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BIMETRA TRANSLATIONAL DATA MANAGEMENT Support and service models.
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Transcript of BIMETRA TRANSLATIONAL DATA MANAGEMENT Support and service models.
Data management software: SLims
• Web based
• Server within UZ Gent netwerk Outside UZ network
available through http://artemis.uzgent.be
with UZ login and eID reader
• Login with (LDAP) username and password
• Personalised view
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www.genohm.com
Options for using SLims
1) Read-only account in BB instance
Main goal: Overview of your samples stored in the Biobank facility
2) Write account in BB instance
Main goal: Overview of your samples stored in the Biobank facility and adding more data to these samples
3) Setup of your own SLims instance
Main goal: Use SLims for complete sample management of all your samples (stored in the Biobank facility and/or your own facility)
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Option 1: Read-only account in BB instance
Read-only account in BB instance
Main goal Overview of your samples stored in the Biobank facility
Access rights Read only access
Access to data fields Access to fixed set of data fields All users see the same fields 3 types of user roles: 1. No access to identifying data2. No access to identifying data, except
adremanumber3. Access to identifying data
Add your own customized data fields No,a few data fields are available to store your study specific dataf.e. reference id, purpose, remark
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Visible fields (~ 45)
• BB specific fields• Sample type (blood, serum, urine, …)• Sample ID (unique ID number)• BB status (reserved, transported, removed, …)
• Study specific fields• Reference ID• Remark
• MDS fields• Consent state (informed consent, residual material, unknown)• Collection date
• SPREC fields• Centrifugation (speed, time, temperature, …)• Type of collection (f.e. autopsy, biopsy, punction, …)
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Option 1: Read-only account in BB instance
Read-only account in BB instance
Access to content management module Yes
Search samples Yes
Save filters Yes
Export data to excel Yes
Access to ELN module No
Access to setup modules No
Add custom connections No
Customize your own structure No
Add samples stored in your own facility (not BB) No
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Option 1: Read-only account in BB instance
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• Extensive filter- en search options
• Save filters and reapply quickly
Option 1: Read-only account in BB instance
Read-only account in BB instance
Pricing*
Server license (normal price €15 900)
€ 0
Server & storage ICT(incl. backups)
€ 0
Customization by Bimetra admin (/hour) nvt
User license (/user/year) € 0
Update fee (/year) € 0
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* Pricing to be confirmed by Management Committee
Option 2: Write account in BB instance
Read-only account in BB instance Write account in BB instance
Main goal Overview of your samples stored in the Biobank facility
Overview of your samples stored in the Biobank facility and adding more data to these samples
Access rights Read only access Write access + read-only access
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Option 2: Write account in BB instance
Read-only account in BB instance
Write account in BB instance
Access to data fields Access to fixed set of data fields
All users see the same fields 3 types of user roles: 1.No access to identifying data2.No access to identifying data, except adremanumber3.Access to identifying data
Access to fixed set of data fields +Extra data fields can be added by Bimetra admin (at cost) Extra user roles can be added by Bimetra admin (at cost)
Add your own customized data fields
No,a few data fields are available to store your study specific dataf.e. reference id, purpose, remark
Yes, extra data fields can be added by Bimetra admin (at cost, max. 50)
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Option 2: Write account in BB instance
Read-only account in BB instance
Write account in BB instance
Access to content management module
Yes Yes
Search samples Yes Yes
Save filters Yes Yes
Export data to excel Yes Yes
Access to ELN module No No
Access to setup modules No No
Add custom connections No No
Customize your own structure No No
Add samples stored in your own facility (not BB)
No No
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Option 2: Write account in BB instance
• Bimetra admin can add your custom fieldsShort text, text box, whole number, decimal number, date, date and time, checkbox, fixed choice, dynamic choice, URL, rich text, quantity, time, barcode,comparator quantity, date difference, attachment
• You can add data• In form• Import of excel file
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Option 2: Write account in BB instance
• You can add data• In form• Import of excel file • Macro
• Add data for multiple samples at once• Pop-up screen shows only those fields that need to be completed
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Option 2: Write account in BB instance
• Audit trail• Track changes (who, when, previous value, new value)• No logging of searches
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Option 2: Write account in BB instance
Read-only account in BB instance
Write account in BB instance
Pricing*
Server license (normal price €15 900)
€ 0 € 0
Server & storage ICT(incl. backups)
€ 0 € 200
Customization by Bimetra admin (/hour)
nvt € 65
User license** (/user/year) € 0 € 810** for users with write access
Update fee (/year) € 0 € 270
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* Pricing to be confirmed by Management Committee
