Search results for the GEO ID: GSE49891  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1208973 | GPL570 |
|
second_trimester_euploid_female1 [microarray]
|
cell-free RNA from second trimester amniotic fluid supernatant
|
gender: female
source: second trimester amniotic fluid supernatant
|
GSM ID (previous GEO IDs for same sample): GSM1128147
gene expression data from normal second trimester fetus
|
| Sample_geo_accession | GSM1208973
| | Sample_status | Public on Aug 15 2013
| | Sample_submission_date | Aug 14 2013
| | Sample_last_update_date | Aug 15 2013
| | 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 | RNA was extracted from 10 mL amniotic fluid supernatant (centrifugation at 350g, 4C, 10, min).All samples were processed using the Qiagen Circulating Nucleic Acid kit with an on-column DNase digestion step to remove genomic DNA. The RNA was then purified and concentrated with the RNeasy MinElute Clean up kit and eluted in RNasefree water. RNA was converted to cDNA and amplified using the Ovation Pico WTA kit V2 and then purified with the QIAquick PCR Purification kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)
| | Sample_hyb_protocol | Arrays were washed and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | Arrays were scanned on a GeneArray Scanner, using the GeneChip Microarray Suite 5.0 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Normalization was performed with the threestep command from the AffyPLM package in BioConductor, using ideal-mismatch background/signal adjustment, quantile normalization, and the Tukey biweight summary method. To obtain detection calls consistent with those produced by Affymetrix' 5.0 software, we used the mas5calls function from the Bioconductor affy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lillian,,Zwemer
| | Sample_contact_email | Lzwemer@tuftsmedicalcenter.org
| | Sample_contact_department | Mother Infant Research Institute
| | Sample_contact_institute | Tufts Medical Center
| | Sample_contact_address | 800 Washington St, Box 394
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02111
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1208nnn/GSM1208973/suppl/GSM1208973_Sample1.CEL.gz
| | Sample_relation | Alternative to: GSM1128147
| | Sample_series_id | GSE49891
| | Sample_series_id | GSE49893
| | Sample_data_row_count | 54675
| | |
|
GSM1208974 | GPL570 |
|
second_trimester_euploid_female2 [microarray]
|
cell-free RNA from second trimester amniotic fluid supernatant
|
gender: female
source: second trimester amniotic fluid supernatant
|
GSM ID (previous GEO IDs for same sample): GSM1128148
gene expression data from normal second trimester fetus
|
| Sample_geo_accession | GSM1208974
| | Sample_status | Public on Aug 15 2013
| | Sample_submission_date | Aug 14 2013
| | Sample_last_update_date | Aug 15 2013
| | 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 | RNA was extracted from 10 mL amniotic fluid supernatant (centrifugation at 350g, 4C, 10, min).All samples were processed using the Qiagen Circulating Nucleic Acid kit with an on-column DNase digestion step to remove genomic DNA. The RNA was then purified and concentrated with the RNeasy MinElute Clean up kit and eluted in RNasefree water. RNA was converted to cDNA and amplified using the Ovation Pico WTA kit V2 and then purified with the QIAquick PCR Purification kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)
| | Sample_hyb_protocol | Arrays were washed and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | Arrays were scanned on a GeneArray Scanner, using the GeneChip Microarray Suite 5.0 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Normalization was performed with the threestep command from the AffyPLM package in BioConductor, using ideal-mismatch background/signal adjustment, quantile normalization, and the Tukey biweight summary method. To obtain detection calls consistent with those produced by Affymetrix' 5.0 software, we used the mas5calls function from the Bioconductor affy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lillian,,Zwemer
| | Sample_contact_email | Lzwemer@tuftsmedicalcenter.org
| | Sample_contact_department | Mother Infant Research Institute
| | Sample_contact_institute | Tufts Medical Center
| | Sample_contact_address | 800 Washington St, Box 394
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02111
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1208nnn/GSM1208974/suppl/GSM1208974_Sample2.CEL.gz
| | Sample_relation | Alternative to: GSM1128148
| | Sample_series_id | GSE49891
| | Sample_series_id | GSE49893
| | Sample_data_row_count | 54675
| | |
|
GSM1208975 | GPL570 |
|
second_trimester_euploid_male1 [microarray]
|
cell-free RNA from second trimester amniotic fluid supernatant
|
gender: male
source: second trimester amniotic fluid supernatant
|
GSM ID (previous GEO IDs for same sample): GSM1128149
gene expression data from normal second trimester fetus
|
| Sample_geo_accession | GSM1208975
| | Sample_status | Public on Aug 15 2013
| | Sample_submission_date | Aug 14 2013
| | Sample_last_update_date | Aug 15 2013
| | 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 | RNA was extracted from 10 mL amniotic fluid supernatant (centrifugation at 350g, 4C, 10, min).All samples were processed using the Qiagen Circulating Nucleic Acid kit with an on-column DNase digestion step to remove genomic DNA. The RNA was then purified and concentrated with the RNeasy MinElute Clean up kit and eluted in RNasefree water. RNA was converted to cDNA and amplified using the Ovation Pico WTA kit V2 and then purified with the QIAquick PCR Purification kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)
