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Sample GSM2335308 Query DataSets for GSM2335308
Status Public on Apr 04, 2017
Title 54-MDD-L5-3
Sample type RNA
 
Source name dorsolateral prefrontal cortex
Organism Homo sapiens
Characteristics tissue: dorsolateral prefrontal cortex
cell type: pyramidal neuron cell
shape: characteristic triangular shape and prominent apical dendrite
genotype: Major Depressive Disorder
dsm-iv diagnoses: MDD, recurrent; ADR; ODC
Treatment protocol An independent committee of experienced research clinicians made consensus DSM-IV diagnoses for each subject using information obtained from medical records and structured diagnostic interviews conducted with the decedent’s family members.
Growth protocol Brain specimens were obtained during autopsies conducted at the Allegheny County Office of the Medical Examiner (Pittsburgh, PA) after consent was obtained from the next-of-kin.
Extracted molecule total RNA
Extraction protocol For each sample, RNA was extracted using the QIAGEN® RNeasy Plus Micro kit (QIAGEN, Valencia).
Label Encore Biotin module (Nugen)
Label protocol Labeled using the Encore Biotin module (Nugen).
 
Hybridization protocol CDNA was synthesized and amplified using the Ovation Pico WTA System.
Scan protocol Loaded on an Affymetrix GeneChip® U219.
Description Gene expression data for subject 54, diagnosis MDD, layer 5, replicate 1
Data processing Expression intensities were extracted from Affymetrix Expression Console and normalized using Robust Multi-array Average Express.
 
Submission date Oct 04, 2016
Last update date Apr 04, 2017
Contact name David Lewis
E-mail(s) lewisda@upmc.edu
Organization name University of Pittsburgh
Department Psychiatry and Neuroscience
Street address 3811 O'Hara St
City Pittsburgh
State/province PA
ZIP/Postal code 15213
Country USA
 
Platform ID GPL13667
Series (1)
GSE87610 Gene expression of L3 and L5 pyramidal neurons in the DLPFC comparing schizophrenia from bipolar major depressive disorders and unaffected subjects.

Data table header descriptions
ID_REF
VALUE Background corrected, log2 transformed and then quantile normalized gene expression intensity.

Data table
ID_REF VALUE
AFFX-DapX-5_at 2.550004
AFFX-DapX-M_at 1.990377
AFFX-DapX-3_at 2.532477
AFFX-LysX-5_at 2.284823
AFFX-LysX-M_at 2.314835
AFFX-LysX-3_at 2.29863
AFFX-PheX-5_at 2.210866
AFFX-PheX-M_at 2.809415
AFFX-PheX-3_at 2.840688
AFFX-ThrX-5_at 2.582466
AFFX-ThrX-M_at 2.372014
AFFX-ThrX-3_at 3.131826
AFFX-TrpnX-5_at 2.438323
AFFX-TrpnX-M_at 2.280277
AFFX-TrpnX-3_at 2.320006
AFFX-r2-Ec-bioB-5_at 8.135122
AFFX-r2-Ec-bioB-M_at 8.305736
AFFX-r2-Ec-bioB-3_at 8.199219
AFFX-r2-Ec-bioC-5_at 9.421131
AFFX-r2-Ec-bioC-3_at 8.869076

Total number of rows: 49386

Table truncated, full table size 1081 Kbytes.




Supplementary file Size Download File type/resource
GSM2335308_5500994192207072414569_H06.cel.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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