TOP TEN perturbations for 1553454_at (Homo sapiens)

Organism: Homo sapiens
Gene: 1553454_at
Selected probe(set): 1553454_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of 1553454_at (1553454_at) across 6672 perturbations tested by GENEVESTIGATOR:

gefitinib study 2 / wild type A431 cell sample

Relative Expression (log2-ratio):-7.951183
Number of Samples:3 / 3
Experimental gefitinib study 2
Gefitinib-resistant A431 (A431 GR) cells generated by growing parental cells in the presence of increasing concentrations of gefitinib up to 3 μM. Cells were selected and maintained in gefitinib (3μM). ATC code:
Control wild type A431 cell sample
A431 wild type cells.

keratinocyte differentiation study 2 (ZNF750 siRNA) / keratinocyte differentiation study 2

Relative Expression (log2-ratio):-4.777152
Number of Samples:2 / 2
Experimental keratinocyte differentiation study 2 (ZNF750 siRNA)
ZNF750 (zinc finger protein 750) 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. ZNF750 depletion was done using siRNAs: ZNF750i(A): CCACCAGAGTTTCCACATA, ZNF750i(B): GCCGATTCCTTACGGATTT. 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.

melanoma study 34 (metastatic) / melanoma study 34 (in situ)

Relative Expression (log2-ratio):-4.6656485
Number of Samples:40 / 2
Experimental melanoma study 34 (metastatic)
Metastatic tumor tissue sample obtained from the patients with metastatic malignant melanoma of the skin. Metastatic samples composed of 22 macroscopic lymph node metastases, 16 subcutaneous metastases and 2 solid organ metastases (adrenal and brain).
Control melanoma study 34 (in situ)
Tumor tissue from the skin of patients with melanoma in situ.

keratinocyte differentiation study 2 (KLF4 siRNA) / keratinocyte differentiation study 2

Relative Expression (log2-ratio):-4.389777
Number 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.

esophagus cancer study 1 (PDX; squamous cell carcinoma, NOS; primary) / esophagus cancer study 1 (PDX; adenocarcinoma, NOS; primary)

Relative Expression (log2-ratio):4.3727226
Number of Samples:3 / 8
Experimental esophagus cancer study 1 (PDX; squamous cell carcinoma, NOS; primary)
Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary squamous cell carcinoma, NOS of the oesophagus (subcutaneously implanted).
Control esophagus cancer study 1 (PDX; adenocarcinoma, NOS; primary)
Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary adenocarcinoma, NOS of the oesophagus (subcutaneously implanted).

smoking study 80 (small airway epith; CHTP1.2; 72h; 0.15mg/l) / smoking study 80 (small airway epith; 3R4F; 72h; 0.16mg/l)

Relative Expression (log2-ratio):-4.204458
Number of Samples:6 / 6
Experimental smoking study 80 (small airway epith; CHTP1.2; 72h; 0.15mg/l)
Organotypic human small airway epithelium culture 72 hours after exposure to 0.15 mg nicotine/l aerosol from a potential modified-risk tobacco product, carbon-heated tobacco product 1.2 (CHTP1.2). Organotypic small airway SmallAirTM cultures were consisted of bronchiolar cells derived from a healthy non-smoker 55-year old female, fully differentiated and cultured at the air-liquid interface (37°C, 5% CO2, 90% humidity) and maintained in the respective culture medium in 12-well culture plates (0.7 ml/well), with a medium change every 2 – 3 days, for a maximum of 12 days before exposure. After exposure, the medium was not changed until it was collected. The aerosol was generated according to the Health Canada Intense smoking protocol (a 55-mL puff over 2s, twice per minute with an 8-s pump exhaust time). Each CHTP1.2 stick was used for a total of 12 puffs per stick. The cultures were exposed to aerosol continuously for 28 minutes in smoking machine and 72 hours after aerosol exposure the cells were collected for RNA extraction.
Control smoking study 80 (small airway epith; 3R4F; 72h; 0.16mg/l)
Organotypic human small airway epithelium culture 72 hours after exposure to diluted mainstream cigarette smoke (0.16 mg nicotine/l) from 3R4F reference cigarettes. Organotypic small airway SmallAirTM cultures were consisted of bronchiolar cells derived from a healthy non-smoker 55-year old female, fully differentiated and cultured at the air-liquid interface (37°C, 5% CO2, 90% humidity) and maintained in the respective culture medium in 12-well culture plates (0.7 ml/well), with a medium change every 2 – 3 days, for a maximum of 12 days before exposure. After exposure, the medium was not changed until it was collected. The smoke was generated according to the Health Canada Intense smoking protocol (a 55-mL puff over 2s, twice per minute with an 8-s pump exhaust time). Each 3R4F cigarette was smoked to a defined standard butt length (approximately 35 mm), yielding approximately 10 – 11 puffs per stick. The cultures were exposed to smoke continuously for 28 minutes in smoking machine and 72 hours after smoke exposure the cells were collected for RNA extraction.

smoking study 80 (small airway epith; 3R4F; 72h; 0.16mg/l) / air exposed organotypic small airway epithelium culture sample (72h; 3R4F)

