ID
44160
Description
SBP is the national coordination platform for human and non-human biobanks. The dataset covers the different biobanking processes from sampling to retrieval and propose a common language to describe preanalytical attributes of samples. It also includes some health related data required for initial searches of suitable samples. Finally, it covers fields related to quality of biobanking processes. More information can be found at https://swissbiobanking.ch
Link
Keywords
Versions (2)
- 11/27/19 11/27/19 -
- 9/20/21 9/20/21 -
Copyright Holder
Swiss Biobanking Platform (SBP)
Uploaded on
September 20, 2021
DOI
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License
Creative Commons BY-NC 3.0
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Swiss Biobanking Platform (SBP)
Data Dictionary Preanalytics Tissue Specimen
- StudyEvent: ODM
Description
Data related to case
Alias
- UMLS CUI-1
- C1511726
- UMLS CUI-2
- C2585021
- UMLS CUI-3
- C0868928
Description
ID_pathology
Data type
text
Alias
- UMLS CUI [1,1]
- C0030664
- UMLS CUI [1,2]
- C0600091
Description
ID_case
Data type
text
Alias
- UMLS CUI [1,1]
- C0868928
- UMLS CUI [1,2]
- C0600091
Description
consent_type
Data type
text
Alias
- UMLS CUI [1,1]
- C0009797
- UMLS CUI [1,2]
- C0200345
Description
consent_answer
Data type
text
Alias
- UMLS CUI [1,1]
- C0021430
- UMLS CUI [1,2]
- C1517741
- UMLS CUI [1,3]
- C1519814
Description
consent_date
Data type
text
Alias
- UMLS CUI [1,1]
- C0021430
- UMLS CUI [1,2]
- C1517741
- UMLS CUI [1,3]
- C1519814
- UMLS CUI [1,4]
- C0011008
Description
consent_date_specify
Data type
date
Alias
- UMLS CUI [1,1]
- C0021430
- UMLS CUI [1,2]
- C1517741
- UMLS CUI [1,3]
- C1519814
- UMLS CUI [1,4]
- C0011008
Description
Calculation of (patient age) - (resection time (field 23))
Data type
text
Alias
- UMLS CUI [1,1]
- C0001779
- UMLS CUI [1,2]
- C0200345
Description
Calculation of (patient age) - (resection time (field 23))
Data type
integer
Alias
- UMLS CUI [1,1]
- C0001779
- UMLS CUI [1,2]
- C0200345
Description
patient_age_unit
Data type
text
Alias
- UMLS CUI [1,1]
- C0001779
- UMLS CUI [1,2]
- C0439148
Description
patient_prim_disease
Data type
text
Alias
- UMLS CUI [1,1]
- C0277554
- UMLS CUI [1,2]
- C0011900
Description
Ontology based on ICD-10
Data type
text
Alias
- UMLS CUI [1,1]
- C0277554
- UMLS CUI [1,2]
- C0011900
Description
patient_sec_disease
Data type
text
Alias
- UMLS CUI [1,1]
- C2359476
- UMLS CUI [1,2]
- C0011900
Description
Ontology based on ICD-10
Data type
text
Alias
- UMLS CUI [1,1]
- C2359476
- UMLS CUI [1,2]
- C0011900
Description
Data related to specimen - Collection
Alias
- UMLS CUI-1
- C0200345
- UMLS CUI-2
- C1511726
- UMLS CUI-3
- C2585021
- UMLS CUI-4
- C2347026
Description
= code of the Institution Global Local Number = GS + GLN: https://www.gs1.org/standards/id-keys/gln
Data type
text
Alias
- UMLS CUI [1,1]
- C0449416
- UMLS CUI [1,2]
- C0370003
- UMLS CUI [1,3]
- C0450429
Description
collection_department
Data type
text
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C1704729
Description
collection_service
Data type
text
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C0557854
Description
collection_person
Data type
text
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C1522390
- UMLS CUI [1,3]
- C1999110
- UMLS CUI [1,4]
- C0027365
Description
collection_year
Data type
date
Measurement units
- Year
