Sample Set Annotation Tool: Changes in the transcriptome of circulating neutrophils and skeletal muscle in response to endurance exercise-GSE43856

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Analysis of the changes in the transcriptome of circulating neutrophils and skeletal muscle from standardized resting conditions (baseline; pre-EXTRI) to 3, 48 and 96 hours after an experimental exercise trial (EXTRI; 1 hour of cycling followed by 1 hours of running) in 8 healthy, endurance-trained, male subjects. It was hypothesized that the time-course dependent transcriptomic changes would reflect the molecular and signalling mechanisms by which neutrophils regulate and counter-regulate inflammation, and by which skeletal muscle responds, regenerates, and phenotypically adapts to intense, prolonged exercise involving muscle damage. Results provide an important insight in the signalling pathways underlying the transcriptional activation and priming of circulatory neutrophils in response to physiological stress, in particular muscle-derived damage-associated molecular patterns. Furthermore, the study provides novel data on the skeletal muscle transcriptome beyond 48 hours after strenuous endurance exercise, and indicates important muscular remodelling processes at 96 hours post-EXTRI.

Hypothesis

Experimental Design

Blood and muscle samples were taken under standardized conditions at baseline (pre-EXTRI), and 3, 48 and 96 hours post-EXTRI. Total mRNA was extracted from isolated neutrophils, and from skeletal muscle tissue.

Experimental Variables

Controls

Methods

Additional Information

Neubauer O, Sabapathy S, Lazarus R, Jowett JB et al. Transcriptome analysis of neutrophils after endurance exercise reveals novel signaling mechanisms in the immune response to physiological stress. J Appl Physiol (1985) 2013 Jun 15;114(12):1677-88. PMID: 23580600

Expected Samples:

64 Samples Loaded: 64

Species

Human (Homo sapiens)

Sample Source

Neutrophils

Disease

Healthy

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	!Sample_title	tissue	time	subject	subject id
GSM1071906	11PMN0	blood PMN	0	healthy, endurance-trained individual	1
GSM1071907	11SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	1
GSM1071908	12PMN1	blood PMN	3	healthy, endurance-trained individual	1
GSM1071909	12SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	1
GSM1071910	13PMN2	blood PMN	48	healthy, endurance-trained individual	1

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File
sampleset4000042_sampleannotations.csv Sample Set Spreadsheet

