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Sample GSM1314871 Query DataSets for GSM1314871
Status Public on Feb 28, 2014
Title mPFC_maternal_rep4
Sample type RNA
 
Source name lactating maternal adult female_medial prefrontal cortex
Organism Mus musculus
Characteristics strain: Outbred hsd:ICR
maternal state: lactating maternal
tissue: microdissected medial prefrontal cortex
Treatment protocol On postpartum day 0, pups were culled, if necessary, to standardize litter size to 11. Tissue was collected on postpartum day 7.
Growth protocol The strain of mice used was outbred hsd:ICR mice purchased from Harlan labs (Madison, WI). Maternal were housed with a breeder male for two weeks while virgin mice were co-housed with two other female mice for the same time period. After the mating period, all females from both groups were individually housed through parturition until tissue collection (postpartum day 7). Each virgin control sample was collected on the same day as a postpartum day 7 maternal sample.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the Aurum Total RNA Fatty and Fibrous Tissue Kit (Bio-Rad, Hercules, CA, USA), which uses a guanidinium thiocyanate-phenol-chloroform extraction followed by a spin column cleanup and purification. RNA purity and concentration were assessed using a NanoDrop spectrophotometer, and RNA integrity was assessed using an RNA Pico Chip on an Agilent BioAnalyzer 2100.
Label Biotin
Label protocol 200ng of each total RNA sample were labeled with an Ambion GeneChip WT Expression Kit (Ambion, Austin, TX, USA) according to the manufacturer's specifications.
 
Hybridization protocol Samples were hybridized to arrays at 45 degrees C for 16 hours following procedures outlined in the GeneChip WT Terminal Labeling and Hybridization Use Manual , Rev. 4.
Scan protocol Arrays were scanned on the Affymetrix GC3000 G7 scanner, and data were extracted and processed using Affymetrix Command Console v3.1.1.1229.
Description Mat4
Data processing Raw array data were normalized and summarized at the probeset level using Affymetrix Power Tools v1.12.0 with default settings for PLIER with GC-bin background correction. Summarized data were analyzed using limma for BioConductor v3.6.9
 
Submission date Jan 27, 2014
Last update date Sep 08, 2020
Contact name Xinyu Zhao
E-mail(s) xinyu.zhao@wisc.edu
Phone 6082639906
Organization name University of Wisconsin Madison
Street address 1500 HIghland Ave, Wiasman Center North Tower T513
City Madison
State/province Wisconsin
ZIP/Postal code 53705
Country USA
 
Platform ID GPL16570
Series (1)
GSE54426 Medial prefrontal cortex: genes linked to bipolar disorder and schizophrenia have altered expression in the highly social maternal phenotype

Data table header descriptions
ID_REF
VALUE PLIER signal intensity

Data table
ID_REF VALUE
17200001 294.6
17200003 224.85
17200005 241.65
17200007 167.3
17200009 278.4
17200011 253.97
17200013 104.71
17200015 441.96
17200017 15.79
17200019 135.83
17200021 103.5
17200023 310.37
17200025 112.61
17200027 143.14
17200029 185.48
17200031 107.11
17200033 59.42
17200035 30.64
17200037 41.79
17200039 129.33

Total number of rows: 41345

Table truncated, full table size 624 Kbytes.




Supplementary file Size Download File type/resource
GSM1314871_Mat4.CEL.gz 9.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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