TOP TEN perturbations for NM_000398 (Homo sapiens)

Organism: Homo sapiens
Gene: NM_000398
Selected probe(set): 201885_s_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of NM_000398 (201885_s_at) across 5339 perturbations tested by GENEVESTIGATOR:

glioma study 17 (anaplastic astrocytoma; A2B5+) / non-tumor oligodendrocyte progenitor cell sample (cortex)

Relative Expression (log2-ratio):2.285037
Number of Samples:2 / 3
Experimental glioma study 17 (anaplastic astrocytoma; A2B5+)
Oligodendrocyte progenitor cells (OPC) isolated from high grade anaplastic astrocytoma (grade III). OPC were isolated using magnetic-activated cell sorting (MACS) with antibodies against A2B5 antigen. Patients were 45 ? 18 years old.
Control non-tumor oligodendrocyte progenitor cell sample (cortex)
Oligodendrocyte progenitor cells (OPC) isolated from cortical tissue, which was obtained from patients with epilepsy, but without any manifested brain cancer. OPC were isolated using magnetic-activated cell sorting (MACS) with antibodies against A2B5 antigen.

WISP1 depletion study 1 / scrambled shRNA transfected MSC sample

Relative Expression (log2-ratio):-1.8546686
Number of Samples:3 / 3
Experimental WISP1 depletion study 1
Primary human mesenchymal stem cells (MSC) with shRNA mediated knockdown of WISP1. Targeting shRNA sequence (shRNA5: 5?-CCGGGCTTCTGTAACCTGAGCTGTACTCGAGTACAGCTCAGGTTACAGAAGCTTTTTG-3?) was integrated into the lentiviral vector pLKO.1 and total RNA was isolated on day four post-transduction. MSC were isolated from the femoral heads of trabecular bone obtained from middle to old age patients undergoing total hip arthroplasty. Cells were grown in growth medium containing 50 ug/ml of L-ascorbic acid 2-phosphate and trypsinized and passaged once for experimental settings.
Control scrambled shRNA transfected MSC sample
Primary human mesenchymal stem cells (MSC) expressing control (scrambled) shRNA. Transduced shRNA (5?-CCGGCCTAAGGTTAAGTCGCCCTCGCTCGAGCGAGGGCGACTTAACCTTAGGTTTTTG-3?) was integrated into the lentiviral vector pLKO.1 and total RNA was isolated on day four post-transduction. MSC were isolated from the femoral heads of trabecular bone obtained from middle to old age patients undergoing total hip arthroplasty. Cells were grown in growth medium containing 50 ug/ml of L-ascorbic acid 2-phosphate and trypsinized and passaged once for experimental settings.

breast cancer study 8 (metastatic) / normal breast tissue

Relative Expression (log2-ratio):-1.7922363
Number of Samples:2 / 4
Experimental breast cancer study 8 (metastatic)
Human metastatic infiltrating ductal carcinoma sample of the breast derived from lymph nodes of a female patient with breast cancer.
Control normal breast tissue
Normal human breast samples of healthy female individuals.

glioma study 17 (glioblastoma; A2B5+) / non-tumor oligodendrocyte progenitor cell sample (cortex)

Relative Expression (log2-ratio):1.7630548
Number of Samples:3 / 3
Experimental glioma study 17 (glioblastoma; A2B5+)
Oligodendrocyte progenitor cells (OPC) isolated from high grade glioblastoma (grade IV). OPC were isolated using magnetic-activated cell sorting (MACS) with antibodies against A2B5 antigen. Patients were 66 ? 5 years old males.
Control non-tumor oligodendrocyte progenitor cell sample (cortex)
Oligodendrocyte progenitor cells (OPC) isolated from cortical tissue, which was obtained from patients with epilepsy, but without any manifested brain cancer. OPC were isolated using magnetic-activated cell sorting (MACS) with antibodies against A2B5 antigen.

glioma study 17 ( small cell glioblastoma; unsorted) / non-tumor cortical tissue

Relative Expression (log2-ratio):1.6853638
Number of Samples:2 / 4
Experimental glioma study 17 ( small cell glioblastoma; unsorted)
Brain cells isolated from high grade small cell glioblastoma (grade IV). Tumor tissue was dissociated using enzymatic treatment and all cells were used for RNA isolation. Patients were 56 ? 3 years old males.
Control non-tumor cortical tissue
Cortical tissue obtained from patients with epilepsy, but without any manifested brain cancer. The tissue was dissociated using enzymatic treatment, but all brain cell types were used for analyses.

oncolytic herpes simplex virus study 2 / mock infected peripheral nerve sheath tumor (S462) cell sample

Relative Expression (log2-ratio):-1.6487103
Number of Samples:3 / 3
Experimental oncolytic herpes simplex virus study 2
Human malignant peripheral nerve sheath tumor (S462) cells infected with G207, an ICP34.5-deleted oncolytic herpes simplex virus (oHSV) for 6 hours.
Control mock infected peripheral nerve sheath tumor (S462) cell sample
Human malignant peripheral nerve sheath tumor (S462) cells mock infected for 6 hours.

breast cancer study 8 (primary) / normal breast tissue

Relative Expression (log2-ratio):-1.5993843
Number of Samples:13 / 4
Experimental breast cancer study 8 (primary)
Human primary infiltrating ductal carcinoma sample of a female patient with breast cancer.
Control normal breast tissue
Normal human breast samples of healthy female individuals.

retina pigment epithelium study 2 (fetal) / retina pigment epithelium study 1 (fetal)

Relative Expression (log2-ratio):1.3872089
Number of Samples:12 / 6
Experimental retina pigment epithelium study 2 (fetal)
Human cultured fetal retina pigment epithelium samples obtained at gestation age between week 16-18.
Control retina pigment epithelium study 1 (fetal)
Human native fetal retina pigment epithelium samples obtained at gestation age between week 16-18.

vMyb overexpr. study 1 (adenovirus) / control virus infected monocyte sample

Relative Expression (log2-ratio):-1.3812313
Number of Samples:2 / 2
Experimental vMyb overexpr. study 1 (adenovirus)
Approximately 1x10^6 monocytes were infected with adenovirus expressing v-Myb and GFP for 16 hours, then total RNA was isolated.
Control control virus infected monocyte sample
Approximately 1x10^6 monocytes were infected with control adenovirus expressing GFP for 16 hours, then total RNA was isolated.

wound healing study 2 (ex vivo; DMSO) / normal skin tissue (ex vivo)

Relative Expression (log2-ratio):-1.380846
Number of Samples:3 / 3
Experimental wound healing study 2 (ex vivo; DMSO)
Ex vivo skin samples obtained from healthy donors following reduction surgery of abdomen, and incubated in culture medium containing DMSO for 4 days. To make sure that mainly epidermis was present in the samples, as much dermal tissue as possible was removed by dissection. Skin was sliced into 1x10 mm slices and incubated in keratinocyte medium for four days with 1:1000 fold dilution of DMSO. The cultivation was performed in serum-free keratinocyte medium supplemented with transferrin, hEGF (0.15 ng/mL), 0.5 mg/mL hydrocortisone, gentamicin, amphotericin B, and epinephrine but without insulin.
Control normal skin tissue (ex vivo)
Normal skin samples obtained from healthy donors following reduction surgery of abdomen. To make sure that mainly epidermis was present in the samples, as much dermal tissue as possible was removed by dissection.