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Sample ID	!Sample Title	Tissue	Time	Subject	Subject id	Time point	Subject gender	Conditions
GSM1071906	11PMN0	blood PMN	0	healthy, endurance-trained individual	1	0; baseline pre-EXTRI	male	PMNT0
GSM1071907	11SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	1	0; baseline pre-EXTRI	male	SMUT0
GSM1071908	12PMN1	blood PMN	3	healthy, endurance-trained individual	1	1; 3 hr post-EXTRI	male	PMNT3
GSM1071909	12SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	1	1; 3 hr post-EXTRI	male	SMUT3
GSM1071910	13PMN2	blood PMN	48	healthy, endurance-trained individual	1	2; 48 hr post-EXTRI	male	PMNT48
GSM1071911	13SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	1	2; 48 hr post-EXTRI	male	SMU48
GSM1071912	14PMN3	blood PMN	96	healthy, endurance-trained individual	1	3; 96 hr post-EXTRI	male	PMNT96
GSM1071913	14SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	1	3; 96 hr post-EXTRI	male	SMUT96
GSM1071914	21PMN0	blood PMN	0	healthy, endurance-trained individual	2	0; baseline pre-EXTRI	male	PMNT0
GSM1071915	21SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	2	0; baseline pre-EXTRI	male	SMUT0
GSM1071916	22PMN1	blood PMN	3	healthy, endurance-trained individual	2	1; 3 hr post-EXTRI	male	PMNT3
GSM1071917	22SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	2	1; 3 hr post-EXTRI	male	SMUT3
GSM1071918	23PMN2	blood PMN	48	healthy, endurance-trained individual	2	2; 48 hr post-EXTRI	male	PMNT48
GSM1071919	23SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	2	2; 48 hr post-EXTRI	male	SMU48
GSM1071920	24PMN3	blood PMN	96	healthy, endurance-trained individual	2	3; 96 hr post-EXTRI	male	PMNT96
GSM1071921	24SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	2	3; 96 hr post-EXTRI	male	SMUT96
GSM1071922	31PMN0	blood PMN	0	healthy, endurance-trained individual	3	0; baseline pre-EXTRI	male	PMNT0
GSM1071923	31SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	3	0; baseline pre-EXTRI	male	SMUT0
GSM1071924	32PMN1	blood PMN	3	healthy, endurance-trained individual	3	1; 3 hr post-EXTRI	male	PMNT3
GSM1071925	32SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	3	1; 3 hr post-EXTRI	male	SMUT3
GSM1071926	33PMN2	blood PMN	48	healthy, endurance-trained individual	3	2; 48 hr post-EXTRI	male	PMNT48
GSM1071927	33SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	3	2; 48 hr post-EXTRI	male	SMU48
GSM1071928	34PMN3	blood PMN	96	healthy, endurance-trained individual	3	3; 96 hr post-EXTRI	male	PMNT96
GSM1071929	34SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	3	3; 96 hr post-EXTRI	male	SMUT96
GSM1071930	41PMN0	blood PMN	0	healthy, endurance-trained individual	4	0; baseline pre-EXTRI	male	PMNT0
GSM1071931	41SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	4	0; baseline pre-EXTRI	male	SMUT0
GSM1071932	42PMN1	blood PMN	3	healthy, endurance-trained individual	4	1; 3 hr post-EXTRI	male	PMNT3
GSM1071933	42SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	4	1; 3 hr post-EXTRI	male	SMUT3
GSM1071934	43PMN2	blood PMN	48	healthy, endurance-trained individual	4	2; 48 hr post-EXTRI	male	PMNT48
GSM1071935	43SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	4	2; 48 hr post-EXTRI	male	SMU48
GSM1071936	44PMN3	blood PMN	96	healthy, endurance-trained individual	4	3; 96 hr post-EXTRI	male	PMNT96
GSM1071937	44SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	4	3; 96 hr post-EXTRI	male	SMUT96
GSM1071938	51PMN0	blood PMN	0	healthy, endurance-trained individual	5	0; baseline pre-EXTRI	male	PMNT0
GSM1071939	51SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	5	0; baseline pre-EXTRI	male	SMUT0
GSM1071940	52PMN1	blood PMN	3	healthy, endurance-trained individual	5	1; 3 hr post-EXTRI	male	PMNT3
GSM1071941	52SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	5	1; 3 hr post-EXTRI	male	SMUT3
GSM1071942	53PMN2	blood PMN	48	healthy, endurance-trained individual	5	2; 48 hr post-EXTRI	male	PMNT48
GSM1071943	53SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	5	2; 48 hr post-EXTRI	male	SMU48
GSM1071944	54PMN3	blood PMN	96	healthy, endurance-trained individual	5	3; 96 hr post-EXTRI	male	PMNT96
GSM1071945	54SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	5	3; 96 hr post-EXTRI	male	SMUT96
GSM1071946	61PMN0	blood PMN	0	healthy, endurance-trained individual	6	0; baseline pre-EXTRI	male	PMNT0
GSM1071947	61SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	6	0; baseline pre-EXTRI	male	SMUT0
GSM1071948	62PMN1	blood PMN	3	healthy, endurance-trained individual	6	1; 3 hr post-EXTRI	male	PMNT3
GSM1071949	62SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	6	1; 3 hr post-EXTRI	male	SMUT3
GSM1071950	63PMN2	blood PMN	48	healthy, endurance-trained individual	6	2; 48 hr post-EXTRI	male	PMNT48
GSM1071951	63SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	6	2; 48 hr post-EXTRI	male	SMU48
GSM1071952	64PMN3	blood PMN	96	healthy, endurance-trained individual	6	3; 96 hr post-EXTRI	male	PMNT96
GSM1071953	64SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	6	3; 96 hr post-EXTRI	male	SMUT96
GSM1071954	71PMN0	blood PMN	0	healthy, endurance-trained individual	7	0; baseline pre-EXTRI	male	PMNT0
GSM1071955	71SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	7	0; baseline pre-EXTRI	male	SMUT0
GSM1071956	72PMN1	blood PMN	3	healthy, endurance-trained individual	7	1; 3 hr post-EXTRI	male	PMNT3
GSM1071957	72SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	7	1; 3 hr post-EXTRI	male	SMUT3
GSM1071958	73PMN2	blood PMN	48	healthy, endurance-trained individual	7	2; 48 hr post-EXTRI	male	PMNT48
GSM1071959	73SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	7	2; 48 hr post-EXTRI	male	SMU48
GSM1071960	74PMN3	blood PMN	96	healthy, endurance-trained individual	7	3; 96 hr post-EXTRI	male	PMNT96
GSM1071961	74SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	7	3; 96 hr post-EXTRI	male	SMUT96
GSM1071962	81PMN0	blood PMN	0	healthy, endurance-trained individual	8	0; baseline pre-EXTRI	male	PMNT0
GSM1071963	81SMU0	skeletal muscle (SMU)	0	healthy, endurance-trained individual	8	0; baseline pre-EXTRI	male	SMUT0
GSM1071964	82PMN1	blood PMN	3	healthy, endurance-trained individual	8	1; 3 hr post-EXTRI	male	PMNT3
GSM1071965	82SMU1	skeletal muscle (SMU)	3	healthy, endurance-trained individual	8	1; 3 hr post-EXTRI	male	SMUT3
GSM1071966	83PMN2	blood PMN	48	healthy, endurance-trained individual	8	2; 48 hr post-EXTRI	male	PMNT48
GSM1071967	83SMU2	skeletal muscle (SMU)	48	healthy, endurance-trained individual	8	2; 48 hr post-EXTRI	male	SMU48
GSM1071968	84PMN3	blood PMN	96	healthy, endurance-trained individual	8	3; 96 hr post-EXTRI	male	PMNT96
GSM1071969	84SMU3	skeletal muscle (SMU)	96	healthy, endurance-trained individual	8	3; 96 hr post-EXTRI	male	SMUT96

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