title: Control-1

description:
ID# from Supplementary Table 3 of PMID 18778695:
Sc1


title: Control-10

status: Public on Mar 31 2010

type: RNA

city: La Jolla

first: Elizabeth

middle: A.

last: Thomas

state: CA

address: 10550 N. Torrey Pines Rd

department: Molecular Biology

country: USA

institute: The Scripps Research Institute

description:
ID# from Supplementary Table 3 of PMID 18778695:
Ic2

hyb_protocol: Samples were hybridized to the Human Genome U133 Plus 2.0 array using standard Affymetrix protocol as described in Lockhart et al, 1996.

scan_protocol: Chips were scanned using the Affymetrix ScanArray 3000 using default settings and a target intensity of 250 for scaling.

data_processing: RNA expression data from schizophrenic subjects and their matched controls were normalized using dChip (DNA-Chip Analyzer), a statistical model for the probe-level data which gives model-based estimates for gene expression indices (Li and Hung Wong 2001) and subjected to a batch adjustment normalization to allow for comparisons among all three cohorts (Johnson et al., 2007).  Data were filtered to exclude those transcripts that were not present in at least one of the RNA samples, those with redundant probeset IDs (retaining those with the highest p-value for hybridization) and those showing the lowest variation; a list of 14,438 probesets remained for statistical testing. Sample data tables include only probesets that gave a "Present" call in at least one sample.

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: prefrontal cortex

label_protocol: Biotin-labeled

extract_protocol: Total RNA was extracted from the prefrontal cortex (Brodmann Area 46; 100 mg; left hemisphere) from all subjects as described previously (Desplats et al., 2006).  RNA quantification was determined by spectrophotometer readings, and quality by Agilent Bioanalyzer scans.  RNA integrity (RIN) numbers were not available at the time of RNA extraction, but Bioanalyzer traces of each RNA sample showed no evidence for degradation products.  RNA samples were amplified, biotin-labeled and then hybridized to the Human Genome U133 Plus 2.0 array using standard Affymetrix protocol as described in Lockhart et al, 1996.

tag: brain region

tag: stage of illness [short doi=<5 yrs; intermediate doi=7-18yrs; long doi=>28 yrs]

value: intermediate duration of illness - control

tag: Sex

value: M

tag: age

tag: tissue ph

tag: pmi (hrs)

tag: type of drug

tag: drug dose (chlorpromazine equivalents)


title: Control-4

description:
ID# from Supplementary Table 3 of PMID 18778695:
Sc4

value: short duration of illness - control


title: Control-6

description:
ID# from Supplementary Table 3 of PMID 18778695:
Sc6


title: Control-8

description:
ID# from Supplementary Table 3 of PMID 18778695:
Sc8

value: F