TOP TEN perturbations for 1552396_at (Homo sapiens)

Organism: Homo sapiens
Gene: 1552396_at
Selected probe(set): 206319_s_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of 1552396_at (206319_s_at) across 6672 perturbations tested by GENEVESTIGATOR:

male infertility study 1 (juvenile; Ad-) / normal testicular lobules tissue (mJS10)

Relative Expression (log2-ratio):-5.8031597
Number of Samples:2 / 8
Experimental male infertility study 1 (juvenile; Ad-)
Human testicular lobules biopsy samples isolated from prepubescent patients with undescended testes. Testes of these children contained very low level of A-dark (Ad-) spermatogonial cells.
Control normal testicular lobules tissue (mJS10)
Biopsies of human testicular lobules isolated from fertile vasectomized adult men with normal spermatogenesis. Histological analysis classified samples as mJS10 (modified Johnsen score 10).

male infertility study 1 (juvenile; Ad+) / normal testicular lobules tissue (mJS10)

Relative Expression (log2-ratio):-5.544426
Number of Samples:5 / 8
Experimental male infertility study 1 (juvenile; Ad+)
Human testicular lobules biopsy samples isolated from prepubescent patients with undescended testes. Testes of these children contained typical level of A-dark (Ad+) spermatogonial cells.
Control normal testicular lobules tissue (mJS10)
Biopsies of human testicular lobules isolated from fertile vasectomized adult men with normal spermatogenesis. Histological analysis classified samples as mJS10 (modified Johnsen score 10).

bronchial epithelial cell differentiation study 1 (day28) / bronchial epithelial cell differentiation study 1 (subconfluent)

Relative Expression (log2-ratio):5.16686
Number of Samples:3 / 3
Experimental bronchial epithelial cell differentiation study 1 (day28)
Differentiated normal human bronchial epithelial cell (NHBE) cultured for 28 days in an air-liquid interface (ALI) system. At this time point cells were fully differentiated and formed a polarized, pseudostratified mucociliary epithelium. In order to generate the ALI culture, undifferentiated cells were grown under submerged conditions in bronchial air-liquid interface (B-ALI) growth basal medium supplemented with expansion media. When cells reached confluency (after 3-5 days), an air-liquid interface culture (ALI system) was created by removing the apical medium and replacing the medium of the basal compartment with B-ALI differentiation medium. During the 28 days culture medium was replaced every 48 hour.
Control bronchial epithelial cell differentiation study 1 (subconfluent)
Subconfluent undifferentiated normal human bronchial epithelial cell (NHBE) cultured for 1-2 days under submerged conditions in bronchial air-liquid interface (B-ALI) growth basal medium supplemented with expansion media. At this time point cells still grew dispersed in the culture insert and covered 70% of the insert.

bronchial epithelial cell differentiation study 1 (day28) / bronchial epithelial cell differentiation study 1 (confluent)

Relative Expression (log2-ratio):5.101232
Number of Samples:3 / 3
Experimental bronchial epithelial cell differentiation study 1 (day28)
Differentiated normal human bronchial epithelial cell (NHBE) cultured for 28 days in an air-liquid interface (ALI) system. At this time point cells were fully differentiated and formed a polarized, pseudostratified mucociliary epithelium. In order to generate the ALI culture, undifferentiated cells were grown under submerged conditions in bronchial air-liquid interface (B-ALI) growth basal medium supplemented with expansion media. When cells reached confluency (after 3-5 days), an air-liquid interface culture (ALI system) was created by removing the apical medium and replacing the medium of the basal compartment with B-ALI differentiation medium. During the 28 days culture medium was replaced every 48 hour.
Control bronchial epithelial cell differentiation study 1 (confluent)
Confluent undifferentiated normal human bronchial epithelial cell (NHBE) cultured for 3-5 days under submerged conditions in bronchial air-liquid interface (B-ALI) growth basal medium supplemented with expansion media. At this time point cells formed a monolayer covering the whole surface of the insert.

