Difference between revisions of "SOCR News IBRO INSF Malaysia 2017"

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== [[SOCR_News#2017 | SOCR Events]] - INCF/IBRO 2017 Neuroscience Summer School==
  
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=== Logistics ===
  
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===Aug 10, 2017 (Statistical Computing) ===
  
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Dinov Lecture Notes Organization
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* [http://DSPA.predictive.space Data Science and Predictive Analytics]
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INCF/IBRO 2017 Neuroscience Summer School
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/00_Motivation.html Motivation]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/01_Foundation.html I. Foundations of R]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/02_ManagingData.html II. Data Management]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/03_DataVisualization.html III. Visualization]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/10_ML_NN_SVM_Class.html X. Black Box Machine-Learning Methods: Neural Networks and Support Vector Machines]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/17_RegularizedLinModel_KnockoffFilter.html XVII. Regularized Linear Modeling and Controlled Variable Selection]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/19_NLP_TextMining.html XIX. Text Mining and Natural Language Processing]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/20_PredictionCrossValidation.html XX. Forecasting and Prediction with Statistical Cross-Validation]
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** [http://www.socr.umich.edu/people/dinov/2017/Spring/DSPA_HS650/notes/22_DeepLearning.html XXII. Deep Learning and Neural Networks]
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** [https://umich.instructure.com/courses/38100/files/folder/Case_StudiesDatasets & Case-Studies]
  
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===Aug 11, 2017 (High Throughput Processing of Big Neuroscience Data)===
  
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Aug 10 Ivo Dinov (Statistical Computing)
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* [http://pipeline.loni.usc.eduPipeline Environment]
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• Data Science and Predictive Analytics (http://DSPA.predictive.space)  
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* [Pipeline Client GUI – data, modules and workflow objects
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o Motivation
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* [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)  
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o I. Foundations of R
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* [Pipeline workflows documentation: https://wiki.loni.usc.edu/index.php/Main_Page
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o II. Data Management
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* [Pipeline Workflow Library: http://pipeline.loni.usc.edu/explore/library-navigator/
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o III. Visualization
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* [Pipeline workflow miner: http://pipeline.loni.usc.edu/files/miner/
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o X. Black Box Machine-Learning Methods: Neural Networks and Support Vector Machines
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* [Case-studies
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o XVII. Regularized Linear Modeling and Controlled Variable Selection
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** [Global Shape Analysis (GSA)
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o XIX. Text Mining and Natural Language Processing
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*** Simple 3 cohort study of dementia
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o XX. Forecasting and Prediction with Statistical Cross-Validation
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*** /ifs/loni/ccb/collabs/2017/INCF_IBRO_SummerSchool
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o XXII. Deep Learning and Neural Networks
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*** GSA workflow (ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv)
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o Datasets & Case-Studies: https://umich.instructure.com/courses/38100/files/folder/Case_Studies
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* [ https://wiki.loni.usc.edu/index.php/Global_Shape_Analysis_(GSA)_Workflow
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* [http://bit.ly/1Djhihs
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** Try-It Now server; Cranium -> LONI -> Global Shape Analysis - Two Groups (Complete) workflow
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* Minimum deformation template (MDT): https://wiki.loni.usc.edu/index.php/MDT_Atlasing_Workflow
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* Tensor-Based Morphometry (TBM): http://pipeline.loni.usc.edu/explore/library-navigator/  
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* PLINK Association: http://pipeline.loni.usc.edu/explore/library-navigator/
  
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Aug 11 Ivo Dinov (High Throughput Processing of Big Neuroscience Data)
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===Aug 15-16, 2017
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• Pipeline Environment http://pipeline.loni.usc.edu
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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
−
• 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
 
−
o Global Shape Analysis (GSA)
 
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 Simple 3 cohort study of dementia
 
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 /ifs/loni/ccb/collabs/2017/INCF_IBRO_SummerSchool
 
−
 GSA workflow (ADNI_11AD_11_MCI_11HC_CaseStudy_DM.csv)
 
−
• 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
 
−
o Minimum deformation template (MDT): https://wiki.loni.usc.edu/index.php/MDT_Atlasing_Workflow
 
−
o Tensor-Based Morphometry (TBM): http://pipeline.loni.usc.edu/explore/library-navigator/
 
−
o PLINK Association: http://pipeline.loni.usc.edu/explore/library-navigator/
 
  
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* [http://socr.umich.edu/docs/uploads/Dinov_PredictiveDataAnalytics_2017_MalaysiaTelemedicine.pdf 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
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** Tomorrow’s Healthcare:  The Age of Disruptions
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*** Open Problems
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*** Future Healthcare Innovation & Delivery
  
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Aug 15-16 Dinov Keynote, Plenary 1- Predictive Data Analytics scheduled on Tuesday, 15 August 2017 at 9.00-9.45 am (45 minutes), at the Sunway Medical Centre, Hospital Pusat Perubatan Sunway, 5, Jalan Lagoon Selatan, Bandar Sunway, 47500 Petaling Jaya, Selangor
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=== Aug 18, 2017 (Neuroimaging-genetics)
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• Lecture notes: http://socr.umich.edu/docs/uploads/Dinov_PredictiveDataAnalytics_2017_MalaysiaTelemedicine.pdf
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* Predictive Big Data Analytics (PBDA/PD): https://github.com/SOCR/PBDA
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• Driving biomedical problems and motivational health challenges
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* PLINK association workflow
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o Neurodegeneration
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** https://wiki.loni.usc.edu/index.php/PLINK_GWAS_Workflows
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o Pheno-Geno-Enviro
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** http://bit.ly/1BuiI5j
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• Common Characteristics of Big (Biomedical and Health) Data
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* Pipeline bioinformatics and Genomics computing pipeline workflows https://wiki.loni.usc.edu/index.php/LONI_Pipeline_Genomics_and_Informatics_Workflow_Solutions
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• Data science
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* Examples of published studies
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• Predictive analytics
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** 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)
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• Case-studies
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** 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
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• Tomorrow’s Healthcare: The Age of Disruptions
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** 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
  
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Aug 18 Ivo Dinov (Neuroimaging-genetics)
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<hr>
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• Predictive Big Data Analytics (PBDA/PD): https://github.com/SOCR/PBDA
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* SOCR Home page: http://www.socr.umich.edu
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• PLINK association workflow
+
 
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o https://wiki.loni.usc.edu/index.php/PLINK_GWAS_Workflows
+
{{translate|pageName=http://wiki.socr.umich.edu/index.php/SOCR_News_IBRO_INSF_Malaysia_2017}}
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o http://bit.ly/1BuiI5j
 
−
• 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
 
−
o 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)
 
−
o 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
 
−
o 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
 
−
•
 

Revision as of 16:33, 30 July 2017

SOCR Events - INCF/IBRO 2017 Neuroscience Summer School

Logistics

Aug 10, 2017 (Statistical Computing)

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

===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

=== 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

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