Logical analysis of diffuse large B-cell lymphomas

Artificial Intelligence in Medicine

Volumn 34, Issue 3, 2005, Pages 235-267

  Alexe, G ^a,b   Alexe, S ^b   Axelrod, D E ^b   Hammer, P L ^b   Weissmann, D ^c  

^a INSTITUTE FOR ADVANCED STUDY   (United States)

^b RUTGERS UNIVERSITY   (United States)

^c ROBERT WOOD JOHNSON UNIVERSITY HOSPITAL   (United States)

Author keywords

Combinatorial biomarkers; Diagnosis; Diffuse large B cell lymphoma; Follicular lymphoma; Logical analysis of data; Patterns; Prognosis

Indexed keywords

CELLS; DATA REDUCTION; DISEASES; GENES; MATHEMATICAL MODELS; OPTIMIZATION; PATIENT TREATMENT; SENSITIVITY ANALYSIS; STATISTICAL METHODS;

DIFFUSE LARGE B-CELL LYMPHOMA (DLBCL); FOLLICULAR LYMPHOMA (FL); LOGICAL ANALYSIS OF DATA (LAD);

MEDICINE;

BIOLOGICAL MARKER;

ACCURACY; ARTICLE; B CELL LYMPHOMA; DECISION THEORY; DIFFERENTIAL DIAGNOSIS; FOLLICULAR LYMPHOMA; LARGE CELL LYMPHOMA; LOGIC; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROGNOSIS; STATISTICAL ANALYSIS;

COMBINATORIAL CHEMISTRY TECHNIQUES; HUMANS; LOGIC; LYMPHOMA, B-CELL; LYMPHOMA, FOLLICULAR; LYMPHOMA, LARGE-CELL, DIFFUSE; MODELS, BIOLOGICAL; MODELS, STATISTICAL; NEURAL NETWORKS (COMPUTER);

EID: 22044432047     PISSN: 09333657     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.artmed.2004.11.004     Document Type: Article

References (30)

