Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample...
-
Upload
biofortis -
Category
Health & Medicine
-
view
1.235 -
download
3
description
Transcript of Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample...
![Page 1: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/1.jpg)
Copyright © 2009Proprietary & Confidential
Copyright © 2013 - Proprietary & Confidential
DO YOU SPEAK BIOBANK?Biosamples and Babel: Constructing foolproof sample tracking and storage nomenclature
Mark A. Collins Ph.DIIR Biorepositories Meeting September 25th, 2013
![Page 2: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/2.jpg)
Copyright © 2013 - Proprietary & Confidential
Do you speak biobank?
sprechen Sie Biobank? hablas biobanco
你说生物资料库
parlez-vous biobanque
あなたは、バイオバンクを話します
ydych chi'n siarad Biobank
μιλάτε βιοτράπεζα
talar du biobank
parli biobanca
Вы говорите биобанке
Eğer biobank konuşuyorsunuz
Disclaimer: Google translate was used for this slide – any harm to any language is unintentional
![Page 3: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/3.jpg)
Copyright © 2013 - Proprietary & Confidential
….babel as a confusion of languages?
![Page 4: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/4.jpg)
Copyright © 2013 - Proprietary & Confidential
Biosamples & Babel [Fish]**Hitchhiker’s guide to the galaxy
Universal Language
![Page 5: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/5.jpg)
Copyright © 2013 - Proprietary & Confidential
Why do we care?
![Page 6: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/6.jpg)
Copyright © 2013 - Proprietary & Confidential
SAMPLEPOWER
I could help cure
cancer
I could help cure
Parkinsons
I could help cure
Alzheimers
![Page 7: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/7.jpg)
Copyright © 2013 - Proprietary & Confidential
HIGH QUALITYHIGHLY ANNOTATED
CONSENTEDPATIENT LINKED
SAMPLE
![Page 8: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/8.jpg)
Copyright © 2013 - Proprietary & Confidential
Patients Samples Biomarkers New drugs
New targeted therapies
![Page 9: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/9.jpg)
Copyright © 2013 - Proprietary & Confidential
The vision of personalized medicine..
Personalized medicine
Externalization
Big Data
Targeted Therapy & Companion DiagnosticsTargeted Trials
Translational Research / Biomarkers / Patient
Segmentation
Clinical data Clinical samples
Biobanks
![Page 10: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/10.jpg)
Copyright © 2013 - Proprietary & Confidential
“… that have access to millions of highly annotated biospecimens with clear consent, traceability and tools to rapidly mine for desired profiles will have an edge in biomarker-based discovery, segmenting patients for clinical trials and developing companion diagnostic /theranostic applications”
![Page 11: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/11.jpg)
Copyright © 2013 - Proprietary & Confidential
Access to more and more samples & data
Thousands of trials
Thousands of patients
Millions of samples
Billions of data points (and growing)
Offer a Huge POTENTIAL for Future Biomedical Research (FBR)
![Page 12: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/12.jpg)
Copyright © 2013 - Proprietary & Confidential
And more…
Disease specific biobanks
Patient registries
Hospital/Institute biobanks
National biobanks
![Page 13: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/13.jpg)
Copyright © 2013 - Proprietary & Confidential
Operating environment in flux
Limiting the potential for use of samples and their data for FBR
Increasing externalization
Global trials
Complex consent landscape
Large amounts of complex data
![Page 14: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/14.jpg)
Copyright © 2013 - Proprietary & Confidential
Internet of things
![Page 15: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/15.jpg)
Copyright © 2013 - Proprietary & Confidential
Biobank of things
![Page 16: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/16.jpg)
Copyright © 2013 - Proprietary & Confidential
NO UNIVERSAL LANGUAGE
Ich helfen könnte
Krebs heilen
Je pourrais aider à guérir la maladie de
Parkinson
I could help cure
Alzheimers
![Page 17: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/17.jpg)
Copyright © 2013 - Proprietary & Confidential
Why do we need a universal language?
![Page 18: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/18.jpg)
Copyright © 2013 - Proprietary & Confidential
We want to ask questions!
Patient Profile
DCIS
T size>1cm, ER+, HER2/neu+, Node negative
Radiation therapy
BRCA1 mutation 185delAG
HOXB7 gene overexpression
Tissue banked for immunohistochemistry?
What is the incidence of breast cancer recurrence in patients with the following profile?
Type of Data
Clinical
Genotype
Gene Expression
Sample Management
![Page 19: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/19.jpg)
Copyright © 2013 - Proprietary & Confidential
Questions are in depth
![Page 20: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/20.jpg)
Copyright © 2013 - Proprietary & Confidential
Questions span domainsMultiple data
sources
Domain expertiseMore data sources
More data sources
Requires considerable IT resources
![Page 21: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/21.jpg)
Copyright © 2013 - Proprietary & Confidential
General Barriers to the Biobank of Things
Future Biomedical Research
Multiple disparate, dispersed
data sources
Lack of a universal language
Increased regulatory
scrutinyInformation bottlenecks
Increased resource
usage
“Operating environment” negatively impacts future FBR potential
![Page 22: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/22.jpg)
Copyright © 2013 - Proprietary & Confidential
How do we get there?
