Nilo-PD continued (Cohort 1/2 + Available Data + Biospecimens), MJFF PPMI iPSC LINES, MJFF biobank contacts, 14 Types of Samples Available, Cohort Consortium ETBNRPP, tranSMART panel, Netherlands Brain Bank opener (autopsy procedures + paraffin embedded samples)
Nilo-PD (continued)
| content | |
|---|---|
| Study Subjects | 76 moderate to advanced PD patients |
| Cohort 1: Participants with moderately advanced PD (On duration > 5y, H&Y > 2 and < 4 in the ON state) ↑ - (Simuni 2021 #2231) mainly the dosed patients were H&Y ~ 3 On duration ~ 10y | |
| Cohort 2: Participants with early untreated PD | |
| Available data | measures of neurological function, severity of PD, cognition and mood. All data are de-identified to protect patient privacy. |
| Available biospecimens | DNA, CSF, plasma, whole blood, serum, PBMCs |
| Learn more | Request Biospecimens / Explore Biospecimens Inventory |
| Study Documents | Study Protocol & Schedule of Activities / Operations Manual / Biologics Manual |
MJFF PPMI iPSC LINES
PPMI is from PPMI participants across different study arms, were used to generate iPSC lines. Lines are available by request at https://www.ppmi-info.org/access-data-specimens/request-cell-lines.
- MJFF working to generate magnetic controls for these harboring PD mutations.
- Lines should be available in mid-late 2017.
- Anyone modifying PPMI iPSC line must deposit the modified line back to the repository this will permit offerings for others moving forward.
- CSF call test by NF1 CER ALG93 and 2 BMG GFP-NF1 - SK-N-AS
Lines are available for request at https://www.ppmi-info.org/access-data-specimens/request-cell-lines
MJFF biobank — contacts
https://mjffbiobank.org/v1/biospecimens-and-data
| Questions/Comments | Samantha Hutten shutten@michaeljfox.org 845-729-1512 sam.osinland@gmail.com (?) the FD BBM (Parkinson’s Disease Biospecimen Review Access Committee) |
|---|---|
| ** more email: Senior Director of Research Partnerships biosamples — she is responsible for overseeing biosample resources and managing the Foundation’s PPMI and BioFiND scientific biomarker portfolios |
List of cohort with available biospecimens: https://mjff.michaeljfox.org/biospecimens
14 Types of Samples Available
Participant’s Progressive Markers Initiative + BioFiND tables (Plasma / Buffy Coat / Serum / CSF / Saliva / Whole Blood / DNA / Cell Lines / RBC / RNA / WBC / Buffy Coat / Stool / Urine etc with checkmark availability columns).
(Cohort Consortium ETBNRPP rows: LRRK2 Cohort Consortium / WAY)
Accessing biospecimens and data
(Sample data table with rows for Brain / Plasma / Serum / Saliva / Whole Blood / RNA / RBC / Stool / Urine etc.)
tranSMART
CSF samples (Lin Mass MMS) from Parkinson Disease patients in different times are available
Netherlands Brain Bank
Online database access at NBB provides online access to the NBB database. This enables researchers to find detailed information on current tissue availability. Furthermore, it is possible to make your own tissue selection, then research it for ante-mortem and / or post-mortem parameters if necessary. To request tissue: For questions concerning the eNBB please contact the eNBB staff (enbb@inn.knaw.nl)
Username: jae.won.koo@takeda.com Password: ABQA1Csv
| sample type | container size | note |
|---|---|---|
| Larger crystal -80°C | 1g | 250-500mg |
| Most of our frozen tissue samples will likely be 1-2 grams | ||
| smaller crystal -80°C | 1g | |
| a plastic boy -80°C | 1-2g | |
| Eppendorf tube -80°C | 5ml | 5cc CSF samples evenly contain 1 ml |
ABBR sample volume Supplier ID: 0000091737 (Netherlands brain bank ION 01)
(Autopsy) With autopsy we make a cut through the cerebral peduncles to dissect brainstem and cerebellum from the cerebrum. Then we cut the brainstem in halves. The right half is put into a formaldehyde to later prepare paraffin embedded samples (input superior colliculus, inferior colliculus…). From the left half of the brainstem the substantia nigra and the locus coeruleus are collected in frozen samples. So for most cases we do have 5 frozen and 1 paraffin embedded sample.
Paraffin embedded samples: Upon autopsy, tissue is fixed for about 30 days in 4% formaldehyde. Then the tissue sample is embedded in paraffin. Sample size approximates 1 gram. on request (& depending on committees decision), they may provide the block or they generate FFPE section (8 um, as below).
1 One unit of tissue is defined as follows:
- Paraffin and frozen tissue blocks: 1 tissue block is equal to 1 unit.