1. N.L. Harris, and J.A. Ferry Biologic basis for classification of lymphoid neoplasms R.I. Handin S.E. Lux T.P. Stossel Blood: principles and practice of hematology 2003 Lippincott Williams & Wilkens Philadelphia 733 778
2. I. Anagnostopoulos, F. Dallenbach, and H. Stein Diffuse large cell lymphomas D.M. Knowles Neoplasatic hematopathology 2001 Lippincott Williams & Wilkins Philadelphia 855 913
3. A.A. Alizadeh, M.B. Eisen, R.E. Davis, C. Ma, I.S. Lossos, and A. Rosenwald Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling Nature 403 6769 2000 503 511
4. M.A. Shipp, K.N. Ross, P. Tamayo, A.P. Weng, J.L. Kutok, and R.C. Aguiar Diffuse large B-cell lymphoma outcome prediction by gene-expression profiling and supervised machine learning Nat Med 8 1 2002 68 74
5. M.S. Lauer, S. Alexe, E. Pothier, C.E. Snader, E.H. Blackstone, and H. Ishwaran Use of the logical analysis of data method for assessing long-term mortality risk after exercise electrocardiography Circulation 106 6 2002 685 690
6. S. Alexe, E. Blackstone, P.L. Hammer, H. Ishwaran, M.S. Lauer, and C.E. Pothier Snader Coronary risk prediction by logical analysis of data Ann Operat Res 119 2003 15 42
7. G. Alexe, S. Alexe, P.L. Hammer, L.A. Liotta, E. Petricoin, and M. Reiss Ovarian cancer detection by logical analysis of proteomic data Proteomics 4 3 2004 766 783
8. Alexe S, Hammer PL. Accelerated algorithm for pattern detection in logical analysis of data. Discrete Appl Math, in press.
9. Alexe G, Alexe S, Hammer PL, Kogan A. Comprehensive vs. comprehensible classifiers in logical analysis of data. Discrete Appl Math, in press.
10. S. Ramaswamy, P. Tamayo, R. Rifkin, S. Mukherjee, C.H. Yeang, and M. Angelo Multiclass cancer diagnosis using tumor gene expression signatures Proc Natl Acad Sci USA 98 26 2001 15149 15154
11. I. Guyon, and A. Ellisseff An introduction to variable and feature selection J Mach Learn Res 3 2003 1157 1182
12. Y. Crama, P.L. Hammer, and T. Ibaraki Cause-effect relationships and partially defined Boolean functions Ann Operat Res 16 1988 299 326
13. E. Boros, P.L. Hammer, T. Ibaraki, A. Kogan, E. Mayoraz, and I. Muchnik An implementation of logical analysis of data IEEE Trans Knowl Data Eng 12 2 2000 292 306
14. Alexe G, Alexe S, Hammer PL, Vizvari B. Pattern-based feature selection in genomics and proteomics. Rutgers University, RUTCOR Research Report RRR 2003;7:1-24.
15. V. Chvàtal A greedy heuristic for the set-covering problem Math Operat Res 4 3 1979 233 235
16. Alexe G, Alexe S, Hammer PL. Pattern-based clustering and attribute analysis. Soft Comput, in press.
17. B. Coifferier Diffuse large cell lymphoma Curr Opin Oncol 13 2001 325 334
18. The International Non-Hodgkin's Lymphoma Prognostic Factors Project A predictive model for aggressive non-Hodgkin's lymphoma N Engl J Med 329 1993 987 994
19. A. Lopez-Guillermo, E. Montserrat, F. Bosch, M.J. Terol, E. Campo, and C. Rozman Applicability of the International Index for aggressive lymphomas to patients with low-grade lymphoma J Clin Oncol 12 1994 1343 1348
20. Hastie T, Tibshirani R, Eisen M, Brown P, Scherf U, Weinstein J, et al. 'Gene shaving' as a method for identifying distinct sets of genes with similar expression patterns. Genome Biol 2000;1:research0003.1-0003.21.
21. M.C. O'Neill, and L. Song Neural network analysis of lymphoma microarray data; prognosis and diagnosis near-perfect BMC Bioinform 4 1 2003 13
22. T.R. Golub, D.K. Slonim, P. Tamayo, C. Huard, M. Gaasenbeek, and J.P. Mesirov Molecular classification of cancer: class discovery and class prediction by gene expression monitoring Science 286 5439 1999 531 537
23. G. Wright, B. Tan, A. Rosenwald, E.H. Hurt, A. Wiestner, and L.M. Staudt A gene expression-based method to diagnose clinically distinct subgroups of diffuse large B cell lymphoma Proc Natl Acad Sci USA 100 17 2003 9991 9996
24. G. Valentini Gene expression data analysis of human lymphoma using support vector machines and output coding ensembles Artif Intell Med 26 3 2002 283 306
25. K.S. Elenitoba-Johnson, S.D. Jenson, R.T. Abbott, R.A. Palais, S.D. Bohling, and Z. Lin Involvement of multiple signaling pathways in follicular lymphoma transformation: p38-mitogen-activated protein kinase as a target for therapy Proc Natl Acad Sci USA 100 12 2003 7259 7264
26. A. Rosenwald, G. Wright, W.C. Chan, J.M. Connors, E. Campo, and R.I. Fisher Lymphoma/Leukemia Molecular Profiling Project. The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma N Engl J Med 346 25 2002 1937 1947
27. S.L. Barrans, I. Carter, R.G. Owen, F.E. Davies, R.D. Patmore, and A.P. Haynes Germinal center phenotype and bcl-2 expression combined with the International Prognostic Index improves patient risk stratification in diffuse large B-cell lymphoma Blood 99 4 2002 1136 1143
28. L. Colomo, A. Lopez-Guillermo, M. Perales, S. Rives, A. Martinez, and F. Bosch Clinical impact of the differentiation profile assessed by immunophenotyping in patients with diffuse large B-cell lymphoma Blood 101 1 2003 78 84
29. A.I. Saez, A.J. Saez, M.J. Artiga, A. Perez-Rosado, F.I. Camacho, and A. Diez Building an outcome predictor model for diffuse large B-cell lymphoma Am J Pathol 164 2 2004 613 622
30. I.S. Lossos, D.K. Czerwinski, A.A. Alizadeh, M.A. Wechser, R. Tibshirani, and D. Botstein Prediction of survival in diffuse large B-cell lymphoma based on the expression of six genes N Engl J Med 350 18 2004 1828 1837