Option 3: Setup of your own SLims instance
Read-only account in BB instance
Write account in BB instance
Setup of your own SLims instance
Main goal Overview of your samples stored in the Biobank facility
Overview of your samples stored in the Biobank facility and adding more data to these samples
Use SLims for complete sample management of all your samples (stored in the Biobank facility and/or your own facility)
Access rights Read only access Write access + read-only access
Write access + administrator access (group admin) + read-only access
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Option 3: Setup of your own SLims instance
Read-only account in BB instance
Write account in BB instance
Setup of your own SLims instance
Access to data fields
Access to fixed set of data fields All users see the same fields 3 types of user roles: 1.No access to identifying data2.No access to identifying data, except adremanumber3.Access to identifying data
Access to fixed set of data fields +Extra data fields can be added by Bimetra admin (at cost) Extra user roles can be added by Bimetra admin (at cost)
Access to fixed set of data fields +Extra data fields can be added by Bimetra admin (at cost ) or by group admin Extra user roles can be added by Bimetra admin (at cost ) or by group admin
Add your own customized data fields
No, a few data fields are available to store your study specific data (f.e. reference id, purpose, remark)
Yes, extra data fields can be added by Bimetra admin (at cost, max. 50)
Yes, extra data fields can be added by Bimetra admin (at cost) or group admin
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Option 3: Setup of your own SLims instance
Read-only account in BB instance
Write account in BB instance
Setup of your own SLims instance
Access to content management module
Yes Yes Yes
Search samples Yes Yes Yes
Save filters Yes Yes Yes
Export data to excel Yes Yes Yes
Access to ELN module No No Yes
Access to setup modules No No Yes
Add custom connections No No Yes
Customize your own structure
No No Yes
Add samples stored in your own facility (not BB)
No No Yes
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Option 3: Setup of your own SLims instance
• Register samples
use macro or specific flow (custom made)• Make new content • Edit content • Find free position• Print labels • …
F.e. sample registration in Bimetra Biobank
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Option 3: Setup of your own SLims instance
• Connection with other software• Import patient data from EPD (read only)
• Adremanumber• Gender• Date of birth
• Other connections can be set up (f.e. Labview, ‘observationpages’ in EPD)
• Connection with BB instance for samples stored there
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Option 3: Setup of your own SLims instance
• Reports • Automatic e-mails• Design of labels• Location overview
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Option 3: Setup of your own SLims instance
Read-only account in BB instance
Write account in BB instance
Setup of your own SLims instance
Pricing*
Server license (normal price €15 900)
€ 0 € 0 € 0
Server & storage ICT(incl. backups)
€ 0 € 200 € 2000
Customization by Bimetra admin (/hour)
nvt € 65 € 65
User license** (/user/year)
€ 0 € 810** for users with write access
€ 810** for users with write access
Update fee (/year) € 0 € 270 € 2700
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* Pricing to be confirmed by Management Committee
Example: write account in BB instance
Amount Write account in BB instance
Pricing*
Server license / € 0
Server & storage ICT(incl. backups)
1x € 200
Customization by Bimetra admin (/hour)
- Add 20 custom fields- Add 3 additional user roles
3h**1h**
€ 195€ 65
User license (/user/year)- Users with write access- Users with read-only access
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€ 1620€ 0
Update fee (/year) (starting from of year 2) 1 € 270
* Pricing to be confirmed by Management Committee** Estimation, depends on complexity of the project
Total cost year 1: € 2080 (= 200+195+65+1620)
Total cost year 2 and next: € 1890 (= 1620+270)
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Example: setup of your own SLims instanceAmount Setup of your own SLims
instance
Pricing*
Server licence / € 0
Server & storage ICT(incl. backups)
1x € 2000
Customization by Bimetra admin (/hour)
- Training of group admin- Customization by Bimetra
40h**20h**
€ 2600€ 1300
User license (/user/year)- Users with write access- Users with read-only access
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€ 1620€ 0
Update fee (/year) (starting from of year 2) 1 € 2700
* Pricing to be confirmed by Management Committee** Estimation, depends on complexity of the project
Total cost year 1: € 7520 (= 2000+2600+1300+1620)
Total cost year 2 and next: € 4320 (= 1620+2700)
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Contact
• Lieselot Vanlanduyt• Joachim Geeraert• Lieven Vaneeckhaute
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Connections: regional, national, international context • BVT
Monthly export of selected samples to Belgian Virtual Tumour Biobank
• CMILocal node for focus biobank sample data exchange on the Centrum for Medical Innovation “Backbone”
• BBMRI-ERICBiobanking and BioMolecular resources Research Infrastructure (pan-European)Biobank “Yellow Pages”National Biobank catalogue
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Connections: international context
Biobanker• Minimal overhead, no retyping• Demonstrate value of BB• Protect data• See comparable biobanks
Requester• Find biobank in BB “yellow
pages” or national catalogue• Select BB based on metadata
• Phase1 : “yellow pages”, limited to biobank metadata
• Phase 2 : query functionality on samples
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