SOCR News IBRO INSF Malaysia 2017
Contents
SOCR Events - INCF/IBRO 2017 Neuroscience Summer School
Logistics
Aug 10, 2017 (Statistical Computing)
- Data Science and Predictive Analytics
- Motivation
- I. Foundations of R
- II. Data Management
- III. Visualization
- X. Black Box Machine-Learning Methods: Neural Networks and Support Vector Machines
- XVII. Regularized Linear Modeling and Controlled Variable Selection
- XIX. Text Mining and Natural Language Processing
- XX. Forecasting and Prediction with Statistical Cross-Validation
- XXII. Deep Learning and Neural Networks
- & Case-Studies
Aug 11, 2017 (High Throughput Processing of Big Neuroscience Data)
- Environment
- [Pipeline Client GUI – data, modules and workflow objects
- [Module definition (http://pipeline.loni.usc.edu/learn/user-guide/creating-modules/#Simple%20modules) and workflow construction (http://pipeline.loni.usc.edu/learn/user-guide/building-a-workflow/#Building%20a%20workflow)
- [Pipeline workflows documentation: https://wiki.loni.usc.edu/index.php/Main_Page
- [Pipeline Workflow Library: http://pipeline.loni.usc.edu/explore/library-navigator/
- [Pipeline workflow miner: http://pipeline.loni.usc.edu/files/miner/
- [Case-studies
- [Global Shape Analysis (GSA)
- Simple 3 cohort study of dementia
- /ifs/loni/ccb/collabs/2017/INCF_IBRO_SummerSchool
- GSA workflow (ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv)
- [Global Shape Analysis (GSA)
- [ https://wiki.loni.usc.edu/index.php/Global_Shape_Analysis_(GSA)_Workflow
- [http://bit.ly/1Djhihs
- Try-It Now server; Cranium -> LONI -> Global Shape Analysis - Two Groups (Complete) workflow
- Minimum deformation template (MDT): https://wiki.loni.usc.edu/index.php/MDT_Atlasing_Workflow
- Tensor-Based Morphometry (TBM): http://pipeline.loni.usc.edu/explore/library-navigator/
- PLINK Association: http://pipeline.loni.usc.edu/explore/library-navigator/
===Aug 15-16, 2017 Dr. Dinov's Keynote Presentation, Predictive Data Analytics, Tuesday, 15 August 2017 at 9.00-9.45 AM, Sunway Medical Centre, Hospital Pusat Perubatan Sunway, 5, Jalan Lagoon Selatan, Bandar Sunway, 47500 Petaling Jaya, Selangor
- Lecture notes (PDF)
- Outline
- Driving biomedical problems and motivational health challenges
- Neurodegeneration
- Pheno-Geno-Enviro
- Common Characteristics of Big (Biomedical and Health) Data
- Data science
- Predictive analytics
- Case-studies
- Tomorrow’s Healthcare: The Age of Disruptions
- Open Problems
- Future Healthcare Innovation & Delivery
- Driving biomedical problems and motivational health challenges
=== Aug 18, 2017 (Neuroimaging-genetics)
- Predictive Big Data Analytics (PBDA/PD): https://github.com/SOCR/PBDA
- PLINK association workflow
- Pipeline bioinformatics and Genomics computing pipeline workflows https://wiki.loni.usc.edu/index.php/LONI_Pipeline_Genomics_and_Informatics_Workflow_Solutions
- Examples of published studies
- Moon, S., Dinov, ID, Kim, J, Zamanyan, A, Hobel, S, Thompson, PM, Toga, AW (2015) Structural Neuroimaging Genetics Interactions in Alzheimer's Disease. Journal of Alzheimer's Disease, 48(4):1051-63, doi: 10.3233/JAD-150335 (PMID: 26444770)
- Moon, SW, Dinov, ID, Hobel, S, Zamanyan, A, Choi, YC, Thompson, PM, Toga, AW and Alzheimer's Disease Neuroimaging Initiative (ADNI) (2015) Structural Brain Changes in Early-Onset Alzheimer's Disease Subjects Using the LONI Pipeline Environment. Journal of Neuroimaging, 25(5):728–737,. DOI: 10.1111/jon.12252
- Moon, SW, Dinov ID, Zamanyan, A, Shi, R, Genco, A, Hobel, S, Thompson, PM, Toga, AW and Alzheimer's Disease Neuroimaging Initiative (ADNI) (2015) Gene Interactions and Structural Brain Change in Early-Onset Alzheimer's Disease Subjects Using the Pipeline Environment . Psychiatry Investigation, 12(1):125-135. DOI: 10.4306/pi.2015.12.1.125
- SOCR Home page: http://www.socr.umich.edu
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