TOP TEN perturbations for NM_000059 (Homo sapiens)

Organism: Homo sapiens
Gene: NM_000059
Selected probe(set): 214727_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of NM_000059 (214727_at) across 5392 perturbations tested by GENEVESTIGATOR:

nutlin-3 study 2 (control vector; 10uM) / vehicle treated MCF-7-con cell sample

Relative Expression (log2-ratio):-4.084482
Number of Samples:6 / 3
Experimental nutlin-3 study 2 (control vector; 10uM)
Human breast adenocarcinoma cells MCF-7 expressing wild type p53, stably transfected with control empty vector pSUPER, treated with nutlin-3 (10 uM) for 48 hours. Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin. ATC code:---
Control vehicle treated MCF-7-con cell sample
Human breast adenocarcinoma cells MCF-7 expressing wild type p53 stably transfected with control empty vector pSUPER, vehicle treated with DMSO (0.1%) for 48 hours. Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin.

nutlin-3 (10uM); flagellin (500 ng/ml) study 1 (control vector) / flagellin study 4 (control vector; 500 ng/ml)

Relative Expression (log2-ratio):-3.9090462
Number of Samples:6 / 2
Experimental nutlin-3 (10uM); flagellin (500 ng/ml) study 1 (control vector)
Human breast adenocarcinoma cells MCF-7 expressing wild type p53, stably transfected with control empty vector pSUPER, treated with nutlin-3 (10 uM) for 45 hours followed by an additional 3 hours treatment of nutlin-3 (10uM) and flagellin (500 ng/ml). Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin. ATC code:---
Control flagellin study 4 (control vector; 500 ng/ml)
Human breast adenocarcinoma cells MCF-7 expressing wild type p53, stably transfected with control empty vector pSUPER, treated with DMSO 0.1% for 45 hours followed by an additional 3 hours with flagellin (500 ng/ml). Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin.

nutlin-3 study 2 (p53 shRNA;10uM) / nutlin-3 study 2 (control vector; 10uM)

Relative Expression (log2-ratio):3.6581192
Number of Samples:3 / 6
Experimental nutlin-3 study 2 (p53 shRNA;10uM)
Human breast adenocarcinoma cells MCF-7 with depleted p53 (shRNA), treated with nutlin-3 (10 uM) for 48 hours. Cells were stably transfected with vector pSUPER and expressing shRNA to p53. Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin. ATC code:---
Control nutlin-3 study 2 (control vector; 10uM)
Human breast adenocarcinoma cells MCF-7 expressing wild type p53, stably transfected with control empty vector pSUPER, treated with nutlin-3 (10 uM) for 48 hours. Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin. ATC code:---

sangivamycin study 1 / untreated MCF-7 cell sample

Relative Expression (log2-ratio):-3.5849705
Number of Samples:2 / 2
Experimental sangivamycin study 1
MCF7 cells treated with 2uM sangivamycin for 24 hours. ATC code:---
Control untreated MCF-7 cell sample
MCF-7 cells untreated.

C. difficile study 1 (TcdA; 24h) / untreated HCT 8 cell sample

Relative Expression (log2-ratio):-3.4569702
Number of Samples:2 / 2
Experimental C. difficile study 1 (TcdA; 24h)
HCT 8 cells were treated with 100 ng/ml Toxin A (TcdA) isolated from Clostridium difficile strain VPI-10643 in RPMI-1640 supplemented with 10% heat-inactivated fetal bovine serum and 1mM sodium pyruvate for 24 hours.
Control untreated HCT 8 cell sample
Untreated HCT 8 cell sample cultured in RPMI-1640 supplemented with 10% heat-inactivated fetal bovine serum and 1mM sodium pyruvate for 24 hours.

nutlin-3 (10uM); flagellin (500 ng/ml) study 1 (p53 shRNA) / nutlin-3 (10uM); flagellin (500 ng/ml) study 1 (control vector)