| | Sample_hyb_protocol | Arrays were washed and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | Arrays were scanned on a GeneArray Scanner, using the GeneChip Microarray Suite 5.0 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Normalization was performed with the threestep command from the AffyPLM package in BioConductor, using ideal-mismatch background/signal adjustment, quantile normalization, and the Tukey biweight summary method. To obtain detection calls consistent with those produced by Affymetrix' 5.0 software, we used the mas5calls function from the Bioconductor affy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lillian,,Zwemer
| | Sample_contact_email | Lzwemer@tuftsmedicalcenter.org
| | Sample_contact_department | Mother Infant Research Institute
| | Sample_contact_institute | Tufts Medical Center
| | Sample_contact_address | 800 Washington St, Box 394
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02111
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1208nnn/GSM1208975/suppl/GSM1208975_Sample3.CEL.gz
| | Sample_relation | Alternative to: GSM1128149
| | Sample_series_id | GSE49891
| | Sample_series_id | GSE49893
| | Sample_data_row_count | 54675
| | |
|
GSM1208976 | GPL570 |
|
second_trimester_euploid_male2 [microarray]
|
cell-free RNA from second trimester amniotic fluid supernatant
|
gender: male
source: second trimester amniotic fluid supernatant
|
GSM ID (previous GEO IDs for same sample): GSM1128150
gene expression data from normal second trimester fetus
|
| Sample_geo_accession | GSM1208976
| | Sample_status | Public on Aug 15 2013
| | Sample_submission_date | Aug 14 2013
| | Sample_last_update_date | Aug 15 2013
| | 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 | RNA was extracted from 10 mL amniotic fluid supernatant (centrifugation at 350g, 4C, 10, min).All samples were processed using the Qiagen Circulating Nucleic Acid kit with an on-column DNase digestion step to remove genomic DNA. The RNA was then purified and concentrated with the RNeasy MinElute Clean up kit and eluted in RNasefree water. RNA was converted to cDNA and amplified using the Ovation Pico WTA kit V2 and then purified with the QIAquick PCR Purification kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)
| | Sample_hyb_protocol | Arrays were washed and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | Arrays were scanned on a GeneArray Scanner, using the GeneChip Microarray Suite 5.0 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Normalization was performed with the threestep command from the AffyPLM package in BioConductor, using ideal-mismatch background/signal adjustment, quantile normalization, and the Tukey biweight summary method. To obtain detection calls consistent with those produced by Affymetrix' 5.0 software, we used the mas5calls function from the Bioconductor affy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lillian,,Zwemer
| | Sample_contact_email | Lzwemer@tuftsmedicalcenter.org
| | Sample_contact_department | Mother Infant Research Institute
| | Sample_contact_institute | Tufts Medical Center
| | Sample_contact_address | 800 Washington St, Box 394
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02111
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1208nnn/GSM1208976/suppl/GSM1208976_Sample4.CEL.gz
| | Sample_relation | Alternative to: GSM1128150
| | Sample_series_id | GSE49891
| | Sample_series_id | GSE49893
| | Sample_data_row_count | 54675
| | |
|
GSM1208977 | GPL570 |
|
second_trimester_euploid_male3 [microarray]
|
cell-free RNA from second trimester amniotic fluid supernatant
|
gender: male
source: second trimester amniotic fluid supernatant
|
GSM ID (previous GEO IDs for same sample): GSM1128151
gene expression data from normal second trimester fetus
|
| Sample_geo_accession | GSM1208977
| | Sample_status | Public on Aug 15 2013
| | Sample_submission_date | Aug 14 2013
| | Sample_last_update_date | Aug 15 2013
| | 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 | RNA was extracted from 10 mL amniotic fluid supernatant (centrifugation at 350g, 4C, 10, min).All samples were processed using the Qiagen Circulating Nucleic Acid kit with an on-column DNase digestion step to remove genomic DNA. The RNA was then purified and concentrated with the RNeasy MinElute Clean up kit and eluted in RNasefree water. RNA was converted to cDNA and amplified using the Ovation Pico WTA kit V2 and then purified with the QIAquick PCR Purification kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)Samples were labeled using the Encore Biotin Module (NuGEN, San Carlos, CA)
| | Sample_hyb_protocol | Arrays were washed and stained with streptavidin-phycoerythrin.
| | Sample_scan_protocol | Arrays were scanned on a GeneArray Scanner, using the GeneChip Microarray Suite 5.0 (Affymetrix, Santa Clara, CA).
| | Sample_data_processing | Normalization was performed with the threestep command from the AffyPLM package in BioConductor, using ideal-mismatch background/signal adjustment, quantile normalization, and the Tukey biweight summary method. To obtain detection calls consistent with those produced by Affymetrix' 5.0 software, we used the mas5calls function from the Bioconductor affy package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lillian,,Zwemer
| | Sample_contact_email | Lzwemer@tuftsmedicalcenter.org
| | Sample_contact_department | Mother Infant Research Institute
| | Sample_contact_institute | Tufts Medical Center
| | Sample_contact_address | 800 Washington St, Box 394
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02111
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1208nnn/GSM1208977/suppl/GSM1208977_Sample5.CEL.gz
| | Sample_relation | Alternative to: GSM1128151
| | Sample_series_id | GSE49891
| | Sample_series_id | GSE49893
| | Sample_data_row_count | 54675
| | |
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