DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative.
Diabetes Mellitus is a global health concern, characterized by high blood sugar levels over a prolonged period, leading to severe complications if left unmanaged. The early identification of individuals at risk is critical for effective intervention and treatment. Traditional diagnostic methods rely...
Saved in:
| Main Authors: | , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2025-01-01
|
| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0328253 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1849387596610797568 |
|---|---|
| author | Said A Salloum Khaled Mohammad Alomari Ayham Salloum |
| author_facet | Said A Salloum Khaled Mohammad Alomari Ayham Salloum |
| author_sort | Said A Salloum |
| collection | DOAJ |
| description | Diabetes Mellitus is a global health concern, characterized by high blood sugar levels over a prolonged period, leading to severe complications if left unmanaged. The early identification of individuals at risk is critical for effective intervention and treatment. Traditional diagnostic methods rely heavily on clinical symptoms and biochemical tests, which may not capture the underlying genetic predispositions. With the advent of genomics, DNA sequence analysis has emerged as a promising approach to uncover the genetic markers associated with Diabetes Mellitus. However, the challenge lies in accurately classifying DNA sequences to predict susceptibility to the disease, given the complex nature of genetic data. This study addresses this challenge by employing two advanced machine learning models, NuSVC (Nu-Support Vector Classification) and XGBoost (Extreme Gradient Boosting), to classify DNA sequences related to Diabetes Mellitus. The dataset, obtained from reputable sources like NCBI, was preprocessed using Natural Language Processing (NLP) techniques, where DNA sequences were treated as textual data and transformed into numerical features using TF-IDF (Term Frequency-Inverse Document Frequency). To handle the class imbalance in the dataset, SMOTE (Synthetic Minority Over-sampling Technique) was applied. The models were trained and validated using 10-fold cross-validation. XGBoost was trained with up to 300 boosting rounds, and performance was evaluated using accuracy, precision, recall, F1-score, ROC-AUC, and log loss. The results demonstrate that XGBoost outperformed NuSVC across all metrics, achieving an accuracy of 98%, a log loss of 0.0650, and an AUC of 1.00, compared to NuSVC's accuracy of 87%, log loss of 0.2649, and AUC of 0.95. The superior performance of XGBoost indicates its robustness in handling complex genetic data and its potential utility in clinical applications for early diagnosis of Diabetes Mellitus. The findings of this study underscore the importance of advanced machine learning techniques in genomics and suggest that integrating such models into healthcare systems could significantly enhance predictive diagnostics. |
| format | Article |
| id | doaj-art-4cb3327b7b3649bba04c78c513a9fbd3 |
| institution | Kabale University |
| issn | 1932-6203 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-4cb3327b7b3649bba04c78c513a9fbd32025-08-20T03:51:35ZengPublic Library of Science (PLoS)PLoS ONE1932-62032025-01-01207e032825310.1371/journal.pone.0328253DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative.Said A SalloumKhaled Mohammad AlomariAyham SalloumDiabetes Mellitus is a global health concern, characterized by high blood sugar levels over a prolonged period, leading to severe complications if left unmanaged. The early identification of individuals at risk is critical for effective intervention and treatment. Traditional diagnostic methods rely heavily on clinical symptoms and biochemical tests, which may not capture the underlying genetic predispositions. With the advent of genomics, DNA sequence analysis has emerged as a promising approach to uncover the genetic markers associated with Diabetes Mellitus. However, the challenge lies in accurately classifying DNA sequences to predict susceptibility to the disease, given the complex nature of genetic data. This study addresses this challenge by employing two advanced machine learning models, NuSVC (Nu-Support Vector Classification) and XGBoost (Extreme Gradient Boosting), to classify DNA sequences related to Diabetes Mellitus. The dataset, obtained from reputable sources like NCBI, was preprocessed using Natural Language Processing (NLP) techniques, where DNA sequences were treated as textual data and transformed into numerical features using TF-IDF (Term Frequency-Inverse Document Frequency). To handle the class imbalance in the dataset, SMOTE (Synthetic Minority Over-sampling Technique) was applied. The models were trained and validated using 10-fold cross-validation. XGBoost was trained with up to 300 boosting rounds, and performance was evaluated using accuracy, precision, recall, F1-score, ROC-AUC, and log loss. The results demonstrate that XGBoost outperformed NuSVC across all metrics, achieving an accuracy of 98%, a log loss of 0.0650, and an AUC of 1.00, compared to NuSVC's accuracy of 87%, log loss of 0.2649, and AUC of 0.95. The superior performance of XGBoost indicates its robustness in handling complex genetic data and its potential utility in clinical applications for early diagnosis of Diabetes Mellitus. The findings of this study underscore the importance of advanced machine learning techniques in genomics and suggest that integrating such models into healthcare systems could significantly enhance predictive diagnostics.https://doi.org/10.1371/journal.pone.0328253 |
| spellingShingle | Said A Salloum Khaled Mohammad Alomari Ayham Salloum DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative. PLoS ONE |
| title | DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative. |
| title_full | DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative. |
| title_fullStr | DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative. |
| title_full_unstemmed | DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative. |
| title_short | DNA sequence classification for diabetes mellitus using NuSVC and XGBoost: A comparative. |
| title_sort | dna sequence classification for diabetes mellitus using nusvc and xgboost a comparative |
| url | https://doi.org/10.1371/journal.pone.0328253 |
| work_keys_str_mv | AT saidasalloum dnasequenceclassificationfordiabetesmellitususingnusvcandxgboostacomparative AT khaