Search results for the GEO ID: GSE3058  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM67118 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from man (3M)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult male
|
| Sample_geo_accession | GSM67118
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67118/suppl/GSM67118.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67118/suppl/GSM67118.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67120 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from man (5M)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult male
|
| Sample_geo_accession | GSM67120
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67120/suppl/GSM67120.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67120/suppl/GSM67120.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67123 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from man (16M)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult male
|
| Sample_geo_accession | GSM67123
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67123/suppl/GSM67123.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67123/suppl/GSM67123.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67124 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (24F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67124
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67124/suppl/GSM67124.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67124/suppl/GSM67124.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67126 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (26F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67126
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67126/suppl/GSM67126.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67126/suppl/GSM67126.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67129 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (27F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67129
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67129/suppl/GSM67129.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67129/suppl/GSM67129.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67131 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (30F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67131
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67131/suppl/GSM67131.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67131/suppl/GSM67131.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67132 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (32F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67132
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67132/suppl/GSM67132.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67132/suppl/GSM67132.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67134 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (33F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67134
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67134/suppl/GSM67134.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67134/suppl/GSM67134.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
|
GSM67138 | GPL201 |
|
Unstaged Head Hair Follicles Plucked from woman (34F)
|
Human Unstaged Head Hair Follicles
|
Individual hairs were grasped as near to the scalp as possible and then yanked quickly out. The bottom centimeter of each hair, containing the hair follicle, was trimmed off into a 5ml specimen jar filled to the top with RNALater (Ambion, Austin, Texas). Samples were stored at ambient temperature until reaching the analytical laboratory, a period of 1-4 hr.
|
Healthy adult female
|
| Sample_geo_accession | GSM67138
| | Sample_status | Public on Jun 30 2006
| | Sample_submission_date | Aug 04 2005
| | Sample_last_update_date | Dec 27 2005
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted on the day of collection or following storage at 4oC for 1-9 days in RNAlater. The hair follicle samples from each individual were removed from RNALater and, without verifying their stage, placed directly into a 2 ml microcentrifuge tube containing 1 ml Trizol™. RNA extraction was then conducted according to manufacturer’s instructions (Invitrogen Life Technologies, CA); a handheld homogenizer (Fisher Scientific, Hampton NH) was used to break up the samples. At the isopropanol precipitation step, RNA was pelleted either immediately or following storage at -80oC for up to seven months. After centrifugation, the pellet was washed with 70% ethanol, air dried and resuspended in 10 µl RNA free water (Gibco-BRL, Gaithersburg, MD). Concentration of the eluted RNA was quantified using GeneQuant spectrophotometer (Pharmacia Biotech, now Amersham Pharmacia Biotech, Piscataway, NJ) by absorbance readings at 260 and 280nm.
| | Sample_label_ch1 | biotin: double amplication using MessageAmp aRNA Kit (Ambion)
| | Sample_label_protocol_ch1 | Briefly, first and second strand cDNA were synthesized. Unlabelled aRNA was generated by in vitro transcription with unbiotinylated NTPs. For probe preparation, aRNA was reverse transcribed with second round primers. Second-strand cDNA was synthesized with T7 Oligo(dT) primer and purified. Biotin-labeled cRNA was generated by in vitro synthesis transcription, and purified with Qiagen RNeasy kit.
| | Sample_hyb_protocol | Each labeled cRNA was then fragmented, added to a hybridization solution, and hybridized for 16 hours to a HG-Focus genechip (Affymetrix, Santa Clara, CA) in an Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | The chips were washed, stained with phycoerythrin-conjugated streptavidin and amplified by biotinylated anti-streptavidin. After a final wash the arrays were scanned in a GCS3000 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Affymetrix Microarray Suite version 5.0
| | Sample_platform_id | GPL201
| | Sample_contact_name | David,J,Dix
| | Sample_contact_email | dix.david@epa.gov
| | Sample_contact_phone | 919-541-2701
| | Sample_contact_fax | 919-541-4017
| | Sample_contact_laboratory | RTD
| | Sample_contact_department | NHEERL
| | Sample_contact_institute | US EPA
| | Sample_contact_address | E. HWY54 US EPA
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67138/suppl/GSM67138.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM67nnn/GSM67138/suppl/GSM67138.EXP.gz
| | Sample_series_id | GSE3058
| | Sample_data_row_count | 8793
| | |
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