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C0439234
Description
specimen_ID
Data type
text
Alias
- UMLS CUI [1,1]
- C0370003
- UMLS CUI [1,2]
- C0600091
Description
To calculate SPREC 3.0 Warm ischemia time
Data type
text
Alias
- UMLS CUI [1,1]
- C0040223
- UMLS CUI [1,2]
- C1883710
Description
To calculate SPREC 3.0 Warm ischemia time
Data type
datetime
Alias
- UMLS CUI [1,1]
- C0040223
- UMLS CUI [1,2]
- C1883710
Description
To calculate SPREC 3.0 Warm ischemia time To calculate SPREC 3.0 Cold ischemia time
Data type
text
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C0040223
Description
To calculate SPREC 3.0 Warm ischemia time To calculate SPREC 3.0 Cold ischemia time
Data type
datetime
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C0040223
Description
Source: SPREC 3.0 Type of collection
Data type
text
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C2700391
Description
Source: SPREC 3.0 Type of sample
Data type
text
Alias
- UMLS CUI [1,1]
- C2347027
- UMLS CUI [1,2]
- C0332307
Description
ICD-03: 8000/0 - 9992/3
Data type
integer
Alias
- UMLS CUI [1,1]
- C0449475
- UMLS CUI [1,2]
- C0027651
- UMLS CUI [2]
- C0475436
Description
ICD-03 : C00-C80
Data type
integer
Alias
- UMLS CUI [1,1]
- C1515974
- UMLS CUI [1,2]
- C0027651
Description
collection_special_conditions
Data type
text
Alias
- UMLS CUI [1,1]
- C0442796
- UMLS CUI [1,2]
- C0185125
- UMLS CUI [2,1]
- C0205369
- UMLS CUI [2,2]
- C0348080
- UMLS CUI [2,3]
- C0442796
Description
collection_special_conditions_text
Data type
text
Alias
- UMLS CUI [1,1]
- C0442796
- UMLS CUI [1,2]
- C0185125
- UMLS CUI [2,1]
- C0205369
- UMLS CUI [2,2]
- C0348080
- UMLS CUI [2,3]
- C0442796
Description
"Yes" = patient has not eaten overnight
Data type
text
Alias
- UMLS CUI [1,1]
- C0311400
- UMLS CUI [1,2]
- C0449438
- UMLS CUI [1,3]
- C0030705
Description
To calculate SPREC 3.0 Cold ischemia time RT = room temperature:18-28 °C LN = either vapor or liquid phase (this information should be documented in the Biobank's SOP)
Data type
text
Alias
- UMLS CUI [1,1]
- C0039476
- UMLS CUI [1,2]
- C0332152
- UMLS CUI [1,3]
- C0040756
Description
Data related to specimen - Transport
Alias
- UMLS CUI-1
- C2347026
- UMLS CUI-2
- C3517336
Description
transport_sample_type
Data type
text
Alias
- UMLS CUI [1,1]
- C3517336
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C1522240
- UMLS CUI [1,4]
- C0332307
Description
transport_person
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0040756
- UMLS CUI [1,3]
- C1522390
- UMLS CUI [1,4]
- C1999110
- UMLS CUI [1,5]
- C0027365
Description
transport_mode
Data type
text
Alias
- UMLS CUI [1,1]
- C1550400
- UMLS CUI [1,2]
- C2347026
Description
transport_time
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0544683
- UMLS CUI [1,3]
- C1264639
Description
reception_time_specify
Data type
datetime
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0544683
- UMLS CUI [1,3]
- C1264639
Description
To calculate SPREC 3.0 Cold ischemia time
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C1273722
- UMLS CUI [1,3]
- C0039476
Description
Data related to specimen - Reception
Alias
- UMLS CUI-1
- C2347026
- UMLS CUI-2
- C0544683
Description
reception_person
Data type
text
Alias
- UMLS CUI [1,1]
- C0544683
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C1522390
- UMLS CUI [1,4]
- C1999110
- UMLS CUI [1,5]
- C0027365
Description
reception_time