transwell differentiation study 1 (TEER mid) / untreated MCF10A cell sample

Relative Expression (log2-ratio):2.0431442
Number of Samples:3 / 3
Experimental transwell differentiation study 1 (TEER mid)
MCF10A cells were plated onto polyester permeable supports (Transwells) at a density of 10^5 cells/cm^2. Midpoint represents those plates with a mid trans-epithelial electrical resistance (TEER) of 1400-1600 Ohms x cm^2.
Control untreated MCF10A cell sample
MCF10A cells grown to confluency on sterile plastic.

chronic obstructive pulmonary disease study 30 / normal nasal epithelium tissue (never-smoker)

Relative Expression (log2-ratio):1.9496193
Number of Samples:50 / 54
Experimental chronic obstructive pulmonary disease study 30
Nasal epithelium obtained from patients who suffered from COPD GOLD I or II (mild-to-moderate COPD) and were current smokers. Subjects had early-stage COPD (FEV during the first second [FEV1]/ forced vital capacity [FVC] 70 %) and had a smoking history of at least 10 pack/years. Subjects in each of the groups were matched to subjects in the COPD group by age (±5 years), ethnicity, and sex using a match ID.
Control normal nasal epithelium tissue (never-smoker)
Nasal epithelium obtained from never smokers (NS). Subjects in each of the groups were matched to subjects in the COPD group by age (±5 years), ethnicity, and sex using a match ID.

transwell differentiation study 1 (TEER base) / untreated MCF10A cell sample

Relative Expression (log2-ratio):1.9343901
Number of Samples:3 / 3
Experimental transwell differentiation study 1 (TEER base)
MCF10A cells were plated onto polyester permeable supports (Transwells) at a density of 10^5 cells/cm^2. Base represents those plates with a low trans-epithelial electrical resistance (TEER) of 200-300 Ohms x cm^2.
Control untreated MCF10A cell sample
MCF10A cells grown to confluency on sterile plastic.

smoking study 83 (smoker) / untreated lung epithelial culture sample (smoker)

Relative Expression (log2-ratio):-1.9200077
Number of Samples:2 / 2
Experimental smoking study 83 (smoker)
Air-liquid interface lung epithelial culture exposed to cigarette smoke (30 mins exposure on four separate days). Lung epithelial cells were isolated from smokers and cultures were placed in smoking chambers with basal surface in contact with media. They were continually exposed to smoke (from filtered Kentucky reference (3R4F) cigarettes) for 30mins on days 1, 2, 5 and 6 (smoke/air dilution of 1:10 or 1:20).
Control untreated lung epithelial culture sample (smoker)
Untreated air-liquid interface lung epithelial culture. Lung epithelial cells were isolated from smokers and cultures were maintained in proprietary media.

mechanical injury study 1 (smoker; 7d) / mechanical injury study 1 (smoker; 0d)

Relative Expression (log2-ratio):-1.7857685
Number of Samples:4 / 6
Experimental mechanical injury study 1 (smoker; 7d)
Bronchial epithelial cells of the large (2nd - 3rd order) bronchi from healthy smokers were sampled 7 days after mechanical injury by airway brushing during bronchoscopy. Disposable brushes (2.0 mm) were used to injure airway epithelial cells by gently gliding the brush back and forth 10 times in different locations in the same general area. Individuals were determined to be phenotypically normal based on standard history, physical exam, complete blood count, coagulation studies, liver function tests, urine studies, chest X-ray, EKG, and pulmonary function tests.
Control mechanical injury study 1 (smoker; 0d)
Bronchial epithelial cells of the large (2nd - 3rd order) bronchi from healthy smokers were sampled at rest before airway brushing (day 0). Disposable brushes (2.0 mm) were used to injure airway epithelial cells by gently gliding the brush back and forth 10 times in different locations in the same general area. Individuals were determined to be phenotypically normal based on standard history, physical exam, complete blood count, coagulation studies, liver function tests, urine studies, chest X-ray, EKG, and pulmonary function tests.

