TOP TEN perturbations for 1409_at (Homo sapiens)

Organism: Homo sapiens
Gene: 1409_at
Selected probe(set): 202401_s_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of 1409_at (202401_s_at) across 6672 perturbations tested by GENEVESTIGATOR:

atopic dermatitis study 21 (lesional; whole skin) / normal skin tissue

Relative Expression (log2-ratio):1.9755049
Number of Samples:5 / 6
Experimental atopic dermatitis study 21 (lesional; whole skin)
Lesional full thickness skin samples isolated from patient with moderate-to-severe atopic dermatitis by laser capture microdissection. Patients' cohort characteristics: 3 males and 2 females; age 27-59 years (mean age: 39.4 years); SCORing of Atopic Dermatitis index (SCORAD) ranging from 45-65; total IgE: 14-1821 kU/l; eosinophilic count: 1.4-11.8 %.
Control normal skin tissue
Full thickness skin samples isolated from healthy subjects by laser capture microdissection.

connective/soft tissue cancer study 1 (PDX; connective and soft tissue, pleomorphic rhabdomyosarcoma, adult type; primary) / connective/soft tissue cancer study 1 (PDX; connective and soft tissue, liposarcoma, well differentiated type; primary)

Relative Expression (log2-ratio):1.9364481
Number of Samples:2 / 2
Experimental 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).
Control connective/soft tissue cancer study 1 (PDX; connective and soft tissue, liposarcoma, well differentiated type; primary)
Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary connective and soft tissue, liposarcoma, well differentiated type of the soft tissue (subcutaneously implanted).

atopic dermatitis study 21 (non-lesional; whole skin) / normal skin tissue

Relative Expression (log2-ratio):1.9279785
Number of Samples:5 / 6
Experimental atopic dermatitis study 21 (non-lesional; whole skin)
Non-lesional full thickness skin samples isolated from patient with moderate-to-severe atopic dermatitis by laser capture microdissection. Patients' cohort characteristics: 3 males and 2 females; age 27-59 years (mean age: 39.4 years); SCORing of Atopic Dermatitis index (SCORAD) ranging from 45-65; total IgE: 14-1821 kU/l; eosinophilic count: 1.4-11.8 %.
Control normal skin tissue
Full thickness skin samples isolated from healthy subjects by laser capture microdissection.

T-cell activation study 3 / resting CD4 T-lymphocyte (crude fraction) sample

Relative Expression (log2-ratio):1.8354406
Number of Samples:2 / 2
Experimental T-cell activation study 3
CD4+ T-cell samples prepared from crude lymphocyte fraction. Cells were activated with anti-CD3/28 beads for 18hrs.
Control resting CD4 T-lymphocyte (crude fraction) sample
Resting CD4 T-lymphocytes prepared from crude lymphocyte fraction.

connective/soft tissue cancer study 1 (PDX; connective and soft tissue, liposarcoma, well differentiated type; primary) / connective/soft tissue cancer study 1 (PDX; connective and soft tissue, leiomyosarcoma, NOS; primary)

Relative Expression (log2-ratio):-1.8189945
Number of Samples:2 / 2
Experimental connective/soft tissue cancer study 1 (PDX; connective and soft tissue, liposarcoma, well differentiated type; primary)
Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary connective and soft tissue, liposarcoma, well differentiated type of the soft tissue (subcutaneously implanted).
Control connective/soft tissue cancer study 1 (PDX; connective and soft tissue, leiomyosarcoma, NOS; primary)
Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary connective and soft tissue, leiomyosarcoma, NOS of the soft tissue (subcutaneously implanted).

rheumatoid arthritis study 31 / IFN-g study 11

Relative Expression (log2-ratio):-1.7385454
Number of Samples:4 / 7
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 IFN-g study 11
Monocyte samples isolated from donors and stimulated in vitro by 100 ng/ml IFNγ 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.

prostate cancer study 1 (meta.) / benign prostate tissue

Relative Expression (log2-ratio):-1.6473751
Number of Samples:6 / 6
Experimental prostate cancer study 1 (meta.)
Metastatic prostate cancer samples.
Control benign prostate tissue
Benign prostate samples.

insulin study 2 (adipocyte; TNF; 10ng/ml; 24h; insulin; 20nM; 2h) / untreated MSC derived adipocyte sample

