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Clinical

Transcriptome analysis of blood monocytes from sepsis patients - GSE46955

Purpose

Blood monocytes serve as the first line of host defense and are equipped to recognize and respond to infection by triggering an immune-inflammatory response. While most ...

Hypothesis

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Experimental Design

Blood monocytes from gram-negative sepsis patients during sepsis (Sepsis) and following their recovery (Recovery/Basal) as well as healthy donor (control) were isolated. ...

Experimental Variables

Lipopolysaccharide exposure (2021 ICD-10-CM code* = Not Applicable)

Controls

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Methods

Array data were extracted at the probe level with background correction using Illumina's BeadStudio software. These raw data were then quantile normalized in R v2.15.2 ...

Additional Information

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Microarray
Illumina HumanRef-8 v2
44 Samples Loaded: 44
Human (Homo sapiens)
Monocytes
Lipopolysaccharide exposure
Monocytes cultured were untreated or treated ex vivo with LPS(100ng/ml) for 3h.
Monocytes cultured in complete DMEM media supplemented with antibiotics (100 IU/ml penicillin and 100 µg/ml streptomycin) , in a humidified incubator at 37 °C and 5% CO2.
RNA was extracted from monocytes using an RNAasy Mini Kit (Qiagen) as per manufacterers specifications. Extracted RNA was runned and quantified on a Bioanalyser (Agilent) for quality control and used subsequently in microarray assay.
Sample Set Spreadsheet
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Samples Preview
Sample ID !Sample_title treatment cell Culture condition
GSM1141941 monocyte-recovery-basal-1 None monocyte Recovery_baseline
GSM1141942 monocyte-recovery-lps-1 LPS monocyte Recovery_LPS
GSM1141943 monocyte-healthy-basal-1 None monocyte Healthy_baseline
GSM1141944 monocyte-healthy-lps-1 LPS monocyte Healthy_LPS
GSM1141945 monocyte-sepsis-basal-1 None monocyte Sepsis_baseline
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File
sampleset4000098_sampleannotations.csv
Sample Set Spreadsheet
Log2 Transformed
Raw Signal
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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 !Sample Title Treatment Cell Culture condition
GSM1141941
monocyte-recovery-basal-1
None
monocyte
Recovery_baseline
GSM1141942
monocyte-recovery-lps-1
LPS
monocyte
Recovery_LPS
GSM1141943
monocyte-healthy-basal-1
None
monocyte
Healthy_baseline
GSM1141944
monocyte-healthy-lps-1
LPS
monocyte
Healthy_LPS
GSM1141945
monocyte-sepsis-basal-1
None
monocyte
Sepsis_baseline
GSM1141946
monocyte-sepsis-lps-1
LPS
monocyte
Sepsis_LPS
GSM1141947
monocyte-recovery-basal-2
None
monocyte
Recovery_baseline
GSM1141948
monocyte-recovery-lps-2
LPS
monocyte
Recovery_LPS
GSM1141949
monocyte-healthy-basal-2
None
monocyte
Healthy_baseline
GSM1141950
monocyte-healthy-lps-2
LPS
monocyte
Healthy_LPS
GSM1141951
monocyte-sepsis-basal-2
None
monocyte
Sepsis_baseline
GSM1141952
monocyte-sepsis-lps-2
LPS
monocyte
Sepsis_LPS
GSM1141953
monocyte-recovery-basal-3
None
monocyte
Recovery_baseline
GSM1141954
monocyte-recovery-lps-3
LPS
monocyte
Recovery_LPS
GSM1141955
monocyte-healthy-basal-3
None
monocyte
Healthy_baseline
GSM1141956
monocyte-healthy-lps-3
LPS
monocyte
Healthy_LPS
GSM1141957
monocyte-sepsis-basal-3
None
monocyte
Sepsis_baseline
GSM1141958
monocyte-sepsis-lps-3
LPS
monocyte
Sepsis_LPS
GSM1141959
monocyte-healthy-basal-4
None
monocyte
Healthy_baseline
GSM1141960
monocyte-healthy-lps-4
LPS
monocyte
Healthy_LPS
GSM1141961
monocyte-healthy-basal-5
None
monocyte
Healthy_baseline
GSM1141962
monocyte-healthy-lps-5
LPS
monocyte
Healthy_LPS
GSM1141963
monocyte-healthy-basal-6
None
monocyte
Healthy_baseline
GSM1141964
monocyte-healthy-lps-6
LPS
monocyte
Healthy_LPS
GSM1141965
monocyte-recovery-basal-4
None
monocyte
Recovery_baseline
GSM1141966
monocyte-recovery-lps-4
LPS
monocyte
Recovery_LPS
GSM1141967
monocyte-sepsis-basal-4
None
monocyte
Sepsis_baseline
GSM1141968
monocyte-sepsis-lps-4
LPS
monocyte
Sepsis_LPS
GSM1141969
monocyte-recovery-basal-5
None
monocyte
Recovery_baseline
GSM1141970
monocyte-recovery-lps-5
LPS
monocyte
Recovery_LPS
GSM1141971
monocyte-sepsis-basal-5
None
monocyte
Sepsis_baseline
GSM1141972
monocyte-sepsis-lps-5
LPS
monocyte
Sepsis_LPS
GSM1141973
monocyte-recovery-basal-6
None
monocyte
Recovery_baseline
GSM1141974
monocyte-recovery-lps-6
LPS
monocyte
Recovery_LPS
GSM1141975
monocyte-sepsis-basal-6
None
monocyte
Sepsis_baseline
GSM1141976
monocyte-sepsis-lps-6
LPS
monocyte
Sepsis_LPS
GSM1141977
monocyte-recovery-basal-7
None
monocyte
Recovery_baseline
GSM1141978
monocyte-recovery-lps-7
LPS
monocyte
Recovery_LPS
GSM1141979
monocyte-sepsis-basal-7
None
monocyte
Sepsis_baseline
GSM1141980
monocyte-sepsis-lps-7
LPS
monocyte
Sepsis_LPS
GSM1141981
monocyte-recovery-basal-8
None
monocyte
Recovery_baseline
GSM1141982
monocyte-recovery-lps-8
LPS
monocyte
Recovery_LPS
GSM1141983
monocyte-sepsis-basal-8
None
monocyte
Sepsis_baseline
GSM1141984
monocyte-sepsis-lps-8
LPS
monocyte
Sepsis_LPS

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