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Sample GSM2335143 Query DataSets for GSM2335143
Status Public on Apr 04, 2017
Title 43-MDD-L3-1
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; ADR
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 43, diagnosis MDD, layer 3, 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 2.496513
AFFX-DapX-M_at 2.220372
AFFX-DapX-3_at 2.126646
AFFX-LysX-5_at 2.093755
AFFX-LysX-M_at 2.189728
AFFX-LysX-3_at 1.974454
AFFX-PheX-5_at 1.991752
AFFX-PheX-M_at 2.479765
AFFX-PheX-3_at 2.632288
AFFX-ThrX-5_at 2.472103
AFFX-ThrX-M_at 2.171012
AFFX-ThrX-3_at 2.783321
AFFX-TrpnX-5_at 2.025851
AFFX-TrpnX-M_at 2.284685
AFFX-TrpnX-3_at 2.153987
AFFX-r2-Ec-bioB-5_at 7.699707
AFFX-r2-Ec-bioB-M_at 7.895361
AFFX-r2-Ec-bioB-3_at 7.929698
AFFX-r2-Ec-bioC-5_at 9.171182
AFFX-r2-Ec-bioC-3_at 8.689874

Total number of rows: 49386

Table truncated, full table size 1081 Kbytes.




Supplementary file Size Download File type/resource
GSM2335143_5500994192207072414569_B04.cel.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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