ProteoMonitor 2월호 "CPTAC, Seoul National University to Test Proteomic Workflows Including MRM-MS in Clinical Setting "

Mirrorprincess (2013-02-15)
2013-02-15 2020
?

단백질체 관련 미국의 영향력있는 web magazine인 ProteoMonitor 2월호에 김영수 교수님이 참여하고 있는 Global MRM consortium에 대한 기사가 실렸습니다.

====================================================================================================================================

CPTAC, Seoul National University to Test Proteomic Workflows Including MRM-MS

 in Clinical Setting
February 08, 2013

 

CPTAC, Seoul National University to Test Proteomic Workflows Including MRM-MS in Clinical Setting
By Adam Bonislawski

 

The National Cancer Institute last week announced a memorandum of understanding with Seoul National University Cancer Hospital under which SNUCH will test proteomic technologies, standards, workflows, and assays developed by NCI's Clinical Proteomic Tumor Analysis Consortium, CPTAC.
The effort aims to test the clinical applicability of the proteomic methods developed within CPTAC, and will focus on questions including generation and interpretation of clinical proteomics data as well as the ethical and legal issues involved in using such data in a clinical setting.
In terms of the project's technology emphasis, it will explore "several technologies and workflows … with one in particular being mass spectrometry," Henry Rodriguez, director of NCI's office of Cancer Clinical Proteomics Research and leader of the CPTAC initiative, told ProteoMonitor this week via email.
SNUCH researcher Youngsoo Kim, who is the acting coordinator for the MOU on the Korean side, told ProteoMonitor that the project will examine the clinical utility of "all the technologies that have been developed in the CPTAC program." He cited as particularly high priorities investigating multiple-reaction monitoring and immuno-MRM mass spec assays, developing a triple quadrupole-based platform for multiplexed protein assays, and verifying and validating candidate biomarkers in patient fluids.

CPTAC is a component of the NCI's larger Clinical Proteomic Technologies for Cancer initiative, which in 2011 launched its five-year, $75 million to $120 million second stage (PM 8/26/2011). CPTAC aims to identify proteins produced by alterations in cancer genomes and build methods and assays for their detection and measurement.
The program has established research centers at eight institutions including Washington University in St. Louis, the University of North Carolina, Boise State University, Pacific Northwest National Laboratory, the Broad Institute, Fred Hutchinson Cancer Research Center, Johns Hopkins University, and Vanderbilt University.
According to an update provided at the Human Proteome Organization's annual meeting in September by Chris Kinsinger, program manager in NCI's Office of Cancer Clinical Proteomics Research, groups from these centers have begun analyzing three tumor types ? breast, colorectal, and ovarian ? with the aim of profiling around 100 samples of each (PM 9/21/2012).
In the past, some researchers have criticized the current phase of CPTAC for continuing to focus significantly on biomarker discovery instead of working to move candidate biomarkers into the clinic.
For instance, last year, Leigh Anderson, CEO of clinical proteomics firm SISCAPA Assay Technologies and a participant in the first phase of CPTAC, told ProteoMonitor that many proteomics researchers hoped that the initiative's second phase "would attempt to implement a complete biomarker pipeline and determine for the first time how much clinical value there is to be found among the thousands of published biomarker candidates."
He added that the initiative's continued focus on biomarker discovery "to me looks like a retreat from the hard problem ? verification ? by kicking the can down the road while looking once more for an easier way around."
In light of these critiques, Anderson lauded the recently announced MOU, telling ProteoMonitor this week that, based on the details released by NCI, "it sounds like a positive thing … that they would go forward with this in a clinical environment."
"It's a useful supplement to what CPTAC is currently doing, which isn't so much focused on clinical diagnostic assays but rather on exploratory [work]," he said. "[Clinical proteomics] is now down to people taking candidate biomarkers, developing the assays, and actually going into clinical samples to evaluate them. And if that's what they are planning to do, that is really the important next step for biomarkers and mass spec technology."
Neither Rodriguez nor Kim offered specifics regarding biomarkers their collaboration might seek to focus on, but Rodriguez did note that MRM-MS "will be used for the verification of protein candidates, as this assay platform meets the needs of the high-throughput biology community."
CPTAC "has demonstrated the robust analytical performance for MRM-MS across laboratories and instrument platforms," he said.
Kim suggested, however, that work was still needed to determine the suitability of MRM-MS to the clinic. "First of all it has to be certified that MRM-MS is a fully developed, mature technology in terms of materials and platforms," he said. "We have not fully examined what is possible or not possible" with the technique.
Indeed, although triple quad-based MRM-MS is viewed by many as the most promising format for clinical proteomics assays, optimizing these assays for the clinic can be a complicated balancing act.
For instance, to increase assay speed ? a key factor in validating and implementing protein biomarkers ? researchers can reduce chromatography time. This, however, will hurt the assay's sensitivity ? another important consideration. Likewise, sensitivity can be improved by using immuno-enrichment upfront of mass spec analysis to pull out the proteins of interest. However, this adds sample prep steps, which can reduce throughput and raise assay variability.
The CPTAC-SNUCH MOU is the latest in a number of efforts undertaken to tackle these issues.
In November, for example, a team including Anderson published on a MRM-MS-based peptide quantitation workflow with a sample cycle time as short as seven seconds (PM 11/16/2012). The technique, which achieved these cycle times by replacing traditional liquid chromatography with Agilent's RapidFire solid phase extraction system, enables a dramatic increase in the throughput of targeted protein assays.
In June, a multi-facility study led by Thermo Fisher Scientific's Biomarkers Research Initiatives in Mass Spectrometry Center examined the inter-lab reproducibility of MRM-MS assays applied to clinical samples treated with upfront protein enrichment techniques (PM 6/8/2012). The assays achieved inter-lab CVs ranging from 5 percent to 30 percent, with seven of the nine assays tested demonstrating cross-lab CVs of 21 percent or lower.
MRM-MS workflows continue to be challenged by "a lack of streamlined analytical workflow from sample preparation to data analysis in an automated fashion," Rodriguez said.
In addition to addressing such technical questions, the MOU will also provide the researchers with a chance to examine the more administrative and regulatory issues that will likely arise as proteomics moves into the clinic.
For instance, Rodriguez said, clinical proteomics will also face challenges due to "a lack of training of lab personnel familiar with these emerging technologies" and the fact that most research labs don't have the level of record keeping and documentation that would be required for a clinical or reference lab.
"An active clinical lab is regulated by the law and regulations of each country's health care system," Kim noted. "It's not like doing scientific research."
The MOU expands on a 2010 agreement with the Korea Institute of Science and Technology to "promote proteomic technology optimization and standards implementation," Rodriguez said, calling it a "natural extension" of that collaboration.
A start date for the project has not yet been set, Kim said.
Related Stories
? CPTAC Organizers, Researchers Offer Update on Plans and Progress as Project Data Portal Goes Live
? September 21, 2012 / ProteoMonitor
? Calling for Stronger Clinical Focus, Researchers Question Priorities of NCI's CPTAC Initiative
? February 17, 2012 / ProteoMonitor
? NCI's Plan for Clinical Proteomics Initiative Spurs Questions about Sourcing of Patient Samples
? August 27, 2010 / ProteoMonitor
? TCGA Breast Cancer Study Demonstrates Benefits of Integrating Genomic, Proteomic Data
? September 28, 2012 / ProteoMonitor
? New Instruments, Applications Powering Rise of MALDI-MS as Clinical Proteomics Platform
? January 20, 2012 / ProteoMonitor
footer


related link : http://www.genomeweb.com/proteomics/cptac-seoul-national-university-test-proteomic-workflows-including-mrm-ms-clinic

adam2.jpg Adam Bonislawski is the editor of GenomeWeb's ProteoMonitor. He covers proteomics and life science mass spectrometry. E-mail Adam Bonislawski and follow his GenomeWeb Twitter account at @ProteoMonitor.

