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Clinical

A network-based analysis of systemic inflammation in humans - GSE3284

Purpose

Oligonucleotide and complementary DNA microarrays are being used to subclassify histologically similar tumours, monitor disease progress, and individualize treatment regimens. However, extracting new biological insight from high-throughput genomic studies of human diseases is a challenge, limited by difficulties in recognizing and evaluating relevant biological processes from huge quantities of experimental data. Here we present a structured network knowledge-base approach to analyse genome-wide transcriptional responses in the context of known functional interrelationships among proteins, small molecules and phenotypes. This approach was used to analyse changes in blood leukocyte gene expression patterns in human subjects receiving an inflammatory stimulus (bacterial endotoxin). We explore the known genome-wide interaction network to identify significant functional modules perturbed in response to this stimulus. Our analysis reveals that the human blood leukocyte response to acute systemic inflammation includes the transient dysregulation of leukocyte bioenergetics and modulation of translational machinery. These findings provide insight into the regulation of global leukocyte activities as they relate to innate immune system tolerance and increased susceptibility to infection in humans.Keywords: Gene expression profiling of human blood leukocytes in response to in vivo endotoxin administration.

Hypothesis

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Experimental Design

Healthy male and female subjects were intravenously administered either endotoxin or only vehicle (control). Arterial blood samples were collected before infusion (0 hours) and at post infusion times of 2, 4, 6, 9, and 24 hours. Blood leukocytes were isolated and analyzed using Affymetrix GeneChip arrays.

Experimental Variables

Intravenous bacterial endotoxin (2021 ICD-10-CM code* = Not Applicable)

Controls

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Methods

Affymetrix GCOS version 1.2.0

Additional Information

In PMID 16136080, HC LPS series correspond to an extra 6 individual used to verify result of the LPS vs PbO series. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=gse3284

Microarray
Affymetrix HG-U133_Plus_2
110 Samples Loaded: 110
Human (Homo sapiens)
Whole Blood
Intravenous bacterial endotoxin
Sample Set Spreadsheet
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Samples Preview
Sample ID Age Gender Cell type treatment Grouping
GSM73423 blood leukocytes Placebo PbO T0
GSM73424 blood leukocytes LPS LPS T0
GSM73425 blood leukocytes LPS LPS T0
GSM73426 blood leukocytes LPS LPS T0
GSM73427 blood leukocytes LPS LPS T0
Please log in in order to upload files.
File
GSE3284_sample_information.csv
Sample Set Spreadsheet
GSE3284_sample_information_DR.csv
Sample Set Spreadsheet
GSE3284_sample_information_DR_DR.csv
Sample Set Spreadsheet
GSE3284_sample_information_DR_DR.csv
Sample Set Spreadsheet
GSE3284_sample_information_DR_DR.csv
Sample Set Spreadsheet
GSE3284_sample_information_DR_DR_MT.csv
Sample Set Spreadsheet
GSE3284_sample_information_DR_DR_MT.csv
Sample Set Spreadsheet
GSE3284_sample_information_v1.csv
Sample Set Spreadsheet
Raw Signal
Raw Signal
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Clinical Datasource
Links

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 Age Gender Cell type Treatment Grouping Disease state Patient ID Time point in hrs ID
GSM73423
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_1626809_11996035_A_
0
A
GSM73424
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_21572677_22931099_A_
0
A
GSM73425
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_24581684_33693110_A_
0
A
GSM73426
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_27596703_27512821_A_
0
A
GSM73427
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_30617740_25813640_A_
0
A
GSM73428
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_32290689_27334033_A_
0
A
GSM73429
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_33644801_23267004_A_
0
A
GSM73430
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_339423_19292507_A_
0
A
GSM73431
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_1626809_11996035_B_
0
B
GSM73432
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_21572677_22931099_B_
0
B
GSM73433
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_24581684_33693110_B_
0
B
GSM73434
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_27596703_27512821_B_
0
B
GSM73435
 
 
blood leukocytes
LPS
LPS T0
 
CR1_Lysis_0_30617740_25813640_B_
0
B
GSM73436
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_32290689_27334033_B_
0
B
GSM73437
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_33644801_23267004_B_
0
B
GSM73438
 
