TOP TEN perturbations for 38971_r_at (Homo sapiens)
Organism: Homo sapiens
Gene: 38971_r_at
Selected probe(set): 207196_s_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array
Expression of 38971_r_at (207196_s_at) across 6674 perturbations tested by GENEVESTIGATOR:
TNF-ɑ study 20 / normal monocyte sample
Relative Expression (log2-ratio):3.0378723Number of Samples:3 / 7
| Experimental | TNF-ɑ study 20 |
| Monocyte samples isolated from healthy donors and stimulated in vitro by 100 ng/ml TNFα in whole blood for 1.5 hour. Following stimulation, monocytes were depleted from granulocytes using CD15 MACS beads, and afterwards they were sorted from remaining peripheral blood leukocytes by CD14 labeling. | |
| Control | normal monocyte sample |
| Monocyte samples isolated from healthy subjects. Peripheral blood monocytes were isolated immediately after drawing blood by depletion from granulocytes using CD15 MACS beads, and afterwards they were sorted from remaining peripheral blood leukocyte by CD14 labeling. |
LPS study 2 / untreated THP-1 cell sample
Relative Expression (log2-ratio):3.0217085Number of Samples:3 / 3
| Experimental | LPS study 2 |
| Cultured THP-1 mononuclear cells were treated with lipopolysaccharide (1 microgram/ml) for 4 hours at 37°C. ATC code:--- | |
| Control | untreated THP-1 cell sample |
| Cultured THP-1 mononuclear cells were cultured in basal growth media at 37°C. |
TNF-ɑ study 20 / unstimulated monocyte sample
Relative Expression (log2-ratio):3.0014687Number of Samples:3 / 11
| Experimental | TNF-ɑ study 20 |
| Monocyte samples isolated from healthy donors and stimulated in vitro by 100 ng/ml TNFα in whole blood for 1.5 hour. Following stimulation, monocytes were depleted from granulocytes using CD15 MACS beads, and afterwards they were sorted from remaining peripheral blood leukocytes by CD14 labeling. | |
| Control | unstimulated monocyte sample |
| Monocyte samples isolated from healthy donors and incubated in whole blood for 1.5 hour without any stimulation. Following incubation, monocytes were depleted from granulocytes using CD15 MACS beads, and afterwards they were sorted from remaining peripheral blood leukocytes by CD14 labeling. |
connective/soft tissue cancer study 1 (PDX; connective and soft tissue, synovial sarcoma, spindle cell; primary) / connective/soft tissue cancer study 1 (PDX; connective and soft tissue, pleomorphic rhabdomyosarcoma, adult type; primary)
Relative Expression (log2-ratio):-2.9665089Number of Samples:6 / 2
| Experimental | connective/soft tissue cancer study 1 (PDX; connective and soft tissue, synovial sarcoma, spindle cell; primary) |
| Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary connective and soft tissue, synovial sarcoma, spindle cell of the soft tissue (subcutaneously implanted). | |
| Control | connective/soft tissue cancer study 1 (PDX; connective and soft tissue, pleomorphic rhabdomyosarcoma, adult type; primary) |
| Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary connective and soft tissue, pleomorphic rhabdomyosarcoma, adult type of the soft tissue (subcutaneously implanted). |
LPS study 4 / mock treated MONO-MAC-6 cell sample
Relative Expression (log2-ratio):2.9309368Number of Samples:2 / 2
| Experimental | LPS study 4 |
| MONO-MAC-6 (MM6) cells were treated with 10 ng/ml lipopolysaccharide (LPS). ATC code:--- | |
| Control | mock treated MONO-MAC-6 cell sample |
| MONO-MAC-6 (MM6) cells mock treated. |
LPS study 4 (shRNA contr.) / mock treated / transduced MONO-MAC-6 cell sample
