Learn How to Use ADNI Data Have you seen the Alzheimer's Disease Neuroimaging Initiative's new and improved data website? The ADNI biostatistics core will hold the first session of a two-part online training on using ADNI data on Thursday, April 4, from 8 to 10 a.m. PDT. After a brief overview of ADNI 1, ADNI GO, and ADNI 2, this session will teach attendees how to navigate study-related websites, download data, and use visualization tools on the LONI website. The training will emphasize where to find study details and how to make use of available resources. A second training session will dig deeper, addressing questions on confusing features of the data. Slides from the presentations are available on the Alzforum and LONI websites after the training. To register, please contact Naomi Saito (nhsaito@ucdavis.edu).

1. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI Data Training Part 1
ADNI Biostatistics Core Team
UC Davis School of Medicine
Department of Public Health Sciences
April 4, 2013
ADNI Biostatistics Core Team ADNI Data Training Part 1

2. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Outline
Today’s Presentation Outline
About ADNI
How to navigate ADNI website
How to download data
How to use visualization tool
ADNI Biostatistics Core Team ADNI Data Training Part 1

3. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
About ADNI
The Alzheimer’s Disease Neuroimaging Initiative (ADNI)
On-going multisite longitudinal study
Subjects are recruited from 55 sites in the U.S. and Canada
Five diagnostic categories
cognitively normal (CN)
significant memory concern (SMC) - newly added group
early MCI (EMCI)
late MCI (LMCI)
mild AD (AD)
Collect clinical/imaging/genetic/biospecimen/biomarker data
Validate biomarkers for use in Alzheimer’s disease clinical
trials.
ADNI Biostatistics Core Team ADNI Data Training Part 1

4. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
About ADNI
The study has 3 phases
ADNI1: 5 years from October 2004
ADNIGO: 2 years from September 2009
ADNI2: 5 years from September 2011
ADNI Biostatistics Core Team ADNI Data Training Part 1

5. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
About ADNI
The study has 3 phases
New participants were recruited during each phase of the
study.
Participants are followed and reassessed over time to track the
pathology of the disease as it progresses.
ADNI Biostatistics Core Team ADNI Data Training Part 1

6. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Navigate ADNI website
Two important websites for ADNI.
ADNI-Info website
LONI (Laboratory of Neuro Imaging, UCLA) website
ADNI Biostatistics Core Team ADNI Data Training Part 1

7. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
ADNI-info Homepage: www.adni-info.org
ADNI Biostatistics Core Team ADNI Data Training Part 1

8. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
ADNI introduction video (9 minutes).
ADNI Biostatistics Core Team ADNI Data Training Part 1

9. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
ADNI-info website has basic information about ADNI study.
ADNI Biostatistics Core Team ADNI Data Training Part 1

10. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
Link to the ADNI Procedure Manuals.
ADNI Biostatistics Core Team ADNI Data Training Part 1

11. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
Procedure manuals are located here.
ADNI Biostatistics Core Team ADNI Data Training Part 1

12. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
Steering Committee Meeting page has slides from previous
presentations.
ADNI Biostatistics Core Team ADNI Data Training Part 1

13. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI-Info website
Presentation slides are available to view/download.
ADNI Biostatistics Core Team ADNI Data Training Part 1

14. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
ADNI Data Page: adni.loni.ucla.edu
ADNI Biostatistics Core Team ADNI Data Training Part 1

15. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
New video from LONI.
ADNI Biostatistics Core Team ADNI Data Training Part 1

16. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
A brief introduction to ADNI data.
ADNI Biostatistics Core Team ADNI Data Training Part 1

17. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
You can learn more about ADNI.
ADNI Biostatistics Core Team ADNI Data Training Part 1

18. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
You can view some study documents under STUDY DESIGN
ADNI Biostatistics Core Team ADNI Data Training Part 1

19. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Study Documents
Complete Study Schedule can be downloaded.
ADNI Biostatistics Core Team ADNI Data Training Part 1

20. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Study Documents
Complete Study Schedule tells you which tests are done at each
visit.
ADNI Biostatistics Core Team ADNI Data Training Part 1

21. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
Please check News regularly or subscribe to RSS.
ADNI Biostatistics Core Team ADNI Data Training Part 1

22. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
Frequently asked questions are found under SUPPORT.
ADNI Biostatistics Core Team ADNI Data Training Part 1

23. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Home Page
You can also use the Google Site Search to find information on
LONI website.
ADNI Biostatistics Core Team ADNI Data Training Part 1

24. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Ask the Experts
Ask the Experts page will be available soon. (tentatively April
8th)
ADNI Biostatistics Core Team ADNI Data Training Part 1

25. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Ask the Experts
Q&A from Ask the Experts will be posted on the Experts
Knowledge Base, and will be searchable by users.
ADNI Biostatistics Core Team ADNI Data Training Part 1

26. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Home Page
You can learn more about data from here.
ADNI Biostatistics Core Team ADNI Data Training Part 1

27. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Download Data
How to download data from LONI
ADNI Biostatistics Core Team ADNI Data Training Part 1

28. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Access Data
Go to Access Data page from DATA & SAMPLES.
ADNI Biostatistics Core Team ADNI Data Training Part 1

29. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Access Data
Or click APPLY FOR DATA ACCESS.
ADNI Biostatistics Core Team ADNI Data Training Part 1

30. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Access Data
Apply for Access to Data as shown below.
(aibl is the Australian study.)
ADNI Biostatistics Core Team ADNI Data Training Part 1

31. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Access Data
Apply for Access to Data.
Read and Agree ADNI Data Use Agreement.
Complete ADNI Data Access Application (name, e-mail
address, institution, proposed analysis, etc.)
All applications are reviewed by the Data Publication and
Sharing Committee within one week of submission.
ADNI Biostatistics Core Team ADNI Data Training Part 1

32. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Access Data
After you receive password, enter your e-mail and password to go
to Data Download page.
ADNI Biostatistics Core Team ADNI Data Training Part 1

33. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
You can view DOWNLOAD instruction slide from here.
ADNI Biostatistics Core Team ADNI Data Training Part 1

34. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
Click DOWNLOAD to go to Download Study Data page.
ADNI Biostatistics Core Team ADNI Data Training Part 1

35. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
You can download data from the Download Study Data page.
ADNI Biostatistics Core Team ADNI Data Training Part 1

36. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
You can download a single data file by clicking an item as below.
ADNI Biostatistics Core Team ADNI Data Training Part 1

37. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
OR You can download a group of data. Click a group as below.
ADNI Biostatistics Core Team ADNI Data Training Part 1

38. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
Then click Download.
ADNI Biostatistics Core Team ADNI Data Training Part 1

39. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI: Download Data
Optional: You can download data from a specific date.
ADNI Biostatistics Core Team ADNI Data Training Part 1

40. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Download Study Data
ADNIMERGE packages are located under Study Info
(R, SAS, STATA, and SPSS)
ADNI Biostatistics Core Team ADNI Data Training Part 1

41. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNIMERGE
What is the ADNIMERGE package?
This contains all ADNI data (except genetic data).
R, SAS, Stata and SPSS versions are available.
Mike Donohue from UC San Diego wrote R code to store R
dataframes in SAS, Stata, and SPSS.
It includes ’adnimerge’ data which contains commonly used
variables (i.e. demographic, clinical exam, MRI and PET
variables)
Labels & formatting have been incorporated in R, SAS, Stata.
ADNIMERGE packages are updated daily.
ADNI Biostatistics Core Team ADNI Data Training Part 1

42. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI : Download Data
Data dictionary is located under Study Info
ADNI Biostatistics Core Team ADNI Data Training Part 1

43. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI : Search Data
Back to the Home Page, we have Data Dictionary Search.
ADNI Biostatistics Core Team ADNI Data Training Part 1

44. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI : Search Data
You can enter a term you want to search.
ADNI Biostatistics Core Team ADNI Data Training Part 1

45. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
LONI website: Data Dictionary Search
Search results for the ’USERDATE’.
ADNI Biostatistics Core Team ADNI Data Training Part 1

46. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNIMERGE package
For ADNIMERGE package users: static html document is available.
adni.bitbucket.org
ADNI Biostatistics Core Team ADNI Data Training Part 1

47. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI MERGE document
We can view data description and variable list.
ADNI Biostatistics Core Team ADNI Data Training Part 1

48. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI MERGE document
You can use the search box.
ADNI Biostatistics Core Team ADNI Data Training Part 1

49. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI MERGE document
For example, we can enter hippocampal volume.
ADNI Biostatistics Core Team ADNI Data Training Part 1

50. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
ADNI MERGE document
This will be the search result.
ADNI Biostatistics Core Team ADNI Data Training Part 1

51. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool
Visualization Tool helps you to visualize data easily.
Please note:
Not all assessments (variables) are available.
Database is updated in real-time.
Numbers in the slide will be different from current one.
ADNI Biostatistics Core Team ADNI Data Training Part 1

52. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool
After you login
ADNI Biostatistics Core Team ADNI Data Training Part 1

53. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool
Click EXPLORE tab
ADNI Biostatistics Core Team ADNI Data Training Part 1

54. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool
Visualization Page
ADNI Biostatistics Core Team ADNI Data Training Part 1

55. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Define Populations
First, you need to define populations.
ADNI Biostatistics Core Team ADNI Data Training Part 1

56. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Define Populations
Currently, Population#1 are MMSE of 20≤30 and AD.
ADNI Biostatistics Core Team ADNI Data Training Part 1

57. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Define Populations
We can remove MMSE restriction by clicking here
ADNI Biostatistics Core Team ADNI Data Training Part 1

58. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Define Populations
Now Population #1 is all AD.
ADNI Biostatistics Core Team ADNI Data Training Part 1

59. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Define Populations
We can add more restrictions from the pull-down menu to define
each population.
ADNI Biostatistics Core Team ADNI Data Training Part 1

60. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Define Populations
For Assessment variable, we can restrict by visit time also.
ADNI Biostatistics Core Team ADNI Data Training Part 1

61. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Compare Populations
Second, you need to select variables.
ADNI Biostatistics Core Team ADNI Data Training Part 1

62. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Compare Populations
Currently, Age at Screening and NPI are set.
ADNI Biostatistics Core Team ADNI Data Training Part 1

63. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Compare Populations
We can choose different variables from pull-down menu.
ADNI Biostatistics Core Team ADNI Data Training Part 1

64. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Compare Populations
In this example, we chose Gender and MMSE.
ADNI Biostatistics Core Team ADNI Data Training Part 1

65. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Graphs
Mean of MMSE: highest is normal(green), lowest is AD(blue)
MMSE score declined by time in MCI(red) and AD(blue)
ADNI Biostatistics Core Team ADNI Data Training Part 1

66. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Graphs
Bottom graphs show frequencies by each variable
We have more Male subjects in population#3 and #1
ADNI Biostatistics Core Team ADNI Data Training Part 1

67. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Download Data
We can also download data from here.
You can Add/Remove variables by clicking here.
ADNI Biostatistics Core Team ADNI Data Training Part 1

68. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Download Data
These are the available variables to add.
ADNI Biostatistics Core Team ADNI Data Training Part 1

69. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Download Data
After you add desired variables, click Change Columns
ADNI Biostatistics Core Team ADNI Data Training Part 1

70. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Download Data
After adding desired variables, we can download csv data file.
ADNI Biostatistics Core Team ADNI Data Training Part 1

71. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Visualization Tool: Download Data
This data will have wide format
ADNI Biostatistics Core Team ADNI Data Training Part 1

72. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Having Question?
If you have questions, please check FAQ section first.
Still no answers?
ADNI Biostatistics Core Team ADNI Data Training Part 1

73. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Having Question?
Search your question using Experts Knowledge Base.
(will be available soon)
Still no answers?
ADNI Biostatistics Core Team ADNI Data Training Part 1

74. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Having Question?
You can contact us from here.
ADNI Biostatistics Core Team ADNI Data Training Part 1

75. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Having Question?
Or Ask the Experts page (will be available soon)
ADNI Biostatistics Core Team ADNI Data Training Part 1

76. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Having Question?
Or you may join ADNI Data User Google Group.
https://groups.google.com/d/forum/adni-data
ADNI Biostatistics Core Team ADNI Data Training Part 1

77. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Q&A
Any questions?
ADNI Biostatistics Core Team ADNI Data Training Part 1

78. About ADNI
Navigate ADNI website
LONI: Download data
Visualization Tool
Thank You
Thank you.
ADNI Biostatistics Core Team ADNI Data Training Part 1