Search results for the GEO ID: GSE13720 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM256733 | GPL339 |
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CD4-CD8-_DN_fetal_thymocytes_TCDD
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CD4-CD8-_DN_fetal_thymocytes
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Strain: C57BL/6
Tissue: Thymus
Cell Type: CD4-CD8- Thymocytes
Age: dpc 21
Treatment: 10 nM 2,3,7,8-Tetrachlorodibenzo-p-dioxin
Replicate: 1
|
C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were washed 2x with ice cold PBS and transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
|
Sample_geo_accession | GSM256733
| Sample_status | Public on Nov 25 2008
| Sample_submission_date | Jan 11 2008
| Sample_last_update_date | Nov 25 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were washed 2x with ice cold PBS and transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was extracted from pooled DN thymocytes using TRIzol. After checking RNA purity and integrity RNA was amplified using Ambions Message Amp kit. Further lableling reactions and hybridization were performed according to Affymetrix standard protocols.
| Sample_label_ch1 | PE
| Sample_label_protocol_ch1 | Affymetrix standard protocols
| Sample_hyb_protocol | Affymetrix standard protocols
| Sample_scan_protocol | Affymetrix standard protocols
| Sample_data_processing | Cel files were processed using RMA (affy-package, R2.0)
| Sample_platform_id | GPL339
| Sample_contact_name | Markus,,Frericks
| Sample_contact_email | fremar5@web.de
| Sample_contact_phone | +49(0)211 3389253
| Sample_contact_fax | +49(0)211 3190910
| Sample_contact_department | Immunology
| Sample_contact_institute | Institute for Environmental Research
| Sample_contact_address | Auf'm Hennekamp 50
| Sample_contact_city | Duesseldorf
| Sample_contact_zip/postal_code | 40225
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM256nnn/GSM256733/suppl/GSM256733.CEL.gz
| Sample_series_id | GSE13720
| Sample_data_row_count | 22690
| |
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GSM256734 | GPL339 |
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CD4-CD8-_DN_fetal_thymocytes_Dioxane
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CD4-CD8-_DN_fetal_thymocytes
|
Strain: C57BL/6
Tissue: Thymus
Cell Type: CD4-CD8- Thymocytes
Age: dpc 21
Treatment: 0.1%V Dioxane
Replicate: 1
|
C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were washed 2x with ice cold PBS and transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
|
Sample_geo_accession | GSM256734
| Sample_status | Public on Nov 25 2008
| Sample_submission_date | Jan 11 2008
| Sample_last_update_date | Nov 25 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were washed 2x with ice cold PBS and transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was extracted from pooled DN thymocytes using TRIzol. After checking RNA purity and integrity RNA was amplified using Ambions Message Amp kit. Further lableling reactions and hybridization were performed according to Affymetrix standard protocols.
| Sample_label_ch1 | PE
| Sample_label_protocol_ch1 | Affymetrix standard protocols
| Sample_hyb_protocol | Affymetrix standard protocols
| Sample_scan_protocol | Affymetrix standard protocols
| Sample_data_processing | Cel files were processed using RMA (affy-package, R2.0)
| Sample_platform_id | GPL339
| Sample_contact_name | Markus,,Frericks
| Sample_contact_email | fremar5@web.de
| Sample_contact_phone | +49(0)211 3389253
| Sample_contact_fax | +49(0)211 3190910
| Sample_contact_department | Immunology
| Sample_contact_institute | Institute for Environmental Research
| Sample_contact_address | Auf'm Hennekamp 50
| Sample_contact_city | Duesseldorf
| Sample_contact_zip/postal_code | 40225
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM256nnn/GSM256734/suppl/GSM256734.CEL.gz
| Sample_series_id | GSE13720
| Sample_data_row_count | 22690
| |
|
GSM256735 | GPL339 |
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CD4-CD8-_DN_fetal_thymus_emigrants_Dioxane
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CD4-CD8-_DN_fetal_thymus emigrants
|
Strain: C57BL/6
Tissue: Thymusemigrants
Cell Type: CD4-CD8- Thymocytes
Age: dpc 21
Treatment: Dioxane
Replicate: 1
|
C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS, which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
|
Sample_geo_accession | GSM256735
| Sample_status | Public on Nov 25 2008
| Sample_submission_date | Jan 11 2008
| Sample_last_update_date | Nov 25 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was extracted from pooled DN thymocytes using TRIzol. After checking RNA purity and integrity RNA was amplified using Ambions Message Amp kit. Further lableling reactions and hybridization were performed according to Affymetrix standard protocols.
