15	HR_P15_T	seasonal allergic rhinitis (SAR)	high
GSM1094406	whole blood	high_allergen	CD4+ T cells	allergen	11	HR_P11_A	seasonal allergic rhinitis (SAR)	high
GSM1094407	whole blood	low_allergen	CD4+ T cells	allergen	1	LR_P1_A	seasonal allergic rhinitis (SAR)	low
GSM1094408	whole blood	low_diluent	CD4+ T cells	diluent	2	LR_P2_D	seasonal allergic rhinitis (SAR)	low
GSM1094409	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	3	LR_P3_T	seasonal allergic rhinitis (SAR)	low
GSM1094410	whole blood	low_diluent	CD4+ T cells	diluent	4	LR_P4_D	seasonal allergic rhinitis (SAR)	low
GSM1094411	whole blood	low_diluent	CD4+ T cells	diluent	1	LR_P1_D	seasonal allergic rhinitis (SAR)	low
GSM1094412	whole blood	low_allergen	CD4+ T cells	allergen	2	LR_P2_A	seasonal allergic rhinitis (SAR)	low
GSM1094413	whole blood	low_diluent	CD4+ T cells	diluent	3	LR_P3_D	seasonal allergic rhinitis (SAR)	low
GSM1094414	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	4	LR_P4_T	seasonal allergic rhinitis (SAR)	low
GSM1094415	whole blood	high_diluent	CD4+ T cells	diluent	5	HR_P5_D	seasonal allergic rhinitis (SAR)	high
GSM1094416	whole blood	high_allergen	CD4+ T cells	allergen	6	HR_P6_A	seasonal allergic rhinitis (SAR)	high
GSM1094417	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	5	HR_P5_T	seasonal allergic rhinitis (SAR)	high
GSM1094418	whole blood	low_allergen	CD4+ T cells	allergen	8	LR_P8_A	seasonal allergic rhinitis (SAR)	low
GSM1094419	whole blood	high_allergen	CD4+ T cells	allergen	5	HR_P5_A	seasonal allergic rhinitis (SAR)	high
GSM1094420	whole blood	high_diluent	CD4+ T cells	diluent	6	HR_P6_D	seasonal allergic rhinitis (SAR)	high
GSM1094421	whole blood	low_allergen	CD4+ T cells	allergen	7	LR_P7_A	seasonal allergic rhinitis (SAR)	low
GSM1094422	whole blood	high_allergen_GCR	CD4+ T cells	allergen_GCR	6	HR_P6_T	seasonal allergic rhinitis (SAR)	high
GSM1094423	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	1	LR_P1_T	seasonal allergic rhinitis (SAR)	low
GSM1094424	whole blood	low_diluent	CD4+ T cells	diluent	8	LR_P8_D	seasonal allergic rhinitis (SAR)	low
GSM1094425	whole blood	low_allergen	CD4+ T cells	allergen	3	LR_P3_A	seasonal allergic rhinitis (SAR)	low
GSM1094426	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	8	LR_P8_T	seasonal allergic rhinitis (SAR)	low
GSM1094427	whole blood	low_diluent	CD4+ T cells	diluent	7	LR_P7_D	seasonal allergic rhinitis (SAR)	low
GSM1094428	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	2	LR_P2_T	seasonal allergic rhinitis (SAR)	low
GSM1094429	whole blood	low_allergen_GCR	CD4+ T cells	allergen_GCR	7	LR_P7_T	seasonal allergic rhinitis (SAR)	low
GSM1094430	whole blood	low_allergen	CD4+ T cells	allergen	4	LR_P4_A	seasonal allergic rhinitis (SAR)	low

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Module Analysis

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SIDRA