SOCR News IBRO INSF Malaysia 2017

SOCR Events - INCF/IBRO 2017 Neuroscience Summer School and 2017 Malaysia Telemedicine Conference

INCF/IBRO Summer School

Logistics

• IBRO-APRC/INCF School on Neuroinformatics and Brain Connectivity Analysis 2017, Kuala Lumpur, Malaysia
• Dates: Sunday, August 06, 2017 09:00 PM -- Saturday, August 19, 2017 05:00 AM
• Location: Centre For Advanced And Professional Education (CAPE), Menara Kembar Bank Rakyat
• IBRO/INCF 2017 Summer School Trellis Forum (protected)
• Webcast: (archived YouTube) videos

Outlines of Prof. Dinov's lectures are listed below.

Aug 10, 2017 (Statistical Computing)

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
  • Datasets & Case-Studies

Aug 11, 2017 (High Throughput Processing of Big Neuroscience Data)

Statistical Computing

• Pipeline Environment
• Pipeline Client GUI – data, modules and workflow objects
• Module definition and workflow construction
• Pipeline workflows documentation
• Pipeline Workflow Library
• Pipeline workflow 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)
• GSA Doc
• GSA Try-It-Now, Try-It Now server; Cranium -> LONI -> Global Shape Analysis - Two Groups (Complete) workflow
• Minimum deformation template (MDT)
• Tensor-Based Morphometry (TBM)
• PLINK Association

Aug 15-16, 2017 3^rd Malaysia Telemedicine Conference (2017)

Statistical Computing

The theme of the 2017 Malaysia Telemedicine Conference is Healthcare for Tomorrow - The Disruptions Begin. Prof. Dinov's Keynote Presentation is titled 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

Aug 18, 2017 (Neuroimaging-genetics)

Statistical Computing

• Use these data and a skeleton of an R-script to generate a batch mode R invocation that runs in the pipeline as a module, computes some models (ALS dataset is included in the ZIP file) and saves the results locally in a file. See also the Pipeline R-invocation example.
• Predictive Big Data Analytics (PBDA/PD)
• PLINK association workflow
  • https://wiki.loni.usc.edu/index.php/PLINK_GWAS_Workflows
  • http://bit.ly/1BuiI5j
• Pipeline bioinformatics and Genomics computing pipeline workflows
• Design Matrices and Study-Modules: e.g., 12_ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv; save this CSV file locally, open the pipeline client, drag-and-drop the CSV into the workflow canvas, specify the second column as carrying the references to the imaging volumes, construct the study-module and plug it into the GSA workflow as input data
• 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
  • Torri, F., Dinov, ID, Zamanyan, A, Hobel, S, Genco, A, Petrosyan, P, Clark, AP, Liu, Z, Eggert, P, Pierce, J, Knowles, JA, Ames, J, Kesselman, C, Toga, AW, Potkin, SG, Vawter, MP, Macciardi, F. (2012) Next Generation Sequence Analysis and Computational Genomics Using Graphical Pipeline Workflows, Genes, 3(3):545-575; doi:10.3390/genes3030545.

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