| Sample_label_ch1 | PE
| Sample_label_protocol_ch1 | Affymetrix standard protocols
| Sample_hyb_protocol | Affymetrix standard protocols
| Sample_scan_protocol | Affymetrix standard protocols
| Sample_data_processing | Cel files were processed using RMA (affy-package, R2.0)
| Sample_platform_id | GPL339
| Sample_contact_name | Markus,,Frericks
| Sample_contact_email | fremar5@web.de
| Sample_contact_phone | +49(0)211 3389253
| Sample_contact_fax | +49(0)211 3190910
| Sample_contact_department | Immunology
| Sample_contact_institute | Institute for Environmental Research
| Sample_contact_address | Auf'm Hennekamp 50
| Sample_contact_city | Duesseldorf
| Sample_contact_zip/postal_code | 40225
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM256nnn/GSM256735/suppl/GSM256735.CEL.gz
| Sample_series_id | GSE13720
| Sample_data_row_count | 22690
| |
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GSM256736 | GPL339 |
|
CD4-CD8-_DN_fetal_thymus_emigrants_Dioxane_2
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CD4-CD8-_DN_fetal_thymus emigrants
|
Strain: C57BL/6
Tissue: Thymusemigrants
Cell Type: CD4-CD8- Thymocytes
Age: dpc 21
Treatment: Dioxane 2
Replicate: 2
|
C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS, which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
|
Sample_geo_accession | GSM256736
| Sample_status | Public on Nov 25 2008
| Sample_submission_date | Jan 11 2008
| Sample_last_update_date | Nov 25 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was extracted from pooled DN thymocytes using TRIzol. After checking RNA purity and integrity RNA was amplified using Ambions Message Amp kit. Further lableling reactions and hybridization were performed according to Affymetrix standard protocols.
| Sample_label_ch1 | PE
| Sample_label_protocol_ch1 | Affymetrix standard protocols
| Sample_hyb_protocol | Affymetrix standard protocols
| Sample_scan_protocol | Affymetrix standard protocols
| Sample_data_processing | Cel files were processed using RMA (affy-package, R2.0)
| Sample_platform_id | GPL339
| Sample_contact_name | Markus,,Frericks
| Sample_contact_email | fremar5@web.de
| Sample_contact_phone | +49(0)211 3389253
| Sample_contact_fax | +49(0)211 3190910
| Sample_contact_department | Immunology
| Sample_contact_institute | Institute for Environmental Research
| Sample_contact_address | Auf'm Hennekamp 50
| Sample_contact_city | Duesseldorf
| Sample_contact_zip/postal_code | 40225
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM256nnn/GSM256736/suppl/GSM256736.CEL.gz
| Sample_series_id | GSE13720
| Sample_data_row_count | 22690
| |
|
GSM256737 | GPL339 |
|
CD4-CD8-_DN_fetal_thymus_emigrants_TCDD_1
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CD4-CD8-_DN_fetal_thymus emigrants
|
Strain: C57BL/6
Tissue: Thymusemigrants
Cell Type: CD4-CD8- Thymocytes
Age: dpc 21
Treatment: 10 nM 2,3,7,8-Tetrachlorodibenzo-p-dioxin
Replicate: 1
|
C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS, which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
|
Sample_geo_accession | GSM256737
| Sample_status | Public on Nov 25 2008
| Sample_submission_date | Jan 11 2008
| Sample_last_update_date | Nov 25 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was extracted from pooled DN thymocytes using TRIzol. After checking RNA purity and integrity RNA was amplified using Ambions Message Amp kit. Further lableling reactions and hybridization were performed according to Affymetrix standard protocols.