Relative Expression (log2-ratio):4.1093283
Number of Samples:6 / 6
Experimental smoking study 80 (small airway epith; 3R4F; 72h; 0.16mg/l)
Organotypic human small airway epithelium culture 72 hours after exposure to diluted mainstream cigarette smoke (0.16 mg nicotine/l) from 3R4F reference cigarettes. Organotypic small airway SmallAirTM cultures were consisted of bronchiolar cells derived from a healthy non-smoker 55-year old female, fully differentiated and cultured at the air-liquid interface (37°C, 5% CO2, 90% humidity) and maintained in the respective culture medium in 12-well culture plates (0.7 ml/well), with a medium change every 2 – 3 days, for a maximum of 12 days before exposure. After exposure, the medium was not changed until it was collected. The smoke was generated according to the Health Canada Intense smoking protocol (a 55-mL puff over 2s, twice per minute with an 8-s pump exhaust time). Each 3R4F cigarette was smoked to a defined standard butt length (approximately 35 mm), yielding approximately 10 – 11 puffs per stick. The cultures were exposed to smoke continuously for 28 minutes in smoking machine and 72 hours after smoke exposure the cells were collected for RNA extraction.
Control air exposed organotypic small airway epithelium culture sample (72h; 3R4F)
Organotypic human small airway epithelium culture 72 hours after exposure to conditioned fresh air. Organotypic small airway SmallAirTM cultures were consisted of bronchiolar cells derived from a healthy non-smoker 55-year old female, fully differentiated and cultured at the air-liquid interface (37°C, 5% CO2, 90% humidity) and maintained in the respective culture medium in 12-well culture plates (0.7 ml/well), with a medium change every 2 – 3 days, for a maximum of 12 days before exposure. After exposure, the medium was not changed until it was collected. The cultures were exposed to conditioned fresh air continuously for 28 minutes. These samples represented control samples for 3R4F smoke exposure at timepoint 72 hours after exposure.

smoking study 80 (small airway epith; 3R4F; 72h; 0.16mg/l) / smoking study 80 (small airway epith; 3R4F; 4h; 0.16mg/l)

Relative Expression (log2-ratio):4.0888977
Number of Samples:6 / 6
Experimental smoking study 80 (small airway epith; 3R4F; 72h; 0.16mg/l)
Organotypic human small airway epithelium culture 72 hours after exposure to diluted mainstream cigarette smoke (0.16 mg nicotine/l) from 3R4F reference cigarettes. Organotypic small airway SmallAirTM cultures were consisted of bronchiolar cells derived from a healthy non-smoker 55-year old female, fully differentiated and cultured at the air-liquid interface (37°C, 5% CO2, 90% humidity) and maintained in the respective culture medium in 12-well culture plates (0.7 ml/well), with a medium change every 2 – 3 days, for a maximum of 12 days before exposure. After exposure, the medium was not changed until it was collected. The smoke was generated according to the Health Canada Intense smoking protocol (a 55-mL puff over 2s, twice per minute with an 8-s pump exhaust time). Each 3R4F cigarette was smoked to a defined standard butt length (approximately 35 mm), yielding approximately 10 – 11 puffs per stick. The cultures were exposed to smoke continuously for 28 minutes in smoking machine and 72 hours after smoke exposure the cells were collected for RNA extraction.
Control smoking study 80 (small airway epith; 3R4F; 4h; 0.16mg/l)
Organotypic human small airway epithelium culture 4 hours after exposure to diluted mainstream cigarette smoke (0.16 mg nicotine/l) from 3R4F reference cigarettes. Organotypic small airway SmallAirTM cultures were consisted of bronchiolar cells derived from a healthy non-smoker 55-year old female, fully differentiated and cultured at the air-liquid interface (37°C, 5% CO2, 90% humidity) and maintained in the respective culture medium in 12-well culture plates (0.7 ml/well), with a medium change every 2 – 3 days, for a maximum of 12 days before exposure. After exposure, the medium was not changed until it was collected. The smoke was generated according to the Health Canada Intense smoking protocol (a 55-mL puff over 2s, twice per minute with an 8-s pump exhaust time). Each 3R4F cigarette was smoked to a defined standard butt length (approximately 35 mm), yielding approximately 10 – 11 puffs per stick. The cultures were exposed to smoke continuously for 28 minutes in smoking machine and 4 hours after smoke exposure the cells were collected for RNA extraction.

nasopharyngeal carcinoma study 1 / normal nasopharyngeal epithelium sample

Relative Expression (log2-ratio):-4.0769587
Number of Samples:31 / 3
Experimental nasopharyngeal carcinoma study 1
Nasopharyngeal epithelium from Asian patients with nasopharyngeal carcinoma.
Control normal nasopharyngeal epithelium sample
Nasopharyngeal epithelium from healthy subjects.

skin transplantation study 1 (3d) / split-thickness skin grafting study 1

Relative Expression (log2-ratio):4.062892
Number of Samples:6 / 6
Experimental skin transplantation study 1 (3d)
Human skin punch biopsy from patients after skin grafting. Sample was taken at the site of re-epithelialization 3 days after surgery.
Control split-thickness skin grafting study 1
Skin punch biopsy from patients with skin injury (burn injury, congelation, wound, compartment syndrome) immediately after split-thickness skin grafting was done. Sample was taken from the acute wound after grafting.