| Sample_geo_accession | GSM454563
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| Sample_status | Public on Sep 26 2009
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| Sample_submission_date | Sep 20 2009
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| Sample_last_update_date | Sep 25 2009
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| Sample_type | RNA
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| Sample_channel_count | 1
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| Sample_organism_ch1 | Homo sapiens
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| Sample_taxid_ch1 | 9606
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| Sample_molecule_ch1 | total RNA
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| Sample_extract_protocol_ch1 | Total RNA was purified with an RNeasy Mini Kit (Qiagen, Valencia, CA, USA) as per the manufacturer's instructions.
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| Sample_label_ch1 | biotin
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| Sample_label_protocol_ch1 | Transfer the needed amount of template cDNA to RNase-free microfuge tubes and add
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| Sample_label_protocol_ch1 | the following reaction components in the order indicated in the table below. If more
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| Sample_label_protocol_ch1 | than one IVT reaction is to be performed, a master mix can be prepared by multiplying
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| Sample_label_protocol_ch1 | the reagent volumes by the number of reactions. Do not assemble the reaction on ice,
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| Sample_label_protocol_ch1 | since spermidine in the 10X IVT Labeling Buffer can lead to precipitation of the
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| Sample_label_protocol_ch1 | template cDNA.
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| Sample_hyb_protocol | 1. Mix the following for each target, scaling up volumes for hybridization to multiple
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| Sample_hyb_protocol | probe arrays.
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| Sample_hyb_protocol | 2. Transfer the hybridization cocktail that has been heated at 99°C, in step 3, to a 45°C
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| Sample_hyb_protocol | heat block for 5 minutes.
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| Sample_hyb_protocol | 3. Spin hybridization cocktail(s) at maximum speed in a microcentrifuge for 5 minutes to
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| Sample_hyb_protocol | remove any insoluble material from the hybridization mixture.
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| Sample_hyb_protocol | 4. Remove the buffer solution from the probe array cartridge and fill with appropriate
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| Sample_hyb_protocol | volume (Table 2.2.2) of the clarified hybridization cocktail, avoiding any insoluble
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| Sample_hyb_protocol | matter at the bottom of the tube.
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| Sample_hyb_protocol | 5. Place probe array into the Hybridization Oven, set to 45°C.
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| Sample_hyb_protocol | Avoid stress to the motor; load probe arrays in a balanced configuration around the
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| Sample_hyb_protocol | axis. Rotate at 60 rpm.
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| Sample_hyb_protocol | 6. Hybridize for 16 hours.
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| Sample_hyb_protocol | During the latter part of the 16-hour hybridization, proceed to Section 2, Chapter 3 to
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| Sample_hyb_protocol | prepare reagents required immediately after completion of hybridization.
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| Sample_scan_protocol | The scanner is also controlled by Affymetrix® Microarray Suite or GCOS. The probe array
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| Sample_scan_protocol | is scanned after the wash protocols are complete. Make sure the laser is warmed up prior to
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| Sample_scan_protocol | scanning by turning it on at least 15 minutes before use if you are using the Agilent
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| Sample_scan_protocol | GeneArray® Scanner, or 10 minutes if you are using the Affymetrix® GeneChip® Scanner
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| Sample_scan_protocol | 3000. If probe array was stored at 4°C, warm to room temperature before scanning. Refer to
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| Sample_scan_protocol | the Microarray Suite or GCOS online help and the appropriate scanner user’s manual formore information on scanning.
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| Sample_data_processing | Arrays were scanned using an Affymetrix GCS3000 device and images were analyzed using the GCOS software. Then the signals were processed/normalized by dChip software (2006).
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| Sample_platform_id | GPL570
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| Sample_contact_name | Yang,,Li
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| Sample_contact_email | liyang@bjmu.edu.cn
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| Sample_contact_institute | Peking University
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| Sample_contact_address | Xueyuan Road 38
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| Sample_contact_city | Beijing
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| Sample_contact_zip/postal_code | 100191
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| Sample_contact_country | China
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| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM454nnn/GSM454563/suppl/GSM454563.CEL.gz
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| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM454nnn/GSM454563/suppl/GSM454563.CHP.gz
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| Sample_series_id | GSE18180
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| Sample_data_row_count | 54675
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