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Search results for the GEO ID: GSE45487

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GSM1105564

GPL1261

MC3T3-E1 (control-1)

Mouse preosteoblast MC3T3-E1 cells, mock treated

cell line: MC3T3-E1 strain: C57BL/6 cell type: preosteoblasts treatment: mock time: control

Ctr-1 MC3T3-E1 mock treatment (control-1). MC3T3-E1 cell line: derived from the calvaria of 0-day-old newborn mice; fibroblast-like morphology; infinite lifespan.

Sample_geo_accession	GSM1105564
Sample_status	Public on Mar 26 2013
Sample_submission_date	Mar 25 2013
Sample_last_update_date	Jun 06 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 10^5 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells served as the control.
Sample_growth_protocol_ch1	The cells were cultured in MEMα supplemented with 10% fetal bovine serum (FBS) at 37˚C in humidified air with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105564/suppl/GSM1105564_C-1.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105564/suppl/GSM1105564_C-1.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1105565

GPL1261

MC3T3-E1 (control-2)

Mouse preosteoblast MC3T3-E1 cells, mock treated

cell line: MC3T3-E1 strain: C57BL/6 cell type: preosteoblasts treatment: mock time: control

Ctr-2 MC3T3-E1 mock treatment (control-2). MC3T3-E1 cell line: derived from the calvaria of 0-day-old newborn mice; fibroblast-like morphology; infinite lifespan.

Sample_geo_accession	GSM1105565
Sample_status	Public on Mar 26 2013
Sample_submission_date	Mar 25 2013
Sample_last_update_date	Jun 06 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 10^5 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells served as the control.
Sample_growth_protocol_ch1	The cells were cultured in MEMα supplemented with 10% fetal bovine serum (FBS) at 37˚C in humidified air with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105565/suppl/GSM1105565_C-2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105565/suppl/GSM1105565_C-2.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1105566

GPL1261

MC3T3-E1 (control-3)

Mouse preosteoblast MC3T3-E1 cells, mock treated

cell line: MC3T3-E1 strain: C57BL/6 cell type: preosteoblasts treatment: mock time: control

Ctr-3 MC3T3-E1 mock treatment (control-3). MC3T3-E1 cell line: derived from the calvaria of 0-day-old newborn mice; fibroblast-like morphology; infinite lifespan.

Sample_geo_accession	GSM1105566
Sample_status	Public on Mar 26 2013
Sample_submission_date	Mar 25 2013
Sample_last_update_date	Jun 06 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 10^5 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells served as the control.
Sample_growth_protocol_ch1	The cells were cultured in MEMα supplemented with 10% fetal bovine serum (FBS) at 37˚C in humidified air with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105566/suppl/GSM1105566_C-3.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105566/suppl/GSM1105566_C-3.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1105567

GPL1261

MC3T3-E1 LIPUS-24 h 1

Mouse preosteoblast MC3T3-E1 cells, LIPUS treated

cell line: MC3T3-E1 strain: C57BL/6 cell type: preosteoblasts time: 24 h treatment: low-intensity pulsed ultrasound (LIPUS)

US-1 MC3T3-E1 LIPUS + 24h culture at 37˚C-1. MC3T3-E1 cell line: derived from the calvaria of 0-day-old newborn mice; fibroblast-like morphology; infinite lifespan.

Sample_geo_accession	GSM1105567
Sample_status	Public on Mar 26 2013
Sample_submission_date	Mar 25 2013
Sample_last_update_date	Jun 06 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 10^5 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells served as the control.
Sample_growth_protocol_ch1	The cells were cultured in MEMα supplemented with 10% fetal bovine serum (FBS) at 37˚C in humidified air with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105567/suppl/GSM1105567_US-1.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105567/suppl/GSM1105567_US-1.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1105568

GPL1261

MC3T3-E1 LIPUS-24 h 2

Mouse preosteoblast MC3T3-E1 cells, LIPUS treated

cell line: MC3T3-E1 strain: C57BL/6 cell type: preosteoblasts time: 24 h treatment: low-intensity pulsed ultrasound (LIPUS)

US-2 MC3T3-E1 LIPUS + 24h culture at 37˚C-2. MC3T3-E1 cell line: derived from the calvaria of 0-day-old newborn mice; fibroblast-like morphology; infinite lifespan.

Sample_geo_accession	GSM1105568
Sample_status	Public on Mar 26 2013
Sample_submission_date	Mar 25 2013
Sample_last_update_date	Jun 06 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 10^5 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells served as the control.
Sample_growth_protocol_ch1	The cells were cultured in MEMα supplemented with 10% fetal bovine serum (FBS) at 37˚C in humidified air with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105568/suppl/GSM1105568_US-2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105568/suppl/GSM1105568_US-2.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1105569

GPL1261

MC3T3-E1 LIPUS-24 h 3

Mouse preosteoblast MC3T3-E1 cells, LIPUS treated

cell line: MC3T3-E1 strain: C57BL/6 cell type: preosteoblasts time: 24 h treatment: low-intensity pulsed ultrasound (LIPUS)

US-3 MC3T3-E1 LIPUS + 24h culture at 37˚C-3. MC3T3-E1 cell line: derived from the calvaria of 0-day-old newborn mice; fibroblast-like morphology; infinite lifespan.