댓글

0개
번호 제목 작성자 조회 수 등록일
공지 13th World Congress of the Human Proteome Organization Award Mirrorprincess 2790 2015-03-30
공지 KHUPO 15th Annual International Proteomics Conference Award Mirrorprincess 2874 2015-03-30
공지 2014 보건복지부장관 표창 수상 - 김영수 교수 Mirrorprincess 3030 2014-12-18
공지 2014 보건복지부장관 표창 수상 - 김영수 교수 Mirrorprincess 2843 2014-12-18
공지 20170729 국민일보 - 서울대병원 김영수 교수팀, 표준 인체단백질검사법 공개 포털사이트... Mirrorprincess 1326 2014-08-04
21 20140729 뉴스타운 - 인체단백질 분석의 국제적인 포털 출범에 서울대학병원 연구진이 ... file Mirrorprincess 519 2014-08-04
20 20140730 메디팜헬스 - 인체단백질 분석 표준화된 문서형태로 발전 file Mirrorprincess 516 2014-08-04
19 20140729 메디컬투데이 - 인체단백질 분석의 국제적인 포털 출범에 서울대학병원 연구진... file Mirrorprincess 488 2014-08-04
18 20140729 전자신문 - 서울대병원 의료진, 인체단백질 분석 국제 포털 출범 기여 file Mirrorprincess 511 2014-08-04
17 20140729 하이메디칼 - 인체단백질 분석의 국제적인 포털 출범에 서울대학병원 연구진 ... file Mirrorprincess 518 2014-08-04
16 20140730 e-의료정보 - 인체단백질 분석 국제포털 출범에 서울대병원 연구진 크게 기... file Mirrorprincess 469 2014-08-04
15 20140729 메디파나뉴스 - 인체단백질 분석 DB 공유 포털 개설 file Mirrorprincess 472 2014-08-04
14 20140729 중부매일 - 인체단백질 분석의 국제적인 포털 출범에 서울대병원 연구진 기여 file Mirrorprincess 471 2014-08-04
13 20140729 왓처데일리 - 인체단밸질 분석 국제적인 포털 출범, 서울대병원 연구진 기여 file Mirrorprincess 465 2014-08-04
12 20140729 웰빙코리아뉴스 - 서울대병원 연구진, 인체단백질 분석의 국제 포털 출범 기여 file Mirrorprincess 512 2014-08-04
11 20140730 데일리메디팜 - 서울대병원, 혈액 한 방울로 다양한 암 진단 기반 마련 file Mirrorprincess 628 2014-08-04
10 "혈액 한 방울로 각종 암 진단 가능성 열려" 에 대한 주제로 다중 매체에 보도 되었... Mirrorprincess 2469 2013-12-11
9 "피 검사 한번에 300가지 질병 진단" YTN 전원책의 출발 새아침, 김영수 교수님 in... file Mirrorprincess 1376 2013-12-10
8 "피 검사 한 번에 3백 가지 질병 진단" 에 대한 YTN 인터뷰가 보도 (2013_12_09) 되... file Mirrorprincess 1176 2013-12-09
7 ProteoMonitor 2월호 "CPTAC, Seoul National University to Test Proteomic W... Mirrorprincess 2020 2013-02-15
6 ProteoMonitor 10월호 " Targeted Mass Spec Slowly but Steadily Moving Toward ... Mirrorprincess 1904 2013-02-04
5 서울대병원 의공학과 김영수 교수님 연구실과 미국 국립보건원 소속의 국립암연구원과 M... Mirrorprincess 6065 2013-02-04
4 美클리블랜드 클리닉, 10대 의료혁신 선정 file Mirrorprincess 1469 2012-11-02
3 단백질 공학 세미나 공지 사항 - 출결 사항 및 중간고사 term paper 과제 리스트 file Mirrorprincess 1313 2012-10-23
2 단백질 공학 수업 휴강 공지 - 2012년 10월 15일 Mirrorprincess 1023 2012-10-15
1 2 3
XE Login