iso 20428 intro

ISO/TS 20428구조화된 임상유전체분석보고서

Soo-Yong Shin, PhD

Department of Computer Engineering

Kyung Hee University

2017. 06. 23

@2017년 춘계 의료정보학회

유전체정보 표준화 노력들..

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유전자 패널검사 보험 수가 인정

http://www.epeople.go.kr/jsp/user/po/filterOff/puhe/UPoPuheView.jsp?app_no_c=1AC-1701-018512

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Samples

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ISO/NP 20391-1 Biotechnology -- Cell Counting 2015-03-13ISO/NP 20391-2 Biotechnology -- Cell Counting 2015-06-15ISO/NP 20786 Terminology for Biotechnology 2015-06-10

ISO/PWI 20386Inventory development of existing standards, guidelines and other relevant documents as well as terminology related to ISO/TC 276 2015-03-09

ISO/PWI 20387 Biobanks, biological resource centres and specimen repositories 2015-02-19ISO/PWI 20388 Collection, processing, storage and transportation technology criteria for animal germplasm 2015-02-19ISO/PWI 20389 Collection, processing, conserving and transportation criteria for human genetic resources 2015-02-19ISO/PWI 20390 Technical specifications for human biobanks and human bioresources in research and development 2015-02-19ISO/PWI 20395 Quality considerations for targeted nucleic acid quantification methods 2015-02-19ISO/PWI 20396 Methods to determine the concentration of total nucleic acids 2015-02-19ISO/PWI 20397 Methods to evaluate the quality of the massive sequencing data 2015-02-19ISO/PWI 20398 Methods to control bioreactor processes for cell culturing 2015-02-19ISO/PWI 20399 Raw materials control for bioprocessing 2015-02-19ISO/PWI 20404 Best practice in raw materials selection in the design of human cell therapy 1. manufacturing processes 2015-02-19

ISO/PWI 20688Biotechnology -- Oligonucleotide synthesis -- General definitions and requirements for the quality of synthesized oligonucleotides 2015-03-27

ISO/PWI 20691 Downstream data processing and integration workflows 2015-04-21

ISO/TC 276 Ongoing Projects

Much more..

7Close meeting: contact Kim, Sookrae & KATS (cssd@kats.go.kr)

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Samples

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http://www.mfds.go.kr/index.do?mid=1161&seq=11001&cmd=v

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Samples

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Genome in a Bottle Consortium

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GIAB Reference Material

https://www-s.nist.gov/srmors/view_detail.cfm?srm=8398

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PrecisionFDAhttps://precision.fda.gov/

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PrecisionFDA

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Samples

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Samples

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HL7 Clinical Genomics

http://www.hl7.org/Special/committees/clingenomics/

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Samples

HL7 Clinical Genomics WGIT가 관여하는 모든 영역표준화 노력 중- CLIA workflow support- Lab result interface- …- Structured document- Pedigree

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Product of HL7 CG WG

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HL7 DAM: Clinical Sequencing

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HL7 FHIR Profile for Genetics

http://www.hl7.org/FHIR/observation-genetics-cg-prf-1a.html

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HL7 FHIR Genomics Implementation Guideline

http://hl7.org/fhir/2017Jan/genomics.html

Other helpful site - http://projects.iq.harvard.edu/fhirgenomics

24Slide from Tutorial on “Precision Medicine via FHIR” (2017 HL7 WG meeting)

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Other Relevant Organizations

http://genomicsandhealth.org

Actionable Genome Consortiumhttp://www.iom.edu/~/media/Files/Activity%20Files/Disease/NCPF/2014-NOV-10/Solit.pdf

DIGITizE: Displaying and Integrating Genetic Information Through the EHR

http://www.nationalacademies.org/hmd/Activities/Research/GenomicBasedResearch/Innovation-Collaboratives/EHR.aspx

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GA4GH

• VMC (Variant Modelling Consortium)

– https://github.com/ga4gh/vmc

– Collaborators

• HL7, Ensembl

• NIH (ClinGen, ClinVar)

• HPO (Human Phenotype Ontology)

• …

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Related Standards

• CDISC SDTM PGx

– Effective since December 2016 in US & Japan

– https://www.cdisc.org/standards/foundational/pharmacogenomicsgenetics-pgx/sdtmig-pgx-v10

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Related Standards

ISO/NP 21393 OWL - Omics Markup LanguageISO/NP 25270 WGSML - Whole Genome Sequence Markup Language

Early stages

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ISO 20428

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ISO/TS 20428

• Metadata for describing structured clinical genomic sequence information in electronic health records– defines the composition of structured clinical sequencing report (see Clause 5),

– defines the required data fields and their metadata for structured clinical sequencing report (see Clause 6),

– defines the optional data (see Clause 7),

– covers the DNA-level variation form human samples using whole genome sequencing, whole exome sequencing, and targeted sequencing (disease-targeted gene panels) by next generation sequencing technologies. Though whole transcriptome sequencing and other technologies are important to provide better of patients care and enable precision medicine, this document only deals with DNA-level changes,

– covers mainly clinical applications and clinical research such as clinical trials and translational research which uses clinical data. The basic research and other scientific areas are outside the scope of this document.

– does not cover the other biological species, i.e., genomes of viruses and microbes,

– does not cover the Sanger sequencing methods.

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Composition of Report

Summary

- Subset of required fields

Ex) - Patient information

- Type of samples

- Variants information

- Recommended treatments

- Overall interpretation

- Identified, Not identified,

inconclusive, carrier

Detailed pages

-Required fields

-Optional fields

Detailed pages

-Required fields

-Optional fields

Detailed pages

-Required fields

-Optional fields

Detailed contents

-Required fields

-Optional fields

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Overall Interpretation

Interpretation Remarks

Identified detection of a variant that explains a patient’s condition

Not identified no variants identified of likely relevance to the diagnostic indication

Inconclusive a clear explanation of the patient’s condition was not found

Carrier identification of variants of recessive carrier screening tests

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Requiredfields

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Optionalfields

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Example

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Example

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HELP!

sooyong.shin@khu.ac.kr

@likesky3