Search results for the GEO ID: GSE14242  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM356657 | GPL1261 |
|
hyp_1
|
long bones of Hyp mice
|
Strain: C57BL6
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
Hyp mice have a 3' deletion of the Phex gene on a C57BL/6 genetic background.
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356657
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356657/suppl/GSM356657.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356725 | GPL1261 |
|
hyp_2
|
long bones of Hyp mice
|
Strain: C57BL6
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
Hyp mice have a 3' deletion of the Phex gene on a C57BL/6 genetic background.
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356725
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356725/suppl/GSM356725.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356726 | GPL1261 |
|
hyp_3
|
long bones of Hyp mice
|
Strain: C57BL6
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
Hyp mice have a 3' deletion of the Phex gene on a C57BL/6 genetic background.
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356726
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356726/suppl/GSM356726.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356727 | GPL1261 |
|
hyp_4
|
long bones of Hyp mice
|
Strain: C57BL6
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
Hyp mice have a 3' deletion of the Phex gene on a C57BL/6 genetic background.
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356727
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356727/suppl/GSM356727.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356755 | GPL1261 |
|
wt_1
|
long bones of WT mice
|
Strain: wild type
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356755
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356755/suppl/GSM356755.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356756 | GPL1261 |
|
wt_2
|
long bones of WT mice
|
Strain: wild type
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356756
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356756/suppl/GSM356756.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356757 | GPL1261 |
|
wt_3
|
long bones of WT mice
|
Strain: wild type
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356757
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356757/suppl/GSM356757.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
|
GSM356758 | GPL1261 |
|
wt_4
|
long bones of WT mice
|
Strain: wild type
Age: 12 days
Gender: male
Tissue: long bone (tibia and femur)
|
We isolated total RNAs from long bones of both WT and Hyp mice at 12 days of age. Since the RNA yields from the long bones are very low, we combined 2 bone samples with same genotype (WT or Hyp) for one RNA extraction. We will compare the difference of the gene expressions between Hyp and WT. We will use 4 samples in each animal condition.
|
| Sample_geo_accession | GSM356758
| | Sample_status | Public on Dec 21 2009
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 21 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Jackson Laboratory
| | Sample_growth_protocol_ch1 | Hyp mice were purchased from The Jackson Laboratory (Bar Harbor, ME) and maintained in the vivarium at University of Kansas Medical Center under standard diet purchased from Harlan Talked (Madison, WI), which contains 0.6% Ca, 0.54% Pi and 2200 IU vitamin D. All the mice were utilized in accordance with the recommendations in the “Guide for Care and Use of Laboratory Animals” and the guidelines established by the University of Kansas Medical Center Institutional Animal Care and Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | We extract total RNA with TRI REAGENT from Molecular Research Center, Inc.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Invitro Transcription using the GeneChip Expression 3prime-Amplification Labeling kit.
| | Sample_hyb_protocol | 200ul hybridization solution per GeneChip.
| | Sample_hyb_protocol | Hybridization Solution Contents: Final Concentrations 0.05ug per ul fragmented cRNA , 50pM control oligo B2 , spike hybridization controls[1.5 pM bioB , 5 pM bioC , 25 pM bioD , 100 pM cre] , 0.1mg per ml Herring Sperm DNA , 0.5mg per ml Acetylated Bovine Serum Albumin, 10% DMSO (3 prime Amplification labeling kit only) , 1x Hybridization buffer, H2O to a final volume of 300ul.
| | Sample_hyb_protocol | Hybridization Description: 45C , 16hr , 60 rpm rotation in GeneChip hybridization trays using GeneChip Hybridization oven 640.
| | Sample_hyb_protocol | Washing Protocol: EukGE-WS2v5_450
| | Sample_scan_protocol | single scan
| | Sample_data_processing | Microarray data were analyzed using GeneSpring GX 9 (Silicon Genetics). The Robust Multichip Averaging (RMA) probe summarization algorithm was used to perform background correction, normalization and probe summarization. The baseline transformation to median of all samples was applied.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Darryl ,,Quarles
| | Sample_contact_email | dquarles@uthsc.edu
| | Sample_contact_institute | University of Tennessee Health Science Center (UTHSC)
| | Sample_contact_address | 920 Madison Ave
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38163
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356758/suppl/GSM356758.CEL.gz
| | Sample_series_id | GSE14242
| | Sample_data_row_count | 45101
| | |
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