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Series GSE7400 Query DataSets for GSE7400
Status Public on Aug 09, 2007
Title Hematopoietic stem cell mobilization with G-CSF (gene expression profiling)
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Granulocyte-colony stimulating factor (G-CSF) is used to boost granulocyte counts in immunocompromised patients, but its effects on the immune system may be counter productive. We tested the hypothesis that G-CSF mobilized peripheral blood stem cell (PBSC) products are immunologically down regulated based on gene microarray analysis.

Ten peripheral blood samples from normal donors for allogeneic PBSC transplantation were obtained before and after administration of G-CSF and tested on Affymetrix Human U133 Plus 2.0 GeneChip® microarrays. Significant changes in gene expression after G-CSF mobilization were reported by controlling the false discovery rate at 5%. Immune-related genes were isolated from the data set and categorized according to probe set annotations and a thorough, independent literature search.

We found that G-CSF up-regulated inflammatory and neutrophil activation pathway gene expression; however, adaptive immune-related gene expression, such as antigen presentation, co-stimulation, T cell activation and cytolytic effector pathways, were generally down-regulated.

Thus, despite significant increases in stem cells, lymphocytes and antigen presenting cells, G-CSF mobilized PBSC allografts exhibit a suppressive adaptive immune-related gene expression profile. Our data provides an explanation for the potentially immunosuppressive effects observed after G-CSF administration.
Keywords: PBSCT, G-CSF, microarray, gene expression
 
Overall design This study was approved by the University of Florida Institutional Review Board. Five healthy donors (A-E) for allogeneic PBSC transplantation consented and were mobilized with rHu G-CSF at 10µ/kg/day for five days. Approximately 4mL of venous blood was collected before (Pre-G-CSF) and after (Post-G-CSF) mobilization. Whole blood leukocyte RNA was purified from each sample and used to generate cRNAs which were subsequently hybridized onto Affymetrix Human U133 Plus 2.0 GeneChip® microarrays. Representative genes were successfully validated with quantitative RT-PCR.
 
Contributor(s) Buzzeo M, Reddy V
Citation(s) 17761290
Submission date Mar 29, 2007
Last update date Mar 25, 2019
Contact name Matthew Buzzeo
E-mail(s) [email protected]
Organization name University of South Florida College of Medicine
Street address 12901 Bruce B. Downs Blvd
City Tampa
State/province FL
ZIP/Postal code 33612
Country USA
 
Platforms (1)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
Samples (10)
GSM178549 Donor A, pre G-CSF
GSM178550 Donor B, pre G-CSF
GSM178551 Donor C, pre G-CSF
Relations
BioProject PRJNA97893

Significantly-regulated genes post-GCSF mobilization: Annotated genes (FDR 5%) header descriptions
Probe_ID Affymetrix U133 Plus 2.0 Array (ie, GEO Platform GPL570) probe set IDs
Gene Symbol A gene symbol, when one is available (from UniGene)
Gene Title Title of Gene represented by the probe set
FC (Log2)
P value (ANCOVA) p-values associated with analysis of covariance
Affymetrix GO Biological Process Description Gene Ontology Biological Process Description

Data table
Probe_ID Gene Symbol Gene Title FC (Log2) P value (ANCOVA) Affymetrix GO Biological Process Description
219669_at CD177 CD177 molecule 630.41 0.0001 ---
231122_x_at ZDHHC19 zinc finger, DHHC-type containing 19 326.55 0.0003 ---
212768_s_at OLFM4 olfactomedin 4 203.49 0.0008 ---
207329_at MMP8 matrix metallopeptidase 8 (neutrophil collagenase) 145.65 0.0010 peptidoglycan metabolism /// proteolysis /// collagen catabolism /// proteolysis
226804_at FAM20A family with sequence similarity 20, member A 97.98 0.0007 ---
231688_at --- Transcribed locus 90.93 0.0010 ---
208470_s_at HP /// HPR haptoglobin /// haptoglobin-related protein 68.15 0.0019 proteolysis /// iron ion homeostasis /// defense response /// mRNA processing /// cell cycle /// mitosis /// RNA splicing /// cell division /// nuclear mRNA splicing, via spliceosome /// electron transport
216331_at ITGA7 integrin, alpha 7 61.85 0.0000 cell adhesion /// homophilic cell adhesion /// cell-matrix adhesion /// integrin-mediated signaling pathway /// muscle development /// regulation of cell shape /// blood vessel morphogenesis
206871_at ELA2 elastase 2, neutrophil 60.26 0.0014 proteolysis /// calcium ion homeostasis /// response to UV /// protein catabolism /// anti-inflammatory response /// positive regulation of MAPK activity /// negative regulation of chemokine biosynthesis /// negative regulation of interleukin-8 biosynthesis /// positive regulation of interleukin-8 biosynthesis /// positive regulation of smooth muscle cell proliferation /// negative regulation of inflammatory response /// negative regulation of chemotaxis
1553952_at ZDHHC19 zinc finger, DHHC-type containing 19 56.55 0.0011 ---
225016_at APCDD1 adenomatosis polyposis coli down-regulated 1 53.94 0.0009 ---
204636_at COL17A1 collagen, type XVII, alpha 1 50.58 0.0000 electron transport /// phosphate transport /// cell-matrix adhesion /// epidermis development
207269_at DEFA4 defensin, alpha 4, corticostatin 50.00 0.0009 xenobiotic metabolism /// defense response /// defense response to bacterium /// defense response to fungus
212531_at LCN2 lipocalin 2 (oncogene 24p3) 44.30 0.0010 transport
209663_s_at ITGA7 integrin, alpha 7 37.97 0.0007 cell adhesion /// homophilic cell adhesion /// cell-matrix adhesion /// integrin-mediated signaling pathway /// muscle development /// regulation of cell shape /// blood vessel morphogenesis
1553518_at DEFT1P defensin, theta 1 pseudogene 34.21 0.0006 ---
220570_at RETN resistin 33.71 0.0000 biological_process
229230_at OSTalpha organic solute transporter alpha 31.20 0.0010 ---
207341_at PRTN3 proteinase 3 (serine proteinase, neutrophil, Wegener granulomatosis autoantigen) 30.41 0.0027 proteolysis /// positive regulation of cell proliferation /// collagen catabolism
223767_at GPR84 G protein-coupled receptor 84 29.88 0.0003 signal transduction /// G-protein coupled receptor protein signaling pathway /// biological_process