Relative Expression (log2-ratio):2.7784615Number of Samples:2 / 2
| Experimental | LPS study 4 (shRNA contr.) |
| MONO-MAC-6 (MM6) cells were transduced with a control shRNA and then treated with 10 ng/ml lipopolysaccharide (LPS). ATC code:--- | |
| Control | mock treated / transduced MONO-MAC-6 cell sample |
| MONO-MAC-6 (MM6) cells were transduced with a control shRNA and then mock treated. |
monocyte activation study 1 (NOD2L/TLR/1L; 24h) / untreated monocyte sample (24h)
Relative Expression (log2-ratio):2.6891108Number of Samples:5 / 5
| Experimental | monocyte activation study 1 (NOD2L/TLR/1L; 24h) |
| Monocytes were isolated from five healthy donors, cultured in RPMI with 10% vitamin D–sufficient (100 nM) human serum and activated for 24 hours with 1 ug/ml muramyl dipeptide (nucleotide-binding oligomerization domain-containing protein 2 ligand, NOD2L) and 1 ug/ml mycobacterial 19-kDa triacylated lipopeptide (TLR2/1 ligand, TLR2/1L). This type of activation is via nucleotide-binding oligomerization domain-containing protein 2 (NOD2) and heterodimeric Toll-like receptor 2 and Toll-like receptor 1 (TLR2/1). | |
| Control | untreated monocyte sample (24h) |
| Monocytes were isolated from five healthy donors, cultured in RPMI with 10% vitamin D–sufficient (100 nM) human serum and collected after 24 hours for RNA isolation. |
rheumatoid arthritis study 31 / TNF-ɑ study 20
Relative Expression (log2-ratio):-2.612358Number of Samples:4 / 3
| Experimental | rheumatoid arthritis study 31 |
| Monocyte samples isolated from patients with rheumatoid arthritis (RA). Monocytes from whole blood were depleted from granulocytes by CD15 MACS beads, and afterwards they were sorted from remaining peripheral blood leukocytes by CD14 labeling. Patients fulfilled the revised American College of Rheumatology criteria (ACR) for RA. | |
| Control | TNF-ɑ study 20 |
| Monocyte samples isolated from healthy donors and stimulated in vitro by 100 ng/ml TNFα in whole blood for 1.5 hour. Following stimulation, monocytes were depleted from granulocytes using CD15 MACS beads, and afterwards they were sorted from remaining peripheral blood leukocytes by CD14 labeling. |
echinomycin study 1 / deferoxamine study 5
Relative Expression (log2-ratio):-2.4608603Number of Samples:3 / 3
| Experimental | echinomycin study 1 |
| Echinomycin (100nM; 2h) treated human astroglioma (U251) cells, stimulated with deferoxamine (DFO; 300mM; 16h). ATC code:--- | |
| Control | deferoxamine study 5 |
| Untreated human astroglioma (U251) cells, stimulated with deferoxamine (DFO; 300mM; 16h). ATC code: |
keratinocyte differentiation study 2 (KLF4 siRNA) / keratinocyte differentiation study 2
Relative Expression (log2-ratio):-2.458126Number of Samples:2 / 2
| Experimental | keratinocyte differentiation study 2 (KLF4 siRNA) |
| KLF4 (Kruppel-like factor 4) depleted primary neonatal keratinocytes differentiated with 1.2 mM calcium for 3 days. Keratinocytes obtained from freshly isolated foreskin were grown in keratinocyte-SFM medium supplemented with epidermal growth factor and bovine pituitary extract. KLF4 depletion was done using siRNAs: KLF4i(A): CCGAGGAGTTCAACGATCT; KLF4i(B): TGACCAGGCACTACCGTAA. Differentiation was induced at 100% confluency. | |
| Control | keratinocyte differentiation study 2 |
| Primary neonatal keratinocytes differentiated with 1.2 mM calcium for 3 days. Keratinocytes obtained from freshly isolated foreskin were grown in keratinocyte-SFM medium supplemented with epidermal growth factor and bovine pituitary extract. Differentiation was induced at 100% confluency. |