 
blood leukocytes
Placebo
PbO T0
 
CR1_Lysis_0_339423_19292507_B_
0
B
GSM73439
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_1626809_26146952_A_
2
A
GSM73440
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_21572677_4979401_A_
2
A
GSM73441
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_24581684_17910322_A_
2
A
GSM73442
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_27596703_13177053_A_
2
A
GSM73443
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_30617740_399966_A_
2
A
GSM73444
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_32290689_20990830_A_
2
A
GSM73445
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_33644801_13519166_A_
2
A
GSM73446
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_339423_7889957_A_
2
A
GSM73447
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_1626809_26146952_B_
2
B
GSM73448
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_21572677_4979401_B_
2
B
GSM73449
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_24581684_17910322_B_
2
B
GSM73450
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_27596703_13177053_B_
2
B
GSM73451
 
 
blood leukocytes
LPS
LPS T2
 
CR1_Lysis_2_30617740_399966_B_
2
B
GSM73452
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_32290689_20990830_B_
2
B
GSM73453
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_33644801_13519166_B_
2
B
GSM73454
 
 
blood leukocytes
Placebo
PbO T2
 
CR1_Lysis_2_339423_7889957_B_
2
B
GSM73455
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_21572677_22199230_A_
4
A
GSM73456
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_24581684_2248086_A_
4
A
GSM73457
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_27596703_34012992_A_
4
A
GSM73458
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_30617740_21123328_A_
4
A
GSM73459
 
 
blood leukocytes
Placebo
PbO T4
 
CR1_Lysis_4_32290689_8317408_A_
4
A
GSM73460
 
 
blood leukocytes
Placebo
PbO T4
 
CR1_Lysis_4_33644801_3716598_A_
4
A
GSM73461
 
 
blood leukocytes
Placebo
PbO T4
 
CR1_Lysis_4_339423_31962126_A_
4
A
GSM73462
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_21572677_22199230_B_
4
B
GSM73463
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_24581684_2248086_B_
4
B
GSM73464
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_27596703_34012992_B_
4
B
GSM73465
 
 
blood leukocytes
LPS
LPS T4
 
CR1_Lysis_4_30617740_21123328_B_
4
B
GSM73466
 
 
blood leukocytes
Placebo
PbO T4
 
CR1_Lysis_4_32290689_8317408_B_
4
B
GSM73467
 
 
blood leukocytes
Placebo
PbO T4
 
CR1_Lysis_4_33644801_3716598_B_
4
B
GSM73468
 
 
blood leukocytes
Placebo
PbO T4
 
CR1_Lysis_4_339423_31962126_B_
4
B
GSM73469
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_21572677_4488426_A_
6
A
GSM73470
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_24581684_21757491_A_
6
A
GSM73471
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_27596703_19918478_A_
6
A
GSM73472
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_30617740_20779368_A_
6
A
GSM73473
 
 
blood leukocytes
Placebo
PbO T6
 
CR1_Lysis_6_32290689_18473389_A_
6
A
GSM73474
 
 
blood leukocytes
Placebo
PbO T6
 
CR1_Lysis_6_33644801_3892180_A_
6
A
GSM73475
 
 
blood leukocytes
Placebo
PbO T6
 
CR1_Lysis_6_339423_21406854_A_
6
A
GSM73476
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_21572677_4488426_B_
6
B
GSM73477
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_24581684_21757491_B_
6
B
GSM73478
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_27596703_19918478_B_
6
B
GSM73479
 
