Standardization and utilization of biobank resources in clinical protein science with examples of emerging applications

Journal of Proteome Research

Volumn 11, Issue 11, 2012, Pages 5124-5134

  Marko Varga, György ^a,b   Végvári, Ákos ^a   Welinder, Charlotte ^c   Lindberg, Henrik ^a   Rezeli, Melinda ^a   Edula, Goutham ^d   Svensson, Katrin J ^c   Belting, Mattias ^c   Laurell, Thomas ^a   Fehniger, Thomas E ^a,e  

^a LUND UNIVERSITY   (Sweden)

^b TOKYO MEDICAL UNIVERSITY   (Japan)

^c LUND UNIVERSITY   (Sweden)

^d ASTRAZENECA R AND D   (Sweden)

^e TALLINN UNIVERSITY OF TECHNOLOGY   (Estonia)

Author keywords

biobank; biological specimen banks; biological specimen banks ethics; biological specimen banks legislation and jurisprudence; biomarkers; biomedical research ethics; disease; ethical review; ethics; government regulation; healthcare; Human Proteome Project; humans; informed consent; protein; tissue donors

Indexed keywords

BIOLOGICAL MARKER; DNA; ENOXAPARIN; HEPARIN; LOW MOLECULAR WEIGHT HEPARIN; PROTEIN; PROTEOME; RNA;

ARTICLE; BIOBANK RESOURCE; CANCER PROGNOSIS; CELL LABELING; CHROMOSOME; CIRCULATING TUMOR CELL; COMPUTED TOMOGRAPHY SCANNER; COMPUTER PROGRAM; CONSENSUS DEVELOPMENT; CRYOPRESERVATION; DATA BASE; DISEASE MARKER; FREEZING; GENE LOCUS; HUMAN; INFORMATION PROCESSING; LUNG SMALL CELL CANCER; NUCLEAR MAGNETIC RESONANCE IMAGING; POSITRON EMISSION TOMOGRAPHY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; STANDARDIZATION; THROMBOSIS; TISSUE PRESERVATION; TUMOR CELL; ULTRASOUND;

BIOLOGICAL SPECIMEN BANKS; PROTEINS;

EID: 84868326502     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr300185k     Document Type: Article

References (41)