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0544683
- UMLS CUI [1,3]
- C1264639
Description
reception_time_specify
Data type
datetime
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0544683
- UMLS CUI [1,3]
- C1264639
Description
Y = person from which specimen was extracted is infected
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0013018
- UMLS CUI [1,3]
- C0517627
Description
specimen_infectious_details
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0013018
- UMLS CUI [1,3]
- C0457463
Description
specimen_infectious_details_text
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0013018
- UMLS CUI [1,3]
- C0205394
- UMLS CUI [1,4]
- C0457463
Description
Data related to specimen - Processing
Alias
- UMLS CUI-1
- C0037793
Description
If not done by a single person, it should be documented who does what / when
Data type
text
Alias
- UMLS CUI [1,1]
- C1709694
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0027361
Description
processing_start_time
Data type
integer
Alias
- UMLS CUI [1,1]
- C1709694
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0808070
- UMLS CUI [1,4]
- C0040223
Description
processing_start_time_specify
Data type
datetime
Alias
- UMLS CUI [1,1]
- C1709694
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0808070
- UMLS CUI [1,4]
- C0040223
Description
processing_specimen_category
Data type
text
Alias
- UMLS CUI [1,1]
- C1709694
- UMLS CUI [1,2]
- C2347029
Description
To calculate SPREC 3.0 Cold ischemia time
Data type
text
Alias
- UMLS CUI [1,1]
- C1709694
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0039476
Description
sample_ID
Data type
text
Alias
- UMLS CUI [1]
- C1299222
Description
Source: SPREC 3.0 Type of sample Addition of DNA & RNA Standard PREanalytical Code Version 3.0 Betsou et al. Biopreserv Biobank. 2018 Jan 29. doi: 10.1089/bio.2017.0109 Table 2 Type of sample
Data type
text
Alias
- UMLS CUI [1]
- C2347029
Description
Often "predefine" sample size
Data type
text
Alias
- UMLS CUI [1]
- C0242618
Description
Often "predefine" sample size
Data type
float
Alias
- UMLS CUI [1]
- C0242618
Description
[mL] if liquid, [cm] if solid
Data type
text
Alias
- UMLS CUI [1,1]
- C0242618
- UMLS CUI [1,2]
- C0439148
Description
[mL] if liquid, [cm] if solid
Data type
text
Alias
- UMLS CUI [1,1]
- C0242618
- UMLS CUI [1,2]
- C0439148
Description
To calculate SPREC 3.0 Long-term storage
Data type
text
Alias
- UMLS CUI [1,1]
- C1698986
- UMLS CUI [1,2]
- C0180098
- UMLS CUI [1,3]
- C0332307
Description
Source: Selected values from SPREC 3.0 Fixation/stabilization type
Data type
text
Alias
- UMLS CUI [1,1]
- C1522662
- UMLS CUI [1,2]
- C0332307
Description
To calculate SPREC 3.0 Warm ischemia time To calculate SPREC 3.0 Cold ischemia time
Data type
text
Alias
- UMLS CUI [1,1]
- C1522662
- UMLS CUI [1,2]
- C3897500
Description
To calculate SPREC 3.0 Warm ischemia time To calculate SPREC 3.0 Cold ischemia time
Data type
datetime
Alias
- UMLS CUI [1,1]
- C1522662
- UMLS CUI [1,2]
- C3897500
Description
For frozen samples: "NA" To calculate SPREC 3.0 Fixation time
Data type
text
Alias
- UMLS CUI [1,1]
- C1522662
- UMLS CUI [1,2]
- C1522314
- UMLS CUI [1,3]
- C0806020
Description
For frozen samples: "NA" To calculate SPREC 3.0 Fixation time
Data type
integer
Alias
- UMLS CUI [1,1]
- C1522662
- UMLS CUI [1,2]
- C1522314
- UMLS CUI [1,3]
- C0806020
Description
sample_quality_methods
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0332306