smoking study 57 (24 hrs) / normal sham-exposed nasal epithelial cell sample

Relative Expression (log2-ratio):-1.7602196
Number of Samples:3 / 3
Experimental smoking study 57 (24 hrs)
Nasal epithelium organotypic tissue culture harvested 24 hours (recovery phase) after 4 repetitive exposures to 16% (vol/vol) mainstream cigarette smoke (one 3R4F reference cigarette pro exposure), with 1 hour rest between each treatment. Exposure was performed directly at the air/liquid interface and culture medium was replaced immediately after treatment. The 3D tissue model was generated from primary human nasal epithelial cells derived from a 54 years old Caucasian non-smoking female donor co-cultured with primary human airway fibroblasts.
Control normal sham-exposed nasal epithelial cell sample
Nasal epithelium organotypic tissue culture harvested 24 hours (recovery phase) after 4 single exposures to 100% humidified air (with 60% humidity), with 1 hour rest between each treatment. Exposure was performed directly at the air/liquid interface and culture medium was replaced immediately after treatment. The 3D tissue model was generated from primary human nasal epithelial cells derived from a 54 years old Caucasian non-smoking female donor co-cultured with primary human airway fibroblasts. The organotypic tissue culture model was maintained for 14 days at 37°C and culture medium replaced every 2 days.

Organism: Homo sapiens
Gene: 1552396_at
Selected probe(set): 1552396_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of 1552396_at (1552396_at) across 6672 perturbations tested by GENEVESTIGATOR:

smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l) / air exposed organotypic small airway epithelium culture sample (24h; 3R4F)

Relative Expression (log2-ratio):-1.4148569
Number of Samples:5 / 5
Experimental smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)
Organotypic human small airway epithelium culture 24 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 24 hours after smoke exposure the cells were collected for RNA extraction.
Control air exposed organotypic small airway epithelium culture sample (24h; 3R4F)
Organotypic human small airway epithelium culture 24 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 24 hours after exposure.

mechanical injury study 1 (smoker; 7d) / mechanical injury study 1 (smoker; 0d)

Relative Expression (log2-ratio):-1.3688326
Number of Samples:4 / 6
Experimental mechanical injury study 1 (smoker; 7d)
Bronchial epithelial cells of the large (2nd - 3rd order) bronchi from healthy smokers were sampled 7 days after mechanical injury by airway brushing during bronchoscopy. Disposable brushes (2.0 mm) were used to injure airway epithelial cells by gently gliding the brush back and forth 10 times in different locations in the same general area. Individuals were determined to be phenotypically normal based on standard history, physical exam, complete blood count, coagulation studies, liver function tests, urine studies, chest X-ray, EKG, and pulmonary function tests.
Control mechanical injury study 1 (smoker; 0d)
Bronchial epithelial cells of the large (2nd - 3rd order) bronchi from healthy smokers were sampled at rest before airway brushing (day 0). Disposable brushes (2.0 mm) were used to injure airway epithelial cells by gently gliding the brush back and forth 10 times in different locations in the same general area. Individuals were determined to be phenotypically normal based on standard history, physical exam, complete blood count, coagulation studies, liver function tests, urine studies, chest X-ray, EKG, and pulmonary function tests.

smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l) / air exposed organotypic nasal epithelium culture sample (24h; 3R4F)

Relative Expression (log2-ratio):-1.3667812
Number of Samples:8 / 8
Experimental smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l)
Organotypic human nasal epithelium culture 24 hours after exposure to diluted mainstream cigarette smoke (0.15 mg nicotine/l) from 3R4F reference cigarettes. Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after smoke exposure the cells were collected for RNA extraction.
Control air exposed organotypic nasal epithelium culture sample (24h; 3R4F)
Organotypic human nasal epithelium culture 24 hours after exposure to conditioned fresh air. Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after exposure.

smoking study 80 (small airway epith; CHTP1.2; 24h; 0.15mg/l) / smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)

Relative Expression (log2-ratio):1.3661804
Number of Samples:6 / 5
Experimental smoking study 80 (small airway epith; CHTP1.2; 24h; 0.15mg/l)
Organotypic human small airway epithelium culture 24 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 24 hours after aerosol exposure the cells were collected for RNA extraction.
Control smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)
Organotypic human small airway epithelium culture 24 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 24 hours after smoke exposure the cells were collected for RNA extraction.

smoking study 80 (nasal epith; CHTP1.2; 24h; 0.14mg/l) / smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l)