1. Lasso, R. A. The ethics of research biobanking JAMA, J. Am. Med. Assoc. 2010, 304 (8) 908-910
2. Eiseman, E.; Bloom, G.; Brower, J.; Clancy, N.; Olmsted, S. S., Case Studies of Existing Human Tissue Repositories: "Best Practices" for a Biospecimen Resource for the Genomic and Proteomic Era; RAND Corporation: Santa Monica, CA, 2003.
3. Vaught, J.; Rogers, J.; Carolin, T.; Compton, C. Biobankonomics: Developing a sustainable business model approach for the formation of a human tissue biobank J. Natl. Cancer Inst. Monogr. 2011, 2011 (42) 24-31
4. Park, A. Ten Ideas Changing the World Right Now: Biobanks. TIME March 12, 2009.
5. Laurell, C. B.; Eriksson, S. The electrophoretic alpha 1-globulin pattern of serum in alpha 1-antitypsin deficiency Scand. J. Clin. Lab. Invest. 1963, 15 (2) 132-140
6. Riegman, P. H. J.; Morente, M. M.; Betsou, F.; de Blasio, P.; Geary, P.; Marble Arch Int Working, G. Biobanking for better healthcare Mol. Oncol. 2008, 2 (3) 213-222
7. Hewitt, R. E. Biobanking: the foundation of personalized medicine Curr. Opin. Oncol. 2011, 23 (1) 112-119
8. Shaw, P. M.; Patterson, S. D. The value of banked samples for oncology drug discovery and development J. Natl. Cancer Inst. Monogr. 2011, 2011 (42) 46-49
9. Marko-Varga, G. BioBanking-The Holy Grail of novel drug and diagnostic developments? J. Clin. Bioinf. 2011, 1 (1) 14
10. Hamburg, M. A.; Collins, F. S. The path to personalized medicine N. Engl. J. Med. 2010, 363 (4) 301-304
11. Katsanis, S. H.; Javitt, G.; Hudson, K. Public health-A case study of personalized medicine Science 2008, 320 (5872) 53-54
12. Marko-Varga, G.; Ogiwara, A.; Nishimura, T.; Kawamura, T.; Fujii, K.; Kawakami, T.; Kyono, Y.; Tu, H. K.; Anyoji, H.; Kanazawa, M.; Akimoto, S.; Hirano, T.; Tsuboi, M.; Nishio, K.; Hada, S.; Jiang, H.; Fukuoka, M.; Nakata, K.; Nishiwaki, Y.; Kunito, H.; Peers, I. S.; Harbron, C. G.; South, M. C.; Higenbottam, T.; Nyberg, F.; Kudoh, S.; Kato, H. Personalized medicine and proteomics: Lessons from non-small cell lung cancer J. Proteome Res. 2007, 6 (8) 2925-2935
13. Végvári, á.; Rezeli, M.; Döme, B.; Fehniger, T. E.; Marko-Varga, G. Translation science for targeted personalized medicine treatments. In Selected Presentations from the 2011 Sino-American Symposium on Clinical and Translational Medicine; Sanders, S., Ed.; Science/AAAS: Washington D.C., 2011; pp 36-37.
14. Zatloukal, K.; Hainaut, P. Human tissue biobanks as instruments for drug discovery and development: impact on personalized medicine Biomarkers Med. 2010, 4 (6) 895-903
15. van 't Veer, L. J.; Bernards, R. Enabling personalized cancer medicine through analysis of gene-expression patterns Nature 2008, 452 (7187) 564-570
16. Hansson, M. G. Ethics and biobanks Br. J. Cancer 2009, 100 (1) 8-12
17. Otlowski, M. F. A.; Nicol, D.; Stranger, M. J. A. Biobanks information paper 2010 J. Law Inf. Sci. 2010, 20 (1) 97-227
18. Hallmans, G.; Vaught, J. B. Best practices for establishing a biobank Methods Mol. Biol. 2011, 675, 241-260
19. Vaught, J.; Rogers, J.; Myers, K.; Lim, M. D.; Lockhart, N.; Moore, H.; Sawyer, S.; Furman, J. L.; Compton, C. An NCI perspective on creating sustainable biospecimen resources J. Natl. Cancer Inst. Monogr. 2011, 2011 (42) 1-7
20. Betsou, F.; Lehmann, S.; Ashton, G.; Barnes, M.; Benson, E. E.; Coppola, D.; DeSouza, Y.; Eliason, J.; Glazer, B.; Guadagni, F.; Harding, K.; Horsfall, D. J.; Kleeberger, C.; Nanni, U.; Prasad, A.; Shea, K.; Skubitz, A.; Somiari, S.; Gunter, E.; Biological, I. S. f.; Science, E. R. W. G. o. B. Standard preanalytical coding for biospecimens: defining the sample preanalytical code Cancer Epidemiol., Biomarkers Prev. 2010, 19 (4) 1004-1011
21. Blow, N. Biobanking: freezer burn Nat. Methods 2009, 6 (2) 173-177
22. LaBaer, J. So, you want to look for biomarkers-(Introduction to the special biornarkers issue) J. Proteome Res. 2005, 4 (4) 1053-1059
23. Moore, H. M.; Compton, C. C.; Lim, M. D.; Vaught, J.; Christiansen, K. N.; Alper, J. 2009 Biospecimen Research Network Symposium: Advancing cancer research through biospecimen science Cancer Res. 2009, 69 (17) 6770-6772
24. Végvári, á.; Welinder, C.; Lindberg, H.; Fehniger, T.; Marko-Varga, G. Biobank resources for future patient care: developments, principles and concepts J. Clin. Bioinf. 2011, 1 (1) 24
