Difference in ExamData

[Hamed Taheri Gorji]

Dear TADPOLE group,

I have checked the TADPOLE_D1-D2.csv and DXSUM_PDXCONV_ADNIALL from ADNI.

When I have checked the EXAMDATE of these two files there is a difference between them for the subject with the same RID. For example:

Also, if you check and compare the other RIDs you can see the other differences.

Could you please let me know why the EXAMDATE is different between these to files?

Thank you,

Hamed

[Razvan Marinescu]

Hi Hamed,

The images you attached don't display. Can you try to attach them again (maybe upload them on imgur or similar photo hosting website)

Raz

[Hamed Taheri Gorji]

Hi Razvan,

Thanks for your replay.

Please find the attached files.

Best,

Hamed

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[Razvan Marinescu]

Hi Hamed,

In general for ADNI, a patient is scheduled for different visits at key checkpoints: baseline, 6 months, 12 months, etc .. Since each checkpoint contains data collection of multiple modalities (history taking, cognitive tests, MRI scan, PET scan), they all require different appointments with the relevant doctor or for the scanner time. Not all the appointments can happen on the same day, and they usually can be 2-3 weeks apart. Scans are taken when scanners are available, cognitive tests are taken in batches by different clinical personnel. I'm not sure if history taking and diagnosis are set on a different appointment themselves from cognitive tests (we can find that out in the ADNI protocol/manual).      

Regarding those specific dates, I don't have time right now to track down why exactly they are different. The one on DXSUM is likely the date when the diagnosis was set (probably along with history taking). The date you mention in the TADPOLE spreadsheet was taken from ADNIMERGE.csv, which was itself extracted by Mike Donohue's R script from one of the other spreadsheets uploaded on LONI. If you need to, you can check that R script (it's available on LONI, see ADNIMERGE package) to track it down further and read the ADNI manual to find out exactly the protocol. Another solution is to just use one of those dates (or both dates, each for measurements adjacent to them) in your model. 

I know this doesn't fully answer your question, but I hope it provides a good starting point.

Raz

On Wednesday, 1 July 2020 12:01:29 UTC-4, Hamed Taheri Gorji wrote:

Hi Razvan,

Thanks for your replay.

Please find the attached files.

Best,

Hamed

On Wed, 1 Jul 2020 at 10:58, Razvan Marinescu wrote:

Hi Hamed,

The images you attached don't display. Can you try to attach them again (maybe upload them on imgur or similar photo hosting website)

Raz

On Wednesday, 1 July 2020 11:42:58 UTC-4, Hamed Taheri Gorji wrote:

Dear TADPOLE group,

I have checked the TADPOLE_D1-D2.csv and DXSUM_PDXCONV_ADNIALL from ADNI.

When I have checked the EXAMDATE of these two files there is a difference between them for the subject with the same RID. For example:

Also, if you check and compare the other RIDs you can see the other differences.

Could you please let me know why the EXAMDATE is different between these to files?

Thank you,

Hamed

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[Razvan Marinescu]

Posting this answer here as well, in case others have the same question.

Raz

------------------------------

Hi Hamed,

"Are the numbers in the DXCHANGE column based on the ADNIGO diagnosis variables (Please find the attached file (ADNI))?"

Yes, that's correct. The meaning of DXCHANGE is described there. 

"For example subject with RID 112 (file attached (3)) in m06 his DX_bl is LMCI with the DXCHANGE = 7 which means this subject reverted from MCI to Normal while in m12 the DX_bl of this subject still is LMCI and DXCHANGE = 4 which means again converted from normal to MCI."

DX_bl shows the diagnosis at baseline visit (so the very first visit of that subject) -- it doesn't change over time (in this case it stays as LMCI). DXCHANGE shows only the change in diagnosis. For the actual diagnosis at current timepoint, see the column called DX, which appears later on in the spreadsheet (column BC in MS Excel). 

This subject went through this progression: MCI (baseline) -> Normal (month 6) -> MCI (month 12). Note that since the diagnosis can be noisy/inaccurate, such reversions (MCI -> Normal) can happen.

Raz

On Wed, 1 Jul 2020 at 16:01, Hamed Taheri Gorji wrote:

Hi Razvan,

Thank you so much for your information.

Sorry to bother you but just I have one more question and I want to be sure regarding the DXCHANGE column.

Are the numbers in the DXCHANGE column based on the ADNIGO diagnosis variables (Please find the attached file (ADNI))?

For example, one subjects with DX_bl = CN and DXCHANGE = 4, the number 4 means this subjects converted from CN to MC. Am I right? 

If I am right but still there is a confusion here.

For example subject with RID 112 (file attached (3)) in m06 his DX_bl is LMCI with the DXCHANGE = 7 which means this subject reverted from MCI to Normal while in m12 the DX_bl of this subject still is LMCI and DXCHANGE = 4 which means again converted from normal to MCI.

It's a bit confusing for me and I would be so thankful if you could explain it to me.

Thanks,

Hamed