Relative Expression (log2-ratio):1.3120842
Number of Samples:9 / 8
Experimental smoking study 80 (nasal epith; CHTP1.2; 24h; 0.14mg/l)
Organotypic human nasal epithelium culture 24 hours after exposure to 0.14 mg nicotine/l aerosol from a potential modified-risk tobacco product, carbon-heated tobacco product 1.2 (CHTP1.2). Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after aerosol exposure the cells were collected for RNA extraction.
Control smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l)
Organotypic human nasal epithelium culture 24 hours after exposure to diluted mainstream cigarette smoke (0.15 mg nicotine/l) from 3R4F reference cigarettes. Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after smoke exposure the cells were collected for RNA extraction.

smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l) / smoking study 80 (small airway epith; 3R4F; 4h; 0.16mg/l)

Relative Expression (log2-ratio):-1.2299213
Number of Samples:5 / 6
Experimental smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)
Organotypic human small airway epithelium culture 24 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 24 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.

smoking study 55 (24 hrs) / smoking study 55 (baseline)

Relative Expression (log2-ratio):-1.1669941
Number of Samples:3 / 3
Experimental smoking study 55 (24 hrs)
Bronchial epithelium organotypic tissue culture harvested 24 hours (recovery phase) after 4 repetitive exposures to 16% (vol/vol) mainstream cigarette smoke (one 3R4F reference cigarette pro exposure), with 1 hour rest between each treatment. Exposure was performed directly at the air/liquid interface and culture medium was replaced immediately after treatment. The 3D tissue model was generated from primary human respiratory epithelial cells derived from a 67 years old Caucasian non-smoking female donor co-cultured with primary human airway fibroblasts.
Control smoking study 55 (baseline)
Bronchial epithelium organotypic tissue culture harvested immediately after 4 repetitive exposures to 16% (vol/vol) mainstream cigarette smoke (one 3R4F reference cigarette pro exposure), with 1 hour rest between each treatment. Exposure was performed directly at the air/liquid interface and culture medium was replaced immediately after treatment. The 3D tissue model was generated from primary human respiratory epithelial cells derived from a 67 years old Caucasian non-smoking female donor co-cultured with primary human airway fibroblasts.

chronic obstructive pulmonary disease study 13 / normal small airway epithelial cell sample

Relative Expression (log2-ratio):-1.160469
Number of Samples:12 / 30
Experimental chronic obstructive pulmonary disease study 13
Small airway epithelial cell samples (10th - 12th generation) obtained during fiberoptic bronchoscopy by brushing from patients with chronic obstructive pulmonary disease (COPD). Patients were current daily smokers with any number of pack-yr and met GOLD (stages I-III) criteria for COPD based on post-bronchodilator spirometry. Inclusion criteria: smoking status was evaluated with urine nicotine (>30 ng/ml) or cotinine (>50 ng/ml) level, taking any or no pulmonary-related medication (beta-agonists, anticholinergics/inhaled corticosteroids), normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal electrocardiogram, no history of allergies to medications used in the bronchoscopy. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, current alcohol or drug abuse, evidence of malignancy within the past 5 years and predicted progression of patient´s disease influenced by participation in the study.
Control normal small airway epithelial cell sample
Small airway epithelial cell samples (10th - 12th generation) obtained during fiberoptic bronchoscopy by brushing from healthy non-smoking subjects. Inclusion criteria: good health without history of chronic lung disease (for example asthma, recurrent or recent acute pulmonary disease), non-smokers – smoking status evaluated by the absence of nicotine metabolites in urine, normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal chest X-ray, normal electrocardiogram, no history of allergies to medications used in the bronchoscopy, without taking any medications relevant to lung disease or having effect on the airway epithelium. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, current alcohol or drug abuse, evidence of malignancy within the past 5 years.

chronic obstructive pulmonary disease study 9 / normal small airway epithelial cell sample

