PNC

Philadelphia Neurodevelopmental Cohort (PNC)

Description:

The PNC includes a population-based sample of over 9500 individuals from the greater Philadelphia area, ages 8-21 years who received medical care at the CHOP network. The participants presented for diverse medical conditions, ranging from a well child visit and minor problems to chronic condition management to potentially life threatening health problems. They were not ascertained through psychiatric services. They were initially enrolled in the genetic study at CHOP’s Center for Applied Genomics (CAG). Upon assent/consent, participants were genotyped during the time of their clinical visit and provided written permission to be recontacted for studies of complex pediatric disorders. The PNC participants were selected at random after stratification by sex, age and ethnicity. The overall inclusion criteria included 1) ability to provide signed informed consent (parental consent was required for participants under age 18), 2) English language proficiency, and 3) physical and cognitive ability to participate in computerized clinical assessment and neurocognitive testing. All PNC participants were assessed neuropsychiatrically with a structured interview and completed the Computerized Neurocognitive Battery (CNB). A total of 1445 participants also received neuroimaging that included functional MRI (resting state and activated blood oxygenation-level dependent and perfusion measures with arterial spin labeling), structural MRI, and diffusion tensor imaging (DTI). (Satterthwaite et al., 2014)

Citations:

• Cohort paper: Satterthwaite, T. D., Connolly, J. J., Ruparel, K., Calkins, M. E., Jackson, C., Elliott, M. A., Roalf, D. R., Hopson, R., Prabhakaran, K., Behr, M., Qiu, H., Mentch, F. D., Chiavacci, R., Sleiman, P. M. A., Gur, R. C., Hakonarson, H., & Gur, R. E. (2016). The Philadelphia Neurodevelopmental Cohort: A publicly available resource for the study of normal and abnormal brain development in youth. NeuroImage, 124(Pt B), 1115–1119.
• Neuroimaging paper: Satterthwaite, T. D., Elliott, M. A., Ruparel, K., Loughead, J., Prabhakaran, K., Calkins, M. E., Hopson, R., Jackson, C., Keefe, J., Riley, M., Mentch, F. D., Sleiman, P., Verma, R., Davatzikos, C., Hakonarson, H., Gur, R. C., & Gur, R. E. (2014). Neuroimaging of the Philadelphia neurodevelopmental cohort. NeuroImage, 86, 544–553.

Data:

• Neurodevelopmental Genomics: Trajectories of Complex Phenotypes dbGaP
• Phenotypes and data dictionary

Notes:

• Access expires July 12 2022
• Available MRI images for 997 Subjects at download link with Rudolf login
• Structural processed with FS6 end of 2020, ~1591 scans higher than quoted due to likely duplicates. Original paper reporting on more stringent QC:

In ongoing analyses, due to the deleterious effects of motion on connectivity data, a more stringent exclusion criterium of MRDN 0.2 mm or N20 displacements over 0.2 mm has been used, resulting in a sample of n = 1018.

• Phenotypes not on PBIL
• Affection_Status indicates whether participant is a case or control.

To-do:

• Copy from /shared/uher/BrainAge/PNC/Analysis/BIDS_raw/ to OpenDatasets
• Found only 2 subjects with complete FUNC_BOLD_REST Dicoms in Downloads. Need to download for all.
• Acquire phenotypes