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|Year : 2005 | Volume
| Issue : 2 | Page : 106-108
‘Neural network’ algorithm to predict severity in epidermolysis bullosa simplex
Bell Raj Eapen
Department of Dermatology, Atlas Star Medical Centre, Dubai, United Arab Emirates
Bell Raj Eapen
Atlas Star Medical Centre, P.O. Box - 112392, Dubai
United Arab Emirates
BACKGROUND AND AIMS: There are various genotypic variations known for the four phenotypic presentations of epidermolysis bullosa simplex (EBS). A neural network algorithm may be used to find the relationship between the various factors responsible for a particular phenotypic presentation. We assessed the value of neural network to predict the prognosis of epidermolysis bullosa simplex. METHODS: Cases of EBS in which sequencing had been performed to identify the position and type of mutation were collected by literature search and the resulting data was analyzed using neural network algorithm. RESULTS: The statistical prediction had an accuracy rate of 78%. CONCLUSION: Neural networks can identify hidden patterns in a huge database without the intervention of a skilled statistician. It has the potential to change the way we analyze clinical and experimental data at present.
|How to cite this article:|
Eapen BR. ‘Neural network’ algorithm to predict severity in epidermolysis bullosa simplex.Indian J Dermatol Venereol Leprol 2005;71:106-108
|How to cite this URL:|
Eapen BR. ‘Neural network’ algorithm to predict severity in epidermolysis bullosa simplex. Indian J Dermatol Venereol Leprol [serial online] 2005 [cited 2019 Oct 13 ];71:106-108
Available from: http://www.ijdvl.com/text.asp?2005/71/2/106/13995
Epidermolysis bullosa simplex (EBS) is a genetic disease with predominantly autosomal dominant inheritance, characterized by fragility of the skin caused by minor trauma. Severity of disease in the four clinical sub-types of EBS ranges from relatively mild blistering of the hands and feet in the Weber Cockayne (EBS-WC) type to more generalized blistering in the Koebner's type (EBS-K), EBS with mottled pigmentation (EBS-MP), and the Dowling Meara variety (EBS-DM) which can even be fatal.
All four forms of EBS are caused by mutation in either the Keratin 5 gene (KRT5, gi 27503816) or the Keratin 14 gene (KRT14 gi 27769301). KRT5 and KRT14 have 590 and 472 amino acids respectively and they form obligatory heterodimers, which self-assemble into 10 nm intermediate filaments (IF). Like all IF proteins, they have a central -helical rod domain, flanked by non-helical head and tail domains. The helix initiation region, linker region and the helix termination region are the mutational hot spots. Hence the clinical subtype and the severity could depend on various factors like the location of mutation, alteration in the type of amino acid, and the type of keratin involved.
Neural network is a statistical analysis tool, i.e. it lets us build behavior models starting from a collection of examples (defined by a series of numeric or textual descriptive variables) of this behavior. The neural net, ignorant at the start, through a learning process, becomes a model of the dependencies between the descriptive variables and the behavior to be explained. The model is automatically and straightforwardly built from the data with no intervention needed at any stage. However, the success of neural networks largely depends on their architecture, their algorithm, and the choice of features used in training. Unfortunately, determining the architecture of a neural network is a trial-and-error process.
Several mutations have been identified in EBS following sequence analysis of 28 cases. We performed neural network analysis on this data to find hidden patterns and an attempt was made to predict the phenotypic presentation based on the mutation.
Twenty eight Cases of EBS in which sequencing had been performed to identify the position and type of mutation were collected by a literature search. A numeric code was assigned to the type of mutation [Table:1].
A neural network software called Neunet Pro marketed by Cormac Technologies Inc, Canada was used for the analysis. A trial version of the software is available for free download from http://www.cormactech.com/neunet/index.htm The variables included for 'training' are explained in [Table:2]. Shuffling of data rows was done prior to training. Finally the 'SFAM' method (Simplified Fuzzy Adaptive Resonance Theory Map) of the software was used to predict the 'disease' variable.
The first 24 rows were selected as the 'training set'. The 'testing set' comprised the last 9 rows which included 4 rows that were not exposed during training.
The details of the 'training set' and 'testing set' of patients are tabulated in [Table:3].
Transmission electron microscope examination of a skin biopsy or immunofluorescent antibody/antigen mapping is the sine qua non for the diagnosis of EBS at present. The severity of the disease ranges from relatively innocuous EBS-WC to potentially fatal EBS-DM. Though prenatal diagnosis is possible with the latest molecular testing techniques, predicting the severity of the disease is difficult as there are many genotypic variations known for each phenotypic presentation. This new statistical method may be of use in this regard.
Neural network algorithm has been successfully employed for predicting prostatic cancer and for other applications in dermatology like skin capillary network recognition. However in our case, there is only a limited amount of data available and the accuracy rate of the prediction is only 78%. Hence the utility of this prediction algorithm is questionable. However, this highlights the worth of 'neural networks' as a statistical analysis tool that can be effectively used to find hidden patterns in large databases related to dermatology.
|1||Mitsuhashi Y, Hashimoto I. Genetic abnormalities and clinical classification of epidermolysis bullosa. Arch Dermatol Res 2003;295:S29-33.|
|2||Sorensen CB, Andresen BS, Jensen UB, Jensen TG, Jensen PK, Gregersen N, et al. Functional testing of keratin 14 mutant proteins associated with the three major subtypes of epidermolysis bullosa simplex. Exp Dermatol 2003;12:472-9.|
|3||Leigh IM, Lane EB. Mutations in the genes for epidermal keratins in epidermolysis bullosa and epidermolytic hyperkeratosis. Arch Dermatol 1993;129:1571-7.|
|4||Wlison KW, Coulombe PA, Fuchs E. The roles of K5 anf K14 Head, Tail, and R/KLLEGE domains in Keratin filament assembly in vitro. The J Cell Biol 1992;119:401-14.|
|5||Xu ZB, Qiao H, Peng J, Zhang B. A comparative study of two modeling approaches in neural networks. Neural Netw 2004;17:73-85.|
|6||Wojnarowska F, Eady RA, Burge SM. Bullous Eruptions In: Champion RH, Burton JL, Burns DA, Breathnach SM, editors. Rook Textbook of Dermatology. 6th Ed. Blackwell science; 1998. p. 1819-21.|
|7||Moog U, de Die-Smulders CE, Scheffer H, van der Vlies P, Henquet CJ, Jonkman MF. Epidermolysis bullosa simplex with mottled pigmentation: Clinical aspects and confirmation of the P24L mutation in the KRT5 gene in further patients. Am J Med Genet 1999;86:376-9.|
|8||Petronius D, Bergman R, Ben Izhak O, Leiba R, Sprecher E. A comparative study of immunohistochemistry and electron microscopy used in the diagnosis of epidermolysis bullosa. Am J Dermatopathol 2003;25:198-203.|
|9||Babaian RJ, Fritsche H, Ayala A, Bhadkamkar V, Johnston DA, Naccarato W, et al. Performance of a neural network in detecting prostate cancer in the prostate-specific antigen reflex range of 2.5 to 4.0 ng/mL. Urology 2000;56:1000-6.|
|10||Sainthillier JM, Gharbi T, Muret P, Humbert P. Skin capillary network recognition and analysis by means of neural algorithms. Skin Res Technol 2005;11:9-16.|