Relative Expression (log2-ratio):-1.1304092
Number of Samples:26 / 37
Experimental chronic obstructive pulmonary disease study 9
Small airway epithelial cell samples (10th - 12th generation) obtained during fiberoptic bronchoscopy by brushing from patients with chronic obstructive pulmonary disease (COPD). Patients were smokers. Patients were current daily smokers with any number of pack-yr and met GOLD (stages I-III) criteria for COPD based on post-bronchodilator spirometry. Inclusion criteria: taking any or no pulmonary-related medication (beta-agonists, anticholinergics/inhaled corticosteroids), normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal electrocardiogram, no history of allergies to medications used in the bronchoscopy. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, current alcohol or drug abuse, evidence of malignancy within the past 5 years and predicted progression of patient´s disease influenced by participation in the study.
Control normal small airway epithelial cell sample
Small airway epithelial cell samples (10th - 12th generation) obtained after brushing by fiberoptic bronchoscopy from healthy non-smoking subjects. Inclusion criteria: good health without history of chronic lung disease (for example asthma, recurrent or recent acute pulmonary disease), self-reported non-smokers – smoking status evaluated by the absence of nicotine and cotinine metabolites in urine, normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal level of alpha-antitrypsin, normal chest X-ray, normal electrocardiogram, normal lung function, no history of allergies to medications used in the bronchoscopy, without taking any medications relevant to lung disease or having effect on the airway epithelium. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, alcohol or drug abuse within the past 6 months, evidence of malignancy within the past 5 years.

smoking study 66 (48h) / normal sham-exposed nasal organotypic tissue

Relative Expression (log2-ratio):-1.0629969
Number of Samples:3 / 3
Experimental smoking study 66 (48h)
Human nasal organotypic tissue culture exposed at the air-liquid interface to 16.7% (vol/vol) mainstream cigarette smoke of 4 cigarettes (3R4F, 6-7 minutes each) followed by fresh culture medium incubation for 48 hours. Cigarettes were smoked on a 30-port carousel smoking machine according to health Canada regimen with 1 hour rest between each cigarette. Organotypic culture consisted in a co-culture of primary nasal respiratory epithelial cells derived from a healthy nonsmoking 65-year-old Caucasian male and primary airway fibroblasts derived from a healthy nonsmoking 61-year-old Caucasian male.
Control normal sham-exposed nasal organotypic tissue
Human nasal organotypic tissue culture exposed at the air-liquid interface to 60% humidified air (4 exposure with 1 hour rest between each treatment) followed by fresh culture medium incubation for 48 hours. Organotypic culture consisted in a co-culture of primary nasal respiratory epithelial cells derived from a healthy nonsmoking 65-year-old Caucasian male and primary airway fibroblasts derived from a healthy nonsmoking 61-year-old Caucasian male.

Organism: Homo sapiens
Gene: 1552396_at
Selected probe(set): 1552396_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of 1552396_at (1552396_at) across 6672 perturbations tested by GENEVESTIGATOR:

smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l) / air exposed organotypic small airway epithelium culture sample (24h; 3R4F)

Relative Expression (log2-ratio):-1.4148569
Number of Samples:5 / 5
Experimental smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)
Organotypic human small airway epithelium culture 24 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 24 hours after smoke exposure the cells were collected for RNA extraction.
Control air exposed organotypic small airway epithelium culture sample (24h; 3R4F)
Organotypic human small airway epithelium culture 24 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 24 hours after exposure.

mechanical injury study 1 (smoker; 7d) / mechanical injury study 1 (smoker; 0d)

Relative Expression (log2-ratio):-1.3688326
Number of Samples:4 / 6
Experimental mechanical injury study 1 (smoker; 7d)
Bronchial epithelial cells of the large (2nd - 3rd order) bronchi from healthy smokers were sampled 7 days after mechanical injury by airway brushing during bronchoscopy. Disposable brushes (2.0 mm) were used to injure airway epithelial cells by gently gliding the brush back and forth 10 times in different locations in the same general area. Individuals were determined to be phenotypically normal based on standard history, physical exam, complete blood count, coagulation studies, liver function tests, urine studies, chest X-ray, EKG, and pulmonary function tests.
Control mechanical injury study 1 (smoker; 0d)
Bronchial epithelial cells of the large (2nd - 3rd order) bronchi from healthy smokers were sampled at rest before airway brushing (day 0). Disposable brushes (2.0 mm) were used to injure airway epithelial cells by gently gliding the brush back and forth 10 times in different locations in the same general area. Individuals were determined to be phenotypically normal based on standard history, physical exam, complete blood count, coagulation studies, liver function tests, urine studies, chest X-ray, EKG, and pulmonary function tests.

smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l) / air exposed organotypic nasal epithelium culture sample (24h; 3R4F)

Relative Expression (log2-ratio):-1.3667812
Number of Samples:8 / 8
Experimental smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l)
Organotypic human nasal epithelium culture 24 hours after exposure to diluted mainstream cigarette smoke (0.15 mg nicotine/l) from 3R4F reference cigarettes. Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after smoke exposure the cells were collected for RNA extraction.
Control air exposed organotypic nasal epithelium culture sample (24h; 3R4F)
Organotypic human nasal epithelium culture 24 hours after exposure to conditioned fresh air. Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after exposure.

smoking study 80 (small airway epith; CHTP1.2; 24h; 0.15mg/l) / smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)

Relative Expression (log2-ratio):1.3661804
Number of Samples:6 / 5
Experimental smoking study 80 (small airway epith; CHTP1.2; 24h; 0.15mg/l)
Organotypic human small airway epithelium culture 24 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 24 hours after aerosol exposure the cells were collected for RNA extraction.
Control smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)
Organotypic human small airway epithelium culture 24 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 24 hours after smoke exposure the cells were collected for RNA extraction.

smoking study 80 (nasal epith; CHTP1.2; 24h; 0.14mg/l) / smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l)

Relative Expression (log2-ratio):1.3120842
Number of Samples:9 / 8
Experimental smoking study 80 (nasal epith; CHTP1.2; 24h; 0.14mg/l)
Organotypic human nasal epithelium culture 24 hours after exposure to 0.14 mg nicotine/l aerosol from a potential modified-risk tobacco product, carbon-heated tobacco product 1.2 (CHTP1.2). Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after aerosol exposure the cells were collected for RNA extraction.
Control smoking study 80 (nasal epith; 3R4F; 24h; 0.15mg/l)
Organotypic human nasal epithelium culture 24 hours after exposure to diluted mainstream cigarette smoke (0.15 mg nicotine/l) from 3R4F reference cigarettes. Organotypic nasal MucilAirTM cultures were consisted of nasal epithelial cells derived from a healthy non-smoker 41-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 24 hours after smoke exposure the cells were collected for RNA extraction.

smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l) / smoking study 80 (small airway epith; 3R4F; 4h; 0.16mg/l)

Relative Expression (log2-ratio):-1.2299213
Number of Samples:5 / 6
Experimental smoking study 80 (small airway epith; 3R4F; 24h; 0.16mg/l)
Organotypic human small airway epithelium culture 24 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 24 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.

smoking study 55 (24 hrs) / smoking study 55 (baseline)

Relative Expression (log2-ratio):-1.1669941
Number of Samples:3 / 3
Experimental smoking study 55 (24 hrs)
Bronchial epithelium organotypic tissue culture harvested 24 hours (recovery phase) after 4 repetitive exposures to 16% (vol/vol) mainstream cigarette smoke (one 3R4F reference cigarette pro exposure), with 1 hour rest between each treatment. Exposure was performed directly at the air/liquid interface and culture medium was replaced immediately after treatment. The 3D tissue model was generated from primary human respiratory epithelial cells derived from a 67 years old Caucasian non-smoking female donor co-cultured with primary human airway fibroblasts.
Control smoking study 55 (baseline)
Bronchial epithelium organotypic tissue culture harvested immediately after 4 repetitive exposures to 16% (vol/vol) mainstream cigarette smoke (one 3R4F reference cigarette pro exposure), with 1 hour rest between each treatment. Exposure was performed directly at the air/liquid interface and culture medium was replaced immediately after treatment. The 3D tissue model was generated from primary human respiratory epithelial cells derived from a 67 years old Caucasian non-smoking female donor co-cultured with primary human airway fibroblasts.

chronic obstructive pulmonary disease study 13 / normal small airway epithelial cell sample

