Transcript Overview:
National Mesothelioma Virtual Tissue Bank (NMVB)
(
http://www.mesotissue.org
)
Michael J. Becich, MD PhD
Chair and Professor, Department of Biomedical Informatics (see http://www.dbmi.pitt.edu
) UPMC Cancer Pavilion, Room 305 5150 Centre Avenue Pittsburgh, PA 15232 e-mail [email protected]
phone - 412-623-3941 1
Overview:
The National Mesothelioma Virtual Bank (NMVB) provides de identified annotated mesothelioma biospecimens to the mesothelioma research community.
The NMVB database allows a user to query the biospecimen resource to identify cohorts for translational research.
We collect retrospective and prospective mesothelioma cases at three major sites New York University (NYU), University of Pennsylvania (U. Penn) and University of Pittsburgh Medical Center (UPMC).
Key to this resource is continued annotation of mesothelioma biospecimens including demographics, epidemiological, clinicopathology, follow-up and recurrence data for all biospecimens collected.
We then provide well-annotated high quality mesothelioma biospecimens and data to approved researchers via a Letter of Intent – see http://www.mesotissue.org/apply.cfm
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Expansion of Biospecimen Resource:
NMVB has been funded for the next five years to collect annotated mesothelioma biospecimens and distribute them to investigators for basic and clinical science research.
New Collaborator: Mount Sinai School of Medicine (MSSM) is brought on board to expand the specimen collection to meet the research requirements.
Two tissue microarrays have been developed and are available for investigators.
Marketing efforts are expanded to provide information regarding the resource to a larger community of researchers via mass marketing e-mails, publications and national/international conferences.
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Specimen Collection: Tissue bank protocols are followed in the collection and storage by tissue bank technicians.
Specimen Types:
Tissue Microarray with Clinical Data Annotation
Fresh Frozen Tissues Blood Products: Serum, RBC, Plasma, Whole blood, Buffy Coat, etc… Paraffin embedded blocks
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NMVB Collection of Blood Samples
Red Blood Cell, 143, 13% Buffy Coat, 111, 10% Plasma, 293, 25% Whole Blood, 211, 19% PMBC, 73, 7% Serum, 290, 26%
Patient Mesothelioma Consenting, Tissue Banking and Clinical Data annotation workflow Biospecimen Tissue Banker TBIS Database Administrator I N S T I T U T I O N A L Investigator RIS NMVB Database Web-Based User Interface Cancer Registrar Questionnaire & consent CTTK Clinical Nurse Coordinator TBIS: Tissue Bank inventory System, RIS: Registry Information System, CTTK: Clinical Trial Tool Kit, NMVB: National Mesothelioma Virtual Bank F I R E W A L L External Study Coordinator
NMVB Tissue Bank Tissue Collection & Processing Protocol Nurse coordinator notifies Health Sciences Tissue Bank (HSTB) personnel prior to the patient’s surgery of NMVB tissue candidate and follows up by faxing a consent to the HSTB.
E-mail notification to Post Doc and Project Coordinator on the up coming surgery.
Surgical tissue is picked up at the OR and brought to the Gross Dissection room and is triaged under the auspices of a Pathologists’ Assistant.
The Surgical tissue is assigned a NMVB Study number.
Each portion received from the Pathologists’ Assistant (determined by amount and size of tissue) is to be divided into three portions Bulk frozen is kept in bitran bag and stored in -80°C.
Bulk Frozen Formalin Tissue Fresh frozen OCT Taken to research histology lab for processing to formalin fixed paraffin embedded (FFPE) FF OCT is stored in a heat sealed bag @ 80°C
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NMVB Tissue Bank Blood Products Collection & Processing Protocol Research nurse coordinator call the tissue bank when patient is consented and pre-op, operative and post-op blood samples are drawn Blood is tubed to Gross Dissection Room in the Department of Pathology Tissue bank tech. receives 2-3 small purple tops and 1-2 large red tops along with a consent for the patient.
Nunc vials for the separated blood products are labeled with the NMVB Study# by tissue bank technician Before the purple tops are centrifuged, aliquot 2 nuncs with whole red blood.
All peripheral blood tubes are put through the centrifugation process. Purple top yields plasma, buffy coat and red blood cell aliquots.
Nuncs should be labeled and aliquot as shown below and record on specimen sheet:
2 WB (whole blood – purple top before spinning)
2 B (buffy coat)
2 R (red blood cells)
10-20 P (plasma)
10-20 S (serum) Red top yields serum aliquots.