Relative Expression (log2-ratio):1.601016
Number of Samples:2 / 2
Experimental insulin study 2 (adipocyte; TNF; 10ng/ml; 24h; insulin; 20nM; 2h)
Tumor necrosis factor (TNF) and insulin treated mature adipocytes were derived from human mesenchymal stem cells (MSC). MSC were obtained from the bone marrow withdrawn (posterior iliac crest of the pelvic bone) of normal, non-diabetic volunteers. On day 19 of differentiation, cells were treated with 10ng/ml TNF for 24hours to induce insulin resistance. Cells then underwent a 5 hours serum starvation followed by treatment with 20nM insulin for 2 hours. Cells were subsequently separated by centrifugation, adipocytes fraction (buoyant fraction, >90% mature adipocytes) was taken and subjected to RNA isolation. Expansion and differentiation of MSC: Cells at passage 2 were cultured in MSC growth media until passage 4 to 7 was reached. Fresh adipogenic differentiation media (ADM) containing 120 pM insulin, dexamethasone, IBMX, and indomethacin was added. The cultures were maintained in ADM for 14 days with media changes every 3–4 days. On day 14, the media was changed to adipogenic maintenance media (AMM) containing 120 pM insulin. On day 19 of differentiation, the adipocyte differentiation efficiency was 61-64 %, as determined by the number of cells that have intracellular lipid droplets, about 54% of the cells were positive for the adipocyte marker, peroxisome proliferator-activated receptor gamma (PPARc). All experiments were done using cells with passage number less than 8. insulin ATC code:,, , ,
Control untreated MSC derived adipocyte sample
Untreated mature adipocytes were derived from human mesenchymal stem cells (MSC). MSC were obtained from the bone marrow withdrawn (posterior iliac crest of the pelvic bone) of normal, non-diabetic volunteers. On day 20 of differentiation, cells underwent a 5 hours serum starvation followed by 2 hours incubation. Cells were subsequently separated by centrifugation, adipocytes fraction (buoyant fraction, >90% mature adipocytes) was taken and subjected to RNA isolation. Expansion and differentiation of MSC: Cells at passage 2 were cultured in MSC growth media until passage 4 to 7 was reached. Fresh adipogenic differentiation media (ADM) containing 120 pM insulin, dexamethasone, IBMX, and indomethacin was added. The cultures were maintained in ADM for 14 days with media changes every 3–4 days. On day 14, the media was changed to adipogenic maintenance media (AMM) containing 120 pM insulin. On day 19 of differentiation, the adipocyte differentiation efficiency was 61-64 %, as determined by the number of cells that have intracellular lipid droplets, about 54% of the cells were positive for the adipocyte marker, peroxisome proliferator-activated receptor gamma (PPARc). All experiments were done using cells with passage number less than 8.

rapidly progressive glomerulonephritis; ANCA-associated vasculitis study 5 (tubulointerstitium) / focal segmental glomerulosclerosis study 9 (glomerulus)

Relative Expression (log2-ratio):-1.490097
Number of Samples:21 / 10
Experimental rapidly progressive glomerulonephritis; ANCA-associated vasculitis study 5 (tubulointerstitium)
Tubulointerstitium tissue sample obtained by microdissection from kidney biopsy, from patients suffering from rapidly progressive glomerulonephritis and antineutrophil cytoplasmic antibody (ANCA)-associated vasculitis. Donors were positive for ANCA-antibody. Biopsy samples were obtained from the European Renal cDNA Bank-Kroener-Fresenius biopsy bank. All biopsies were stratified by a reference pathologist.
Control focal segmental glomerulosclerosis study 9 (glomerulus)
Glomeruli tissue sample obtained by microdissection from kidney biopsy, from patients suffering from focal segmental glomerulosclerosis. Biopsy samples were obtained from the European Renal cDNA Bank-Kroener-Fresenius biopsy bank. All biopsies were stratified by a reference pathologist.

prostate cancer study 1 (meta.) / prostate cancer study 1 (prim.)

Relative Expression (log2-ratio):-1.476697
Number of Samples:6 / 7
Experimental prostate cancer study 1 (meta.)
Metastatic prostate cancer samples.
Control prostate cancer study 1 (prim.)
Primary prostate cancer samples.