Sample_geo_accession	GSM1105569
Sample_status	Public on Mar 26 2013
Sample_submission_date	Mar 25 2013
Sample_last_update_date	Jun 06 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 10^5 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells served as the control.
Sample_growth_protocol_ch1	The cells were cultured in MEMα supplemented with 10% fetal bovine serum (FBS) at 37˚C in humidified air with 5% CO2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105569/suppl/GSM1105569_US-3.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1105nnn/GSM1105569/suppl/GSM1105569_US-3.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1155348

GPL1261

MC3T3-E1 LIPUS-6 h 1

Mouse preosteoblast MC3T3-E1cells

strain: C57BL/6 age: 0-day-old newborn tissue: calvaria cell line: MC3T3-E1 treatment: LIPUS + 6h culture at 37˚C cell type: fibroblast-like time: 6 h

MC3T3-E1 LIPUS + 6h culture at 37˚C-1

Sample_geo_accession	GSM1155348
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 105 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells were served as control.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155348/suppl/GSM1155348_US-6h_1.CEL.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155348/suppl/GSM1155348_US-6h_1.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1155349

GPL1261

MC3T3-E1 LIPUS-6 h 2

Mouse preosteoblast MC3T3-E1cells

strain: C57BL/6 age: 0-day-old newborn tissue: calvaria cell line: MC3T3-E1 treatment: LIPUS + 6h culture at 37˚C cell type: fibroblast-like time: 6 h

MC3T3-E1 LIPUS + 6h culture at 37˚C-2

Sample_geo_accession	GSM1155349
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 105 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells were served as control.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155349/suppl/GSM1155349_US-6h_2.CEL.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155349/suppl/GSM1155349_US-6h_2.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

GSM1155350

GPL1261

MC3T3-E1 LIPUS-6 h 3

Mouse preosteoblast MC3T3-E1cells

strain: C57BL/6 age: 0-day-old newborn tissue: calvaria cell line: MC3T3-E1 treatment: LIPUS + 6h culture at 37˚C cell type: fibroblast-like time: 6 h

MC3T3-E1 LIPUS + 6h culture at 37˚C-3

Sample_geo_accession	GSM1155350
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 07 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	LIPUS treatment was applied by a sonic accelerated gracture-healing system (SAFHS) apparatus (SAFHS 4000J, Teijin Pharma Ltd., Tokyo, Japan). The signal had the SATA (spatial average, temporal average) intensity of 30 mW/cm2, with a frequency of 1.5 MHz in a pulsed-wave mode (0.2 s-burst sine waves repeated at 1.0 kHz). The cells were cultivated in MEMα supplemented with 10% FBS, 0.3 mM L-ascorbic acid and 10 mM β-glycerophosphate at 37˚C for 14 days. After trypsinization, the cells (5 x 105 cells) were seeded on 35-mm plastic culture dish (ASAHI GLASS Co., Ltd., Tokyo, Japan) and cultured at 37˚C for 24 h. LIPUS was transmitted through the bottom of the culture dish with standard ultrasound coupling gel (Teijin Pharma Ltd.). Attached cells in the dish with 2 ml of culture medium were sonicated for 20 min at 37˚C in a CO2 incubator. After sonication, cells were incubated at 37˚C in a CO2 incubator for 6 and 24 h. Mock-treated cells were served as control.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted from cells using an RNeasy Total RNA Extraction kit (Qiagen), and treated with DNase I (Qiagen) for 15 min at room temperature to remove residual genomic DNA. RNA quality was analyzed using a Bioanalyzer 2100 (Agilent Technologies), producing RIN values between 9.5 and 10.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng of total RNA was used to synthesize cRNA with a GeneChip 3' IVT Express Kit (Affymetrix).
Sample_hyb_protocol	After fragmentation, the biotinylated cRNA was hybridized to arrays at 45°C for 16 h. The arrays were washed and stained with streptavidin-phycoerythrin.
Sample_scan_protocol	The arrays were scanned with a probe array scanner (Affymetrix).
Sample_data_processing	GeneChip Analysis Suite. RMA normalized.
Sample_platform_id	GPL1261
Sample_contact_name	Yoshiaki,,Tabuchi
Sample_contact_email	ytabu@cts.u-toyama.ac.jp
Sample_contact_laboratory	Division of Molecular Genetics Research
Sample_contact_department	Life Science Research Center
Sample_contact_institute	University of Toyama
Sample_contact_address	2630 Sugitani
Sample_contact_city	Toyama
Sample_contact_state	Toyama
Sample_contact_zip/postal_code	930-0194
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155350/suppl/GSM1155350_US-6h_3.CEL.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155350/suppl/GSM1155350_US-6h_3.CHP.gz
Sample_series_id	GSE45487
Sample_data_row_count	45101

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