Relative Expression (log2-ratio):-1.160469
Number of Samples:12 / 30
Experimental chronic obstructive pulmonary disease study 13
Small airway epithelial cell samples (10th - 12th generation) obtained during fiberoptic bronchoscopy by brushing from patients with chronic obstructive pulmonary disease (COPD). Patients were current daily smokers with any number of pack-yr and met GOLD (stages I-III) criteria for COPD based on post-bronchodilator spirometry. Inclusion criteria: smoking status was evaluated with urine nicotine (>30 ng/ml) or cotinine (>50 ng/ml) level, taking any or no pulmonary-related medication (beta-agonists, anticholinergics/inhaled corticosteroids), normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal electrocardiogram, no history of allergies to medications used in the bronchoscopy. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, current alcohol or drug abuse, evidence of malignancy within the past 5 years and predicted progression of patient´s disease influenced by participation in the study.
Control normal small airway epithelial cell sample
Small airway epithelial cell samples (10th - 12th generation) obtained during fiberoptic bronchoscopy by brushing from healthy non-smoking subjects. Inclusion criteria: good health without history of chronic lung disease (for example asthma, recurrent or recent acute pulmonary disease), non-smokers – smoking status evaluated by the absence of nicotine metabolites in urine, normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal chest X-ray, normal electrocardiogram, no history of allergies to medications used in the bronchoscopy, without taking any medications relevant to lung disease or having effect on the airway epithelium. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, current alcohol or drug abuse, evidence of malignancy within the past 5 years.

chronic obstructive pulmonary disease study 9 / normal small airway epithelial cell sample

Relative Expression (log2-ratio):-1.1304092
Number of Samples:26 / 37
Experimental chronic obstructive pulmonary disease study 9
Small airway epithelial cell samples (10th - 12th generation) obtained during fiberoptic bronchoscopy by brushing from patients with chronic obstructive pulmonary disease (COPD). Patients were smokers. Patients were current daily smokers with any number of pack-yr and met GOLD (stages I-III) criteria for COPD based on post-bronchodilator spirometry. Inclusion criteria: taking any or no pulmonary-related medication (beta-agonists, anticholinergics/inhaled corticosteroids), normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal electrocardiogram, no history of allergies to medications used in the bronchoscopy. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, current alcohol or drug abuse, evidence of malignancy within the past 5 years and predicted progression of patient´s disease influenced by participation in the study.
Control normal small airway epithelial cell sample
Small airway epithelial cell samples (10th - 12th generation) obtained after brushing by fiberoptic bronchoscopy from healthy non-smoking subjects. Inclusion criteria: good health without history of chronic lung disease (for example asthma, recurrent or recent acute pulmonary disease), self-reported non-smokers – smoking status evaluated by the absence of nicotine and cotinine metabolites in urine, normal routine laboratory tests (including hematologic, serologic, immunologic, biochemical and urine tests), normal level of alpha-antitrypsin, normal chest X-ray, normal electrocardiogram, normal lung function, no history of allergies to medications used in the bronchoscopy, without taking any medications relevant to lung disease or having effect on the airway epithelium. Exclusion criteria: pregnancy, current active infection or acute illness of any kind, alcohol or drug abuse within the past 6 months, evidence of malignancy within the past 5 years.

smoking study 66 (48h) / normal sham-exposed nasal organotypic tissue

Relative Expression (log2-ratio):-1.0629969
Number of Samples:3 / 3
Experimental smoking study 66 (48h)
Human nasal organotypic tissue culture exposed at the air-liquid interface to 16.7% (vol/vol) mainstream cigarette smoke of 4 cigarettes (3R4F, 6-7 minutes each) followed by fresh culture medium incubation for 48 hours. Cigarettes were smoked on a 30-port carousel smoking machine according to health Canada regimen with 1 hour rest between each cigarette. Organotypic culture consisted in a co-culture of primary nasal respiratory epithelial cells derived from a healthy nonsmoking 65-year-old Caucasian male and primary airway fibroblasts derived from a healthy nonsmoking 61-year-old Caucasian male.
Control normal sham-exposed nasal organotypic tissue
Human nasal organotypic tissue culture exposed at the air-liquid interface to 60% humidified air (4 exposure with 1 hour rest between each treatment) followed by fresh culture medium incubation for 48 hours. Organotypic culture consisted in a co-culture of primary nasal respiratory epithelial cells derived from a healthy nonsmoking 65-year-old Caucasian male and primary airway fibroblasts derived from a healthy nonsmoking 61-year-old Caucasian male.