Total number of rows: 4501

Table truncated, full table size 702 Kbytes.




Significantly-regulated genes post-GCSF mobilization: Immune-related genes (FDR 5%) header descriptions
Probe_ID Affymetrix U133 Plus 2.0 Array (ie, GEO Platform GPL570) probe set IDs
Gene Symbol A gene symbol, when one is available (from UniGene)
Gene Title Title of Gene represented by the probe set
FC (Log2)
P value (ANCOVA) p-values associated with analysis of covariance
Affymetrix GO Biological Process Description Gene Ontology Biological Process Description

Data table
Probe_ID Gene Symbol Gene Title FC (Log2) P value (ANCOVA) Affymetrix GO Biological Process Description
219669_at CD177 CD177 molecule 630.41 0.0001 ---
207329_at MMP8 matrix metallopeptidase 8 (neutrophil collagenase) 145.65 0.0010 peptidoglycan metabolism /// proteolysis /// collagen catabolism /// proteolysis
208470_s_at HP /// HPR haptoglobin /// haptoglobin-related protein 68.15 0.0019 proteolysis /// iron ion homeostasis /// defense response /// nuclear mRNA splicing, via spliceosome /// mRNA processing /// cell cycle /// mitosis /// cell division
216331_at ITGA7 integrin, alpha 7 61.85 0.0000 cell adhesion /// homophilic cell adhesion /// cell-matrix adhesion /// integrin-mediated signaling pathway /// muscle development /// regulation of cell shape
206871_at ELA2 elastase 2, neutrophil 60.26 0.0014 proteolysis /// calcium ion homeostasis /// response to UV /// protein catabolism /// anti-inflammatory response /// positive regulation of MAPK activity /// negative regulation of chemokine biosynthesis /// negative regulation of interleukin-8 biosynthesis /// positive regulation of interleukin-8 biosynthesis /// positive regulation of smooth muscle cell proliferation /// negative regulation of inflammatory response /// negative regulation of chemotaxis
207269_at DEFA4 defensin, alpha 4, corticostatin 50.00 0.0009 xenobiotic metabolism /// response to pest, pathogen or parasite /// defense response to bacteria /// defense response to fungi /// defense response
209663_s_at ITGA7 integrin, alpha 7 37.97 0.0007 cell adhesion /// homophilic cell adhesion /// cell-matrix adhesion /// integrin-mediated signaling pathway /// muscle development /// regulation of cell shape
206676_at CEACAM8 carcinoembryonic antigen-related cell adhesion molecule 8 27.98 0.0026 immune response
231771_at GJB6 gap junction protein, beta 6 (connexin 30) 26.58 0.0003 immune response /// cell communication /// sensory perception of sound /// sensory perception of sound
203949_at MPO myeloperoxidase 26.45 0.0031 anti-apoptosis /// defense response /// response to oxidative stress /// hydrogen peroxide catabolism /// response to oxidative stress
206697_s_at HP haptoglobin 26.38 0.0016 proteolysis /// iron ion homeostasis /// defense response /// nuclear mRNA splicing, via spliceosome /// mRNA processing /// cell cycle /// mitosis /// cell division
205557_at BPI bactericidal/permeability-increasing protein 23.09 0.0002 immune response /// response to pest, pathogen or parasite /// defense response to bacteria
203948_s_at MPO myeloperoxidase 22.39 0.0009 anti-apoptosis /// defense response /// response to oxidative stress /// hydrogen peroxide catabolism /// response to oxidative stress
205653_at CTSG cathepsin G 15.36 0.0016 proteolysis /// immune response /// proteolysis
209772_s_at CD24 CD24 molecule 14.57 0.0008 humoral immune response
207384_at PGLYRP1 peptidoglycan recognition protein 1 13.81 0.0022 peptidoglycan catabolism /// response to pest, pathogen or parasite /// detection of bacteria /// innate immune response /// defense response to Gram-positive bacteria /// immune response /// defense response to bacteria /// immune response
219403_s_at HPSE heparanase 12.16 0.0001 proteoglycan metabolism /// inflammatory response
208650_s_at CD24 /// LOC647456 CD24 molecule /// hypothetical protein LOC647456 9.72 0.0011 humoral immune response
1555643_s_at LILRA5 leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5 9.55 0.0012 ---
203936_s_at MMP9 matrix metallopeptidase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase) 9.53 0.0026 peptidoglycan metabolism /// proteolysis /// macrophage differentiation /// collagen catabolism /// proteolysis

Total number of rows: 490

Table truncated, full table size 101 Kbytes.




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Supplementary file Size Download File type/resource
GSE7400_RAW.tar 46.0 Mb (http)(custom) TAR (of CEL)
Processed data are available on Series record
Processed data included within Sample table
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