| Sample_label_ch1 | PE
| Sample_label_protocol_ch1 | Affymetrix standard protocols
| Sample_hyb_protocol | Affymetrix standard protocols
| Sample_scan_protocol | Affymetrix standard protocols
| Sample_data_processing | Cel files were processed using RMA (affy-package, R2.0)
| Sample_platform_id | GPL339
| Sample_contact_name | Markus,,Frericks
| Sample_contact_email | fremar5@web.de
| Sample_contact_phone | +49(0)211 3389253
| Sample_contact_fax | +49(0)211 3190910
| Sample_contact_department | Immunology
| Sample_contact_institute | Institute for Environmental Research
| Sample_contact_address | Auf'm Hennekamp 50
| Sample_contact_city | Duesseldorf
| Sample_contact_zip/postal_code | 40225
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM256nnn/GSM256737/suppl/GSM256737.CEL.gz
| Sample_series_id | GSE13720
| Sample_data_row_count | 22690
| |
|
GSM256738 | GPL339 |
|
CD4-CD8-_DN_fetal_thymus_emigrants_TCDD_2
|
CD4-CD8-_DN_fetal_thymus emigrants
|
Strain: C57BL/6
Tissue: Thymusemigrants
Cell Type: CD4-CD8- Thymocytes
Age: dpc 21
Treatment: 10 nM 2,3,7,8-Tetrachlorodibenzo-p-dioxin
Replicate: 2
|
C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS, which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
|
Sample_geo_accession | GSM256738
| Sample_status | Public on Nov 25 2008
| Sample_submission_date | Jan 11 2008
| Sample_last_update_date | Nov 25 2008
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | C57BL/6 dams were terminally mated and fetuses surgically removed at dpc 15. Fetal thymus organ culture were performed as described before. Briefly 5-6 fetal thymus lobes were cultured on culture inlays for 6 days. Medium (RPMI 1640, with 10nM TCDD or solvent control) was excanged every 2 days. At day six thymus lobes were flushed 2x with 200µl ice cold PBS which was recovered for cell isolation. Thymus emigrants were transfered to single cell suspensions by gently grinding. CD4-CD8- were subsequently sorted with anti CD4 and anti CD8 MACS beads to a purity >95% which was routinely checked by FACS analysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was extracted from pooled DN thymocytes using TRIzol. After checking RNA purity and integrity RNA was amplified using Ambions Message Amp kit. Further lableling reactions and hybridization were performed according to Affymetrix standard protocols.
| Sample_label_ch1 | PE
| Sample_label_protocol_ch1 | Affymetrix standard protocols
| Sample_hyb_protocol | Affymetrix standard protocols
| Sample_scan_protocol | Affymetrix standard protocols
| Sample_data_processing | Cel files were processed using RMA (affy-package, R2.0)
| Sample_platform_id | GPL339
| Sample_contact_name | Markus,,Frericks
| Sample_contact_email | fremar5@web.de
| Sample_contact_phone | +49(0)211 3389253
| Sample_contact_fax | +49(0)211 3190910
| Sample_contact_department | Immunology
| Sample_contact_institute | Institute for Environmental Research
| Sample_contact_address | Auf'm Hennekamp 50
| Sample_contact_city | Duesseldorf
| Sample_contact_zip/postal_code | 40225
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM256nnn/GSM256738/suppl/GSM256738.CEL.gz
| Sample_series_id | GSE13720
| Sample_data_row_count | 22690
| |
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