![Page 23: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/23.jpg)
Copyright © 2013 - Proprietary & Confidential
Today, focus in on the data
Future Biomedical Research
Multiple disparate, dispersed
data sources
Lack of a universal language
Increased regulatory
scrutinyInformation bottlenecks
Increased resource
usage
![Page 24: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/24.jpg)
Copyright © 2013 - Proprietary & Confidential
Harmonization
Meaning
![Page 25: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/25.jpg)
Copyright © 2013 - Proprietary & Confidential
Multiple, disparate data sources
SEP
22
Sample tracking and sample storage data is one piece of a very complex picture
![Page 26: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/26.jpg)
Copyright © 2013 - Proprietary & Confidential
Sometimes feels like this…
![Page 27: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/27.jpg)
Copyright © 2013 - Proprietary & Confidential
Harmonization of disparate data
A hub of harmonized information linking patient,
specimen, consent, clinical and molecular data
SEP
22
Turn disparate, complex, distributed sample and
sample related data
SEP
22
![Page 28: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/28.jpg)
Copyright © 2013 - Proprietary & Confidential
Variety of standards/best practices
Biobanking best practices
Biobanking IT best practices
Ontologies for clinical data
Ontologies for biospecimens
Software standards
Ontologies for genomic/assay
data
![Page 29: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/29.jpg)
Copyright © 2013 - Proprietary & Confidential
Variety of biobanking standards/best practices
ISBER, NCI, OECD, BBMRI, CAP
ISBER, NCI, BBMRI(poorly covered)
SNOMED, CDISC, ICD-0
caBIG/OBBR/Common
Biorepository Model
Webservices, HTML,
databases etc
SNOMED, OBO, MIAME standards
![Page 30: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/30.jpg)
Copyright © 2013 - Proprietary & Confidential
![Page 31: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/31.jpg)
Copyright © 2013 - Proprietary & Confidential
![Page 32: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/32.jpg)
Copyright © 2013 - Proprietary & Confidential
![Page 33: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/33.jpg)
Copyright © 2013 - Proprietary & Confidential
Standards & ontologies identify data elements
![Page 34: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/34.jpg)
Copyright © 2013 - Proprietary & Confidential
Map sample tracking workflow
Subject presents (demographics, diagnoses, etc)
Sample collected(sample type,
quantity, sample quality, CoC etc)
Sample Temp Storage(location, CoC etc)
Sample shipment/transfer
(shipping container, time, CoC))
Receive at Biobank(time, sample quality
etc)
Sample QC(quality, discrepancies
etc)
Temporary Storage(location , time, CoC)
Storage in biobank(location,
environmental, #thaws , CoC)
Sample request & processing
(aliquots, derivatives etc, CoC)
Determine standard data elements for data collection & harmonization, using ontologies/standards
![Page 35: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/35.jpg)
Copyright © 2013 - Proprietary & Confidential
Sample Tracking & Storage Elements
• Collection date• Volume• Sample Quality• Sample Type• Barcode• Unique ID• Source• Preservation Type• Time to preservation
• Storage location• Environmental
conditions• Facility• #thaws• CoC• More…
![Page 36: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/36.jpg)
Copyright © 2013 - Proprietary & Confidential
Mapping common data elements
+
Map data elements into a common data model
Sample Data #2Sample Data #1 Biobank Database common model
![Page 37: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/37.jpg)
Copyright © 2013 - Proprietary & Confidential
Common Data Elements for sample tracking/sample storage
![Page 38: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/38.jpg)
Copyright © 2013 - Proprietary & Confidential
Common Data Elements for sample tracking/sample storage
![Page 39: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/39.jpg)
Copyright © 2013 - Proprietary & Confidential
Mapping common data elements
+
Map data elements into a canonical data model(aggregates all data elements whether common or not)
Sample Data #2Sample Data #1 Biobank Database common model
![Page 40: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/40.jpg)
Copyright © 2013 - Proprietary & Confidential
Canonical Data Mapping – data elements vary by study, data model accomodates all
![Page 41: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/41.jpg)
Copyright © 2013 - Proprietary & Confidential
Canonical Data Mapping – data elements vary by study, data model accomodates all
![Page 42: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/42.jpg)
Copyright © 2013 - Proprietary & Confidential
Mapping common data elements
Federated view –pulls common data elements
Sample Data #2
Sample Data #1
Biobank Database Federated View
![Page 43: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/43.jpg)
Copyright © 2013 - Proprietary & Confidential
Harmonization of disparate data
A hub of harmonized information linking patient,
specimen, consent, clinical and molecular data
SEP
22
Turn disparate, complex, distributed sample and
sample related data
SEP
22
Powered by
![Page 44: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/44.jpg)
Copyright © 2013 - Proprietary & Confidential
Standards & Ontologies
Plenty of choice!
Can vs. should
![Page 45: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/45.jpg)
Copyright © 2013 - Proprietary & Confidential
Foolproof nomenclature = Simple
![Page 46: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/46.jpg)
Copyright © 2013 - Proprietary & Confidential
Universal Language = enough to be understood
Enough for data interchange
World is full of overly complex standards and ontologies
![Page 47: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/47.jpg)
Copyright © 2013 - Proprietary & Confidential
Minimum Information Standards, e.g. MIAME
![Page 48: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/48.jpg)
Copyright © 2013 - Proprietary & Confidential
Minimum Information About Biobank data Sharing
MIABISA Minimum Data Set for Sharing Biobank Samples, Information, and Data:
MIABIS
Norlin et al (2012)BIOPRESERVATION AND BIOBANKING Volume 10, Number 4, 2012
![Page 49: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/49.jpg)
Copyright © 2013 - Proprietary & Confidential
MIABIS
• 52 attributes across biobank data to enable data exchange about the biobank
• Not detailed enough for samples /sample tracking
• Good to compare biobanks and their contents for search purposes– What samples does a biobank have?– What patient/medical conditions does the bank have
samples from
![Page 50: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/50.jpg)
Copyright © 2013 - Proprietary & Confidential
Minimum Information About a Biobank Sample
MIABS
Need this standard or MIABIS to be extended to include much more detail on sample nomenclature
![Page 51: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/51.jpg)
Copyright © 2013 - Proprietary & Confidential
Meaning
Semantics critical to asking questions
![Page 52: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/52.jpg)
Copyright © 2013 - Proprietary & Confidential
Controlled vocabularies aid meaning
NCI CBM Vocab and meaning
![Page 53: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/53.jpg)
Copyright © 2013 - Proprietary & Confidential
Controlled vocabularies aid meaning
![Page 54: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/54.jpg)
Copyright © 2013 - Proprietary & Confidential
Controlled vocabularies
• Sample Quality– Not assigned– Acceptable– Poor quality– Comments…
• Sample Status– Reserved– In inventory – stored– In inventory– Lost– In transfer– Checked-out will
return– Exhaustd– Destroyed
![Page 55: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/55.jpg)
Copyright © 2013 - Proprietary & Confidential
Sample tracking/storage vocabulary
Controlled vocabularies for sample quality
![Page 56: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/56.jpg)
Copyright © 2013 - Proprietary & Confidential
Biosamples & Babel [Fish]*
*Hitchhiker’s guide to the galaxy
![Page 57: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/57.jpg)
Copyright © 2013 - Proprietary & Confidential
SEP
22
Sample tracking, sample storage etc, data
Universal language for asking questions
Science Fiction?
![Page 58: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/58.jpg)
Copyright © 2013 - Proprietary & Confidential
SEP
22
OntologiesStandards
Minimum Information Standards
Common Data ModelsSample tracking, sample storage etc, data
Universal understanding to ask questions
Science Fiction?
![Page 59: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/59.jpg)
Copyright © 2013 - Proprietary & Confidential
SEP
22
MIABEOntology Lookup services
Linked to biobank informatics systems
Sample tracking, sample storage etc, data
Universal understanding to ask questions
Scientific reality
![Page 60: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/60.jpg)
Copyright © 2013 - Proprietary & Confidential
Summary
• Biobank as a knowledgebase for biomarker research
• Standard & foolproof nomenclatures needed• Beyond the sample• Specific ontologies, standards, vocabularies
needed• Drive to MIABS – ISBER?• BioFortis offers biobanking/translational
research informatics platforms that implement these standards
![Page 61: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/61.jpg)
Copyright © 2013 - Proprietary & Confidential
Thanks – Questions?
Biobanking & data management software for the personalized medicine era
![Page 62: Do you speak biobank? Biospecimens and Babel: Constructing foolproof sample tracking and sample storage nomenclature](https://reader035.fdocuments.us/reader035/viewer/2022070313/554b436fb4c905ff268b4dec/html5/thumbnails/62.jpg)
Copyright © 2013 - Proprietary & Confidential
Resources
• http://www.oecd.org/sti/biotech/guidelinesforhumanbiobanksandgeneticresearchdatabaseshbgrds.htm
• http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1500833/• http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3633318/#ref15 • http://training.seer.cancer.gov/coding/structure/ -ICD-0• http://www.ihtsdo.org/snomed-ct/ • http://www.obofoundry.org/• An Online Tool for Improving Biospecimen Data Element Reporting-
http://online.liebertpub.com/doi/abs/10.1089/bio.2012.0033