25. Rezeli, M.; Végvári, á.; Marko-Varga, G.; Laurell, T. Isotope labeled internal standards (ILIS) as a basis for quality control in clinical studies using plasma samples J. Proteomics 2010, 73 (6) 1219-1229
26. Moore, H. M.; Kelly, A. B.; Jewell, S. D.; McShane, L. M.; Clark, D. P.; Greenspan, R.; Hayes, D. F.; Hainaut, P.; Kim, P.; Mansfield, E.; Potapova, O.; Riegman, P.; Rubinstein, Y.; Seijo, E.; Somiari, S.; Watson, P.; Weier, H. U.; Zhu, C.; Vaught, J. Biospecimen reporting for improved study quality (BRISQ) J. Proteome Res. 2011, 10 (8) 3429-3438
27. Saghir, Z.; Dirksen, A.; Ashraf, H.; Bach, K. S.; Brodersen, J.; Clementsen, P. F.; Døssing, M.; Hansen, H.; Kofoed, K. F.; Larsen, K. R.; Mortensen, J.; Rasmussen, J. F.; Seersholm, N.; Skov, B. G.; Thorsen, H.; Tønnesen, P.; Pedersen, J. H. CT screening for lung cancer brings forward early disease. The randomised Danish Lung Cancer Screening Trial: status after five annual screening rounds with low-dose CT. Thorax 2012, not supplied.
28. Liebman, M. N. Personalized medicine: a perspective on the patient, disease and causal diagnostics Pers. Med. 2007, 4 (2) 171-174
29. Cornet, R.; de Keizer, N. Forty years of SNOMED: a literature review. BMC Med. Inf. Decis. Making 2008, not supplied.
30. Schriml, L. M.; Arze, C.; Nadendla, S.; Chang, Y. W.; Mazaitis, M.; Felix, V.; Feng, G.; Kibbe, W. A. Disease Ontology: a backbone for disease semantic integration Nucleic Acids Res. 2012, 40 (Database issue) D940-D946
31. Cristofanilli, M.; Budd, G. T.; Ellis, M. J.; Stopeck, A.; Matera, J.; Miller, M. C.; Reuben, J. M.; Doyle, G. V.; Allard, W. J.; Terstappen, L. W. M. M.; Hayes, D. F. Circulating tumor cells, disease progression, and survival in metastatic breast cancer N. Engl. J. Med. 2004, 351 (8) 781-791
32. Hou, J. M.; Greystoke, A.; Lancashire, L.; Cummings, J.; Ward, T.; Board, R.; Amir, E.; Hughes, S.; Krebs, M.; Hughes, A.; Ranson, M.; Lorigan, P.; Dive, C.; Blackhall, F. H. Evaluation of circulating tumor cells and serological cell death biomarkers in small cell lung cancer patients undergoing chemotherapy Am. J. Pathol. 2009, 175 (2) 808-816
33. Schubert, W. Exploring molecular networks directly in the cell Cytometry, Part A 2006, 69A (3) 109-112
34. Shaffer, D. R.; Leversha, M. A.; Danila, D. C.; Lin, O.; Gonzalez-Espinoza, R.; Gu, B.; Anand, A.; Smith, K.; Maslak, P.; Doyle, G. V.; Terstappen, L.; Lilja, H.; Heller, G.; Fleisher, M.; Scher, H. I. Circulating tumor cell analysis in patients with progressive castration-resistant prostate cancer Clin. Cancer Res. 2007, 13 (7) 2023-2029
35. Danila, D. C.; Heller, G.; Gignac, G. A.; Gonzalez-Espinoza, R.; Anand, A.; Tanaka, E.; Lilja, H.; Schwartz, L.; Larson, S.; Fleisher, M.; Scher, H. I. Circulating tumor cell number and prognosis in progressive castration-resistant prostate cancer Clin. Cancer Res. 2007, 13 (23) 7053-7058
36. Nilsson, A.; Petersson, F.; Jonsson, H.; Laurell, T. Acoustic control of suspended particles in micro fluidic chips Lab Chip 2004, 4 (2) 131-135
37. Jonsson, H.; Holm, C.; Nilsson, A.; Petersson, F.; Johnsson, P.; Laurell, T. Particle separation using ultrasound can radically reduce embolic load to brain after cardiac surgery Ann. Thorac. Surg. 2004, 78 (5) 1572-1578
38. Petersson, F.; Aberg, L.; Sward-Nilsson, A. M.; Laurell, T. Free flow acoustophoresis: Microfluidic-based mode of particle and cell separation Anal. Chem. 2007, 79 (14) 5117-5123
39. Legrain, P.; Aebersold, R.; Archakov, A.; Bairoch, A.; Bala, K.; Beretta, L.; Bergeron, J.; Borchers, C. H.; Corthals, G. L.; Costello, C. E.; Deutsch, E. W.; Domon, B.; Hancock, W.; He, F. C.; Hochstrasser, D.; Marko-Varga, G.; Salekdeh, G. H.; Sechi, S.; Snyder, M.; Srivastava, S.; Uhlen, M.; Wu, C. H.; Yamamoto, T.; Paik, Y. K.; Omenn, G. S. The Human Proteome Project: Current state and future direction. Mol. Cell. Proteomics 2011, not supplied.
40. Paik, Y. K.; Jeong, S. K.; Omenn, G. S.; Uhlen, M.; Beavis, R.; Hanash, S.; Lee, H. J.; Yan, F.; Zhang, Y.; Na, K.; Cho, S. Y.; Choi, E. Y.; Snyder, M.; Chen, Y.; Chen, R.; Marko-Varga, G.; Deutsch, E.; Kim, H.; Kwon, J. U.; Aebersold, R.; Bairoch, A.; Taylor, A.; Hochstrasser, D.; Legrain, P.; Hancock, W. A chromosome-centric Human Proteome Project to characterize the set of proteins encoded in the genome Nat. Biotechnol. 2012, 30 (3) 221-223
41. Marko-Varga, G. A.; Végvári, á.; Fehniger, T. E. A protein shake-up Public Serv. Rev.: Eur. Union 2011, 21, 250-252