Relative Expression (log2-ratio):3.3013353
Number of Samples:3 / 6
Experimental nutlin-3 (10uM); flagellin (500 ng/ml) study 1 (p53 shRNA)
Human breast adenocarcinoma cells MCF-7 with depleted p53 (shRNA), treated with nutlin-3 (10 uM) for 45 hours followed by an additional 3 hours treatment of nutlin-3 (10 uM) and flagellin (500 ng/ml). Cells were stably transfected with vector pSUPER and expressing shRNA to p53. Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin. ATC code:---
Control nutlin-3 (10uM); flagellin (500 ng/ml) study 1 (control vector)
Human breast adenocarcinoma cells MCF-7 expressing wild type p53, stably transfected with control empty vector pSUPER, treated with nutlin-3 (10 uM) for 45 hours followed by an additional 3 hours treatment of nutlin-3 (10uM) and flagellin (500 ng/ml). Cells were cultured in RPMI-1640 medium supplemented with 10% heat inactivated FBS and 50 U/ml of penicillin, 50 ug/ml of streptomycin. ATC code:---

C. difficile study 1 (TcdB; 24h) / untreated HCT 8 cell sample

Relative Expression (log2-ratio):-3.2329826
Number of Samples:2 / 2
Experimental C. difficile study 1 (TcdB; 24h)
HCT 8 cells were treated with 100 ng/ml Toxin B (TcdB) isolated from Clostridium difficile strain VPI-10643 in RPMI-1640 supplemented with 10% heat-inactivated fetal bovine serum and 1mM sodium pyruvate for 24 hours.
Control untreated HCT 8 cell sample
Untreated HCT 8 cell sample cultured in RPMI-1640 supplemented with 10% heat-inactivated fetal bovine serum and 1mM sodium pyruvate for 24 hours.

doxorubicin study 3 / untreated MCF-7 cell sample

Relative Expression (log2-ratio):-3.1571426
Number of Samples:2 / 2
Experimental doxorubicin study 3
MCF7 cells treated with 2uM doxorubicin for 24 hours. ATC code:
Control untreated MCF-7 cell sample
MCF-7 cells untreated.

glioma study 16 (LN-18) / normal astrocyte sample

Relative Expression (log2-ratio):3.0476127
Number of Samples:2 / 3
Experimental glioma study 16 (LN-18)
Human glioma cell line LN018 was cultured in DMEM supplemented with 10% FCS (fetal calf serum) and antibiotics at 37C and 5% CO2.
Control normal astrocyte sample
Normal brain astrocytes. Clonetics normal human astrocytes (NHA) from Cambrex (primary-derived cultures) and cultured according to the manufacturer's recommendations.

stem cell differentiation study 50 (IRF6 shRNA; ASC; proerythroblast) / stem cell differentiation study 50 (mock shRNA; ASC; proerythroblast)

Relative Expression (log2-ratio):-2.901535
Number of Samples:3 / 4
Experimental stem cell differentiation study 50 (IRF6 shRNA; ASC; proerythroblast)
Proerythroblast differentiated from IRF6 (interferon regulatory factor 6) shRNA transduced hematopoietic stem/progenitor cells (CD34+). CD34+ hematopoietic stem/progenitor cells (HSC) were transduced with lentivirus expressing shRNA targeting IRF6 gene with following differentiation to the erythroid lineage. HSCs were obtained from magnetically sorted G-CSF mobilized peripheral blood mononuclear cells of healthy donors. Cells were expanded in StemSpan SFEM medium supplied with Flt-3 ligand (100 ng/ml), SCF (100 ng/ml), IL-3 (20 ng/ml), IL-6 (20 ng/ml) and penicillin/streptomycin. Cells were harvested for total RNA extraction at the proerythroblast stage of differentiation.
Control stem cell differentiation study 50 (mock shRNA; ASC; proerythroblast)
Proerythroblast differentiated from control shRNA transduced hematopoietic stem/progenitor cells (CD34+). CD34+ hematopoietic stem/progenitor cells (HSC) were transduced with lentivirus expressing control shRNA with following differentiation to the erythroid lineage. HSCs were obtained from magnetically sorted G-CSF mobilized peripheral blood mononuclear cells of healthy donors. Cells were expanded in StemSpan SFEM medium supplied with Flt-3 ligand (100 ng/ml), SCF (100 ng/ml), IL-3 (20 ng/ml), IL-6 (20 ng/ml) and penicillin/streptomycin. Cells were harvested for total RNA extraction at the proerythroblast stage of differentiation.