- UMLS CUI [1,3]
- C2911685
Description
E.g. % of tumor cells, necrotic cells or stroma cells
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0034378
- UMLS CUI [1,3]
- C1274040
Description
E.g. % of tumor cells, necrotic cells or stroma cells
Data type
text
Alias
- UMLS CUI [1,1]
- C2347026
- UMLS CUI [1,2]
- C0034378
- UMLS CUI [1,3]
- C1274040
Description
aliquot_number
Data type
integer
Alias
- UMLS CUI [1,1]
- C1510844
- UMLS CUI [1,2]
- C0237753
Description
Data related to specimen - Storage
Alias
- UMLS CUI-1
- C2347026
- UMLS CUI-2
- C1698986
- UMLS CUI-3
- C1511726
- UMLS CUI-4
- C0370003
Description
Can be the same as freezing_time
Data type
text
Alias
- UMLS CUI [1,1]
- C1264639
- UMLS CUI [1,2]
- C0200367
Description
Can be the same as freezing_time
Data type
datetime
Alias
- UMLS CUI [1,1]
- C1264639
- UMLS CUI [1,2]
- C0200367
Description
RT = room temperature:18-28 °C LN = either vapor or liquid phase (this information should be documented in the Biobank's SOP) To calculate SPREC 3.0 Long-term storage
Data type
text
Alias
- UMLS CUI [1,1]
- C1698986
- UMLS CUI [1,2]
- C0039476
- UMLS CUI [1,3]
- C0370003
Description
Can include building, building number, freezer number, LN tank, Rack ID (level, drawers… ), box ID & position
Data type
text
Alias
- UMLS CUI [1,1]
- C0337174
- UMLS CUI [1,2]
- C2347026
Description
sample_status
Data type
text
Alias
- UMLS CUI [1,1]
- C0449438
- UMLS CUI [1,2]
- C2347026
Description
E.g. "2" = defrosted twice
Data type
text
Alias
- UMLS CUI [1,1]
- C0449438
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0205309
Description
freeze_thaw_cycle_ specify
Data type
integer
Alias
- UMLS CUI [1,1]
- C0449438
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0205309
Description
Data related to specimen - Distribution
Alias
- UMLS CUI-1
- C1704711
- UMLS CUI-2
- C2347026
- UMLS CUI-3
- C1511726
- UMLS CUI-4
- C2585021
- UMLS CUI-5
- C0370003
Description
retrieval_date
Data type
text
Alias
- UMLS CUI [1,1]
- C1514918
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0011008
Description
retrieval_date_specify
Data type
date
Alias
- UMLS CUI [1,1]
- C1514918
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C0011008
Description
retrieval_reason
Data type
text
Alias
- UMLS CUI [1,1]
- C3146298
- UMLS CUI [1,2]
- C2347026
- UMLS CUI [1,3]
- C1524063
Description
retrieval_reason_text
Data type
text
Alias
- UMLS CUI [1,1]
- C1547902
- UMLS CUI [1,2]
- C1514918
- UMLS CUI [1,3]
- C0392360
Description
project_destination
Data type
text
Alias
- UMLS CUI [1,1]
- C1547902
- UMLS CUI [1,2]
- C1709701
- UMLS CUI [1,3]
- C2347026
Description
project_destination_specify
Data type
text
Alias
- UMLS CUI [1,1]
- C1547902
- UMLS CUI [1,2]
- C1709701
- UMLS CUI [1,3]
- C2347026
Description
RT = room temperature:18-28 °C LN = either vapor or liquid phase (this information should be documented in the Biobank's SOP)
Data type
text
Alias
- UMLS CUI [1,1]
- C0039476
- UMLS CUI [1,2]
- C0348080
- UMLS CUI [1,3]
- C0183391
Similar models
Data Dictionary Preanalytics Tissue Specimen
- StudyEvent: ODM
C0205276 (UMLS CUI [1,2])
C2348867 (UMLS CUI [1,2])
C2585021 (UMLS CUI-2)
C0868928 (UMLS CUI-3)
C0600091 (UMLS CUI [1,2])
C0600091 (UMLS CUI [1,2])
C0200345 (UMLS CUI [1,2])
C1517741 (UMLS CUI [1,2])
C1519814 (UMLS CUI [1,3])
C1517741 (UMLS CUI [1,2])
C1519814 (UMLS CUI [1,3])
C0011008 (UMLS CUI [1,4])
C1517741 (UMLS CUI [1,2])