 
blood leukocytes
LPS
LPS T6
 
CR1_Lysis_6_30617740_20779368_B_
6
B
GSM73480
 
 
blood leukocytes
Placebo
PbO T6
 
CR1_Lysis_6_32290689_18473389_B_
6
B
GSM73481
 
 
blood leukocytes
Placebo
PbO T6
 
CR1_Lysis_6_33644801_3892180_B_
6
B
GSM73482
 
 
blood leukocytes
Placebo
PbO T6
 
CR1_Lysis_6_339423_21406854_B_
6
B
GSM73483
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_1626809_29945956_A_
9
A
GSM73484
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_21572677_21949161_A_
9
A
GSM73485
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_24581684_6336377_A_
9
A
GSM73486
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_27596703_5944600_A_
9
A
GSM73487
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_30617740_32209377_A_
9
A
GSM73488
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_32290689_31118687_A_
9
A
GSM73489
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_33644801_18184487_A_
9
A
GSM73490
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_339423_11275230_A_
9
A
GSM73491
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_1626809_29945956_B_
9
B
GSM73492
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_21572677_21949161_B_
9
B
GSM73493
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_24581684_6336377_B_
9
B
GSM73494
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_27596703_5944600_B_
9
B
GSM73495
 
 
blood leukocytes
LPS
LPS T9
 
CR1_Lysis_9_30617740_32209377_B_
9
B
GSM73496
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_32290689_31118687_B_
9
B
GSM73497
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_33644801_18184487_B_
9
B
GSM73498
 
 
blood leukocytes
Placebo
PbO T9
 
CR1_Lysis_9_339423_11275230_B_
9
B
GSM73499
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_1626809_14198042_A_
24
A
GSM73500
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_21572677_4479275_A_
24
A
GSM73501
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_24581684_26086916_A_
24
A
GSM73502
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_27596703_27142447_A_
24
A
GSM73503
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_30617740_33314489_A_
24
A
GSM73504
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_32290689_10036417_A_
24
A
GSM73505
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_33644801_18770658_A_
24
A
GSM73506
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_339423_1567260_A_
24
A
GSM73507
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_1626809_14198042_B_
24
B
GSM73508
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_21572677_4479275_B_
24
B
GSM73509
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_24581684_26086916_B_
24
B
GSM73510
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_27596703_27142447_B_
24
B
GSM73511
 
 
blood leukocytes
LPS
LPS T24
 
CR1_Lysis_24_30617740_33314489_B_
24
B
GSM73512
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_32290689_10036417_B_
24
B
GSM73513
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_33644801_18770658_B_
24
B
GSM73514
 
 
blood leukocytes
Placebo
PbO T24
 
CR1_Lysis_24_339423_1567260_B_
24
B
GSM75552
M
36
blood leukocytes
LPS
HC LPS T2
healthy
S_11971084
2
S
GSM75553
M
35
blood leukocytes
LPS
HC LPS T0
healthy
S_11976839
0
S
GSM75554
M
35
blood leukocytes
LPS
HC LPS T2
healthy
S_15183281
2
S
GSM75555
F
24
blood leukocytes
LPS
HC LPS T2
healthy
S_15344636
2
S
GSM75556
M
19
blood leukocytes
LPS
HC LPS T2
healthy
S_16596851
2
S
GSM75557
F
18
blood leukocytes
LPS
HC LPS T0
healthy
S_21437514
0
S
GSM75558
F
18
blood leukocytes
LPS
HC LPS T2
healthy
S_2225401
2
S
GSM75559
F
24
blood leukocytes
LPS
HC LPS T0
healthy
S_25014370
0
S
GSM75560
M
19
blood leukocytes
LPS
HC LPS T0
healthy
S_27557812
0
S
GSM75561
F
18
blood leukocytes
LPS
HC LPS T6
healthy
S_28382210
6
S
GSM75562
M
36
blood leukocytes
LPS
HC LPS T6
healthy
S_3076586
6
S
GSM75563
M
36
blood leukocytes
LPS
HC LPS T0
healthy
S_31212545
0
S
GSM75564
M
35
blood leukocytes
LPS
HC LPS T6
healthy
S_32306462
6
S
GSM75565
M
34
blood leukocytes
LPS
HC LPS T0
healthy
S_3761772
0
S
GSM75566
F
24
blood leukocytes
LPS
HC LPS T6
healthy
S_4194863
6
S
GSM75567
M
19
blood leukocytes
LPS
HC LPS T6
healthy
S_474471
6
S
GSM75568
M
34
blood leukocytes
LPS
HC LPS T6
healthy
S_6770098
6
S
GSM75569
M
34
blood leukocytes
LPS
HC LPS T2
healthy
S_7821833
2
S

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