Which melanoma patient carries a BRAF-mutation? A comparison of predictive models

Oncotarget

Volumn 7, Issue 24, 2016, Pages 36130-36137

  Eigentler, Thomas ^a   Assi, Zeinab ^a   Hassel, Jessica C ^b   Heinzerling, Lucie ^c   Starz, Hans ^d   Berneburg, Mark ^e   Bauer, Jürgen ^a   Garbe, Claus ^a  

^a UNIVERSITY HOSPITAL TÜBINGEN   (Germany)

^b UNIVERSITY HOSPITAL HEIDELBERG   (Germany)

^c UNIVERSITY HOSPITAL ERLANGEN   (Germany)

^d KLINIKUM AUGSBURG   (Germany)

^e UNIVERSITY OF REGENSBURG   (Germany)

Author keywords

Advanced melanoma; Binary logistic regression; BRAF; Classification and regression trees; Predictive models

Indexed keywords

B RAF KINASE;

ADULT; AGE; ARTICLE; CANCER PATIENT; CONTROLLED STUDY; DNA SEQUENCE; FEMALE; GENE MUTATION; HISTOPATHOLOGY; HUMAN; IMMUNOHISTOCHEMISTRY; LOGISTIC REGRESSION ANALYSIS; MAJOR CLINICAL STUDY; MALE; MELANOMA; PREDICTION; RANDOM FOREST; SENSITIVITY AND SPECIFICITY; STATISTICAL MODEL; AGED; COMPARATIVE STUDY; DNA MUTATIONAL ANALYSIS; GENETICS; MIDDLE AGED; MUTATION; NOMOGRAM; PROCEDURES; REGRESSION ANALYSIS; SKIN TUMOR; STATISTICS;

ADULT; AGED; DNA MUTATIONAL ANALYSIS; FEMALE; HUMANS; LOGISTIC MODELS; MALE; MELANOMA; MIDDLE AGED; MUTATION; NOMOGRAMS; PROTO-ONCOGENE PROTEINS B-RAF; REGRESSION ANALYSIS; SENSITIVITY AND SPECIFICITY; SKIN NEOPLASMS; STATISTICS AS TOPIC;

EID: 84978077059     PISSN: None     EISSN: 19492553     Source Type: Journal    
DOI: 10.18632/oncotarget.9143     Document Type: Article

References (20)

1. Davies H, Bignell GR, Cox C, Stephens P, Edkins S, Clegg S, Teague J, Woffendin H, Garnett MJ, Bottomley W, Davis N, Dicks E, Ewing R, et al. Mutations of the BRAF gene in human cancer. Nature. 2002; 417:949-954
2. Houben R, Becker JC, Kappel A, Terheyden P, Brocker EB, Goetz R, Rapp UR. Constitutive activation of the Ras-Raf signaling pathway in metastatic melanoma is associated with poor prognosis. J Carcinog. 2004; 3:6
3. Curtin JA, Fridlyand J, Kageshita T, Patel HN, Busam KJ, Kutzner H, Cho KH, Aiba S, Brocker EB, LeBoit PE, Pinkel D, Bastian BC. Distinct sets of genetic alterations in melanoma. N Engl J Med. 2005; 353:2135-2147
4. Breiman L. Classification and regression trees. (Belmont, Calif.: Wadsworth International Group). 1984
5. Breiman L. Random Forests. Machine Learning. 2001; 45:5-32
6. Bauer J, Buttner P, Murali R, Okamoto I, Kolaitis NA, Landi MT, Scolyer RA, Bastian BC. BRAF mutations in cutaneous melanoma are independently associated with age, anatomic site of the primary tumor, and the degree of solar elastosis at the primary tumor site. Pigment Cell Melanoma Res. 2011; 24:345-351
7. Long GV, Menzies AM, Nagrial AM, Haydu LE, Hamilton AL, Mann GJ, Hughes TM, Thompson JF, Scolyer RA, Kefford RF. Prognostic and clinicopathologic associations of oncogenic BRAF in metastatic melanoma. J Clin Oncol. 2011; 29: 1239-1246
8. Greaves WO, Verma S, Patel KP, Davies MA, Barkoh BA, Galbincea JM, Yao H, Lazar AJ, Aldape KD, Medeiros LJ, Luthra R. Frequency and spectrum of BRAF mutations in a retrospective, single-institution study of 1112 cases of melanoma. J Mol Diagn. 2013; 15:220-226
9. Baiter M, Schuler G, Hartmann A, Schneider-Stock R, Heinzerling L. Pathogenetic Implications of BRAF Mutation Distribution in Stage IV Melanoma Patients. Dermatology. 2015; 231:127-133
10. Broekaert SM, Roy R, Okamoto I, van den Oord J, Bauer J, Garbe C, Barnhill RL, Busam KJ, Cochran AJ, Cook MG, Elder DE, McCarthy SW, Mihm MC, et al. Genetic and morphologic features for melanoma classification. Pigment Cell Melanoma Res. 2010; 23:763-770
11. Whiteman DC, Pavan WJ, Bastian BC. The melanomas: a synthesis of epidemiological, clinical, histopathological, genetic, and biological aspects, supporting distinct subtypes, causal pathways, and cells of origin. Pigment Cell Melanoma Res. 2011; 24:879-897
12. Shinozaki M, Fujimoto A, Morton DL, Hoon DS. Incidence of BRAF oncogene mutation and clinical relevance for primary cutaneous melanomas. Clin Cancer Res. 2004; 10:1753-1757
13. Heinzerling L, Baiter M, Kuhnapfel S, Schuler G, Keikavoussi P, Agaimy A, Kiesewetter F, Hartmann A, Schneider-Stock R. Mutation landscape in melanoma patients clinical implications of heterogeneity of BRAF mutations. Br J Cancer. 2013; 109:2833-2841
14. Meckbach D, Bauer J, Pflugfelder A, Meier F, Busch C, Eigentler TK, Capper D, von Deimling A, Mittelbronn M, Perner S, Ikenberg K, Hantschke M, Buttner P, et al. Survival according to BRAF-V600 tumor mutations-an analysis of 437 patients with primary melanoma. PLoS One. 2014; 9:e86194
15. Qu K, Pan Q, Zhang X, Rodriguez L, Zhang K, Li H, Ho A, Sanders H, Sferruzza A, Cheng SM, Nguyen D, Jones, Waldman F. Detection of BRAF V600 mutations in metastatic melanoma: comparison of the Cobas 4800 and Sanger sequencing assays. J Mol Diagn. 2013; 15:790-795
16. R Core Team. R: A Language and Environment for Statistical Computing. (Vienna: R Foundation for Statistical Computing). 2014
17. Harrell Jr FE. rms: Regression Modeling Strategies. 2015
18. Kuhn M. caret: Classification and Regression Training. 2015
19. Ishwaran H and Kogalur U. (2015). Random Forests for Survival, Regression and Classification (RF-SRC). 2015
20. Ehrlinger J. ggRandomForests: Visually Exploring Random Forests. 2015