C1519814 (UMLS CUI [1,3])
C0011008 (UMLS CUI [1,4])
C0200345 (UMLS CUI [1,2])
C0200345 (UMLS CUI [1,2])
C0439148 (UMLS CUI [1,2])
C0011900 (UMLS CUI [1,2])
C0011900 (UMLS CUI [1,2])
C0011900 (UMLS CUI [1,2])
C0011900 (UMLS CUI [1,2])
C1511726 (UMLS CUI-2)
C2585021 (UMLS CUI-3)
C2347026 (UMLS CUI-4)
C0370003 (UMLS CUI [1,2])
C0450429 (UMLS CUI [1,3])
C1704729 (UMLS CUI [1,2])
C0557854 (UMLS CUI [1,2])
C1522390 (UMLS CUI [1,2])
C1999110 (UMLS CUI [1,3])
C0027365 (UMLS CUI [1,4])
C0439234 (UMLS CUI [1,2])
C0600091 (UMLS CUI [1,2])
C1883710 (UMLS CUI [1,2])
C1883710 (UMLS CUI [1,2])
C0040223 (UMLS CUI [1,2])
C0040223 (UMLS CUI [1,2])
C2700391 (UMLS CUI [1,2])
C0332307 (UMLS CUI [1,2])
C0027651 (UMLS CUI [1,2])
C0475436 (UMLS CUI [2])
C0027651 (UMLS CUI [1,2])
C0185125 (UMLS CUI [1,2])
C0205369 (UMLS CUI [2,1])
C0348080 (UMLS CUI [2,2])
C0442796 (UMLS CUI [2,3])
C0185125 (UMLS CUI [1,2])
C0205369 (UMLS CUI [2,1])
C0348080 (UMLS CUI [2,2])
C0442796 (UMLS CUI [2,3])
C0449438 (UMLS CUI [1,2])
C0030705 (UMLS CUI [1,3])
C0332152 (UMLS CUI [1,2])
C0040756 (UMLS CUI [1,3])
C3517336 (UMLS CUI-2)
C2347026 (UMLS CUI [1,2])
C1522240 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,4])
C0040756 (UMLS CUI [1,2])
C1522390 (UMLS CUI [1,3])
C1999110 (UMLS CUI [1,4])
C0027365 (UMLS CUI [1,5])
C2347026 (UMLS CUI [1,2])
C0544683 (UMLS CUI [1,2])
C1264639 (UMLS CUI [1,3])
C0544683 (UMLS CUI [1,2])
C1264639 (UMLS CUI [1,3])
C1273722 (UMLS CUI [1,2])
C0039476 (UMLS CUI [1,3])
C0544683 (UMLS CUI-2)
C2347026 (UMLS CUI [1,2])
C1522390 (UMLS CUI [1,3])
C1999110 (UMLS CUI [1,4])
C0027365 (UMLS CUI [1,5])
C0544683 (UMLS CUI [1,2])
C1264639 (UMLS CUI [1,3])
C0544683 (UMLS CUI [1,2])
C1264639 (UMLS CUI [1,3])
C0013018 (UMLS CUI [1,2])
C0517627 (UMLS CUI [1,3])
C0013018 (UMLS CUI [1,2])
C0457463 (UMLS CUI [1,3])
C0013018 (UMLS CUI [1,2])
C0205394 (UMLS CUI [1,3])
C0457463 (UMLS CUI [1,4])
C2347026 (UMLS CUI [1,2])
C0027361 (UMLS CUI [1,3])
C2347026 (UMLS CUI [1,2])
C0808070 (UMLS CUI [1,3])
C0040223 (UMLS CUI [1,4])
C2347026 (UMLS CUI [1,2])
C0808070 (UMLS CUI [1,3])
C0040223 (UMLS CUI [1,4])
C2347029 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,2])
C0039476 (UMLS CUI [1,3])
C0439148 (UMLS CUI [1,2])
C0439148 (UMLS CUI [1,2])
C0180098 (UMLS CUI [1,2])
C0332307 (UMLS CUI [1,3])
C0332307 (UMLS CUI [1,2])
C3897500 (UMLS CUI [1,2])
C3897500 (UMLS CUI [1,2])
C1522314 (UMLS CUI [1,2])
C0806020 (UMLS CUI [1,3])
C1522314 (UMLS CUI [1,2])
C0806020 (UMLS CUI [1,3])
C0332306 (UMLS CUI [1,2])
C2911685 (UMLS CUI [1,3])
C0034378 (UMLS CUI [1,2])
C1274040 (UMLS CUI [1,3])
C0034378 (UMLS CUI [1,2])
C1274040 (UMLS CUI [1,3])
C0237753 (UMLS CUI [1,2])
C1698986 (UMLS CUI-2)
C1511726 (UMLS CUI-3)
C0370003 (UMLS CUI-4)
C0200367 (UMLS CUI [1,2])
C0200367 (UMLS CUI [1,2])
C0039476 (UMLS CUI [1,2])
C0370003 (UMLS CUI [1,3])
C2347026 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,2])
C0205309 (UMLS CUI [1,3])
C2347026 (UMLS CUI [1,2])
C0205309 (UMLS CUI [1,3])
C2347026 (UMLS CUI-2)
C1511726 (UMLS CUI-3)
C2585021 (UMLS CUI-4)
C0370003 (UMLS CUI-5)
C2347026 (UMLS CUI [1,2])
C0011008 (UMLS CUI [1,3])
C2347026 (UMLS CUI [1,2])
C0011008 (UMLS CUI [1,3])
C2347026 (UMLS CUI [1,2])
C1524063 (UMLS CUI [1,3])
C1514918 (UMLS CUI [1,2])
C0392360 (UMLS CUI [1,3])
C1709701 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
C1709701 (UMLS CUI [1,2])
C2347026 (UMLS CUI [1,3])
C0348080 (UMLS CUI [1,2])
C0183391 (UMLS CUI [1,3])