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NMVB Total Accruals:
Total Number of cases
Total Number of Specimens
Total Number of Blocks 967 1198 881
Total Accrual Analysis/Year
(Cumulative):
Year 2006 2007 2008 2009 2010 2011 (to date) Retrospective Cases
515 574 594 663 668
677 Prospective Cases
8 61 116 173 235
290 Overall NMVB Total
523 635 710 836 903
967
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Percentage of contribution / Each Site:
Site Retrospective cases Prospective Cases Number of Cases Contributed % contribution NYU 157 85 242 25.5% U. Penn UPMC Total 121 399
678
86 199
267
207 518
967
21.5% 52%
100%
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NMVB Accrual / Year 967 Number of cases
1000 900 800 700 600 500 400 300 200 100 0
523
2006
635
2007
710
2008
836
2009
903
2010 2011 (to date)
Year
Accrual Trend
1200 1000 800 600 400 200 0 2006 Year Increase in Accrual Number of Cases 523 2007 112 635 2008 75 710 2009 126 836 2010 67 2011 (to date) 63 903 967
Number of Mesothelioma Cases for Each Age Group at Diagnosis
400 350 300 250 200 150 100 50 0
210 335 223 84 63 8 23 3
21-30 31-40 41-50 51-60 61-70 71-80 81-90 Greater than 90
Age Range
Unknown, 260, 27%
Vital Status
Alive, 179, 19% Dead, 528, 54%
Mesothelioma Cases With Substance Exposure
Asbestos, 367, 38% Non-Asbestos, 483, 50% Other, 117, 12%
NMVB Tissue Microarrays (TMAs)
Tissue Microarray (TMA) is used to examine the distribution of marker molecules in hundreds of different tissues displayed on a single slide.
UPMC TMA: 41 Mesothelioma cases primary and metastatic lesions .
36 cases have tissue cores from the primary lesion, 4 patients have tissue cores from a metastatic lesion and 1 patient has tissue cores from both the
U. Penn TMA: 4 TMA slides contain 61 mesothelioma cases. The TMA slides hold tissue core of primary, metastatic mesothelioma and control samples.
NYU TMA sample. : 37 cases have been included in the development of TMA which included primary metastatic, mixed lesions and control
TMA data excel, XML and maps files are available on the web site ( www.mesotissue.org
)
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Letter of Intent (LOI) Status Report
Total Number of Requests:
– Approved LOI – Completed
19 16 15
– Specimens Request In Process: – LOI request on Hold:
3 0
– Rejected/Closed
2
Average turnaround from initial request to getting specimens is about 6 weeks.
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http://www.mesotissue.org/
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Marketing Efforts:
NMVB resource is marketed in the following major meetings:
United States and Canadian Academy of Pathology (USCAP)
American Medical Informatics Association (AMIA) American Association for Cancer Research (AACR) Meso Foundation Annual Meetings (2008, 2009 & 2010) Pathology Informatics (2009 & 2011) Publications: Amin W, Parwani AV, Schmandt L, Mohanty SK, Farhat G, Pople AK, Winters SB, Whelan NB, Schneider AM, Milnes JT, Valdivieso FA, Feldman M, Pass HI, Dhir R, Melamed J, Becich MJ. National Mesothelioma Virtual Bank: a standard based biospecimen and clinical data resource to enhance translational research. BMC Cancer. 2008 Aug 13;8(1):236. Mohanty SK, Mistry AT, Amin W, Parwani AV, Pople AK, Schmandt L, Winters SB, Milliken E, Kim P, Whelan NB, Farhat G, Melamed J, Taioli E, Dhir R, Pass HI, Becich MJ. The development and deployment of Common Data Elements for tissue banks for translational research in cancer - an emerging standard based approach for the Mesothelioma Virtual Tissue Bank. BMC Cancer. 2008 Apr 8;8:91. Wilson RA, Chapman WW, Defries SJ, Becich MJ, Chapman BE. Automated ancillary cancer history classification for mesothelioma patients from free-text clinical reports. J Pathol Inform. 2010 Oct 11;1:24.
Kang HP, Borromeo CD, Berman JJ, Becich MJ. The tissue microarray OWL schema: An open source tool for sharing tissue microarray data. Journal of Pathology Informatics. 2010; 1.
Acknowledgment:
Collaborators:
Center for Disease Control and Prevention (CDC)
National Institute of Occupational Safety & Health (NIOSH) University of Pittsburgh (UPMC), Pittsburgh, PA University of Pennsylvania (U. Penn), Philadelphia, PA New York University (NYU), New York City, NY Mesothelioma Foundation (Meso Fndn ) Mount Sinai School of Medicine (MSSM) Insulators Union Tissue Bank (Led by James Grogan, President) University of California San Francisco (UCSF) NOTE: We are currently exploring expanding the network in 2011 with the University of Hawaii Mesothelioma SPORE (and UCSF).
Leadership: Steven Abelda, MD (U Penn) David Bartlett, MD (UPMC) Michael J. Becich MD, PhD (UPMC) Michael Feldman MD (U Penn) Kathy Wiedemer (Meso-Fndn.) Raja Flores, MD (MSSM) Steve Levin, MD (MSSM) James Luketich M.D (UPMC) Jonathan Melamed MD (NYU) Harvey I. Pass MD (NYU) Arjun Pennathur, MD (UPMC) James Pingpank, MD (UPMC) David Burstein, MD (MSSM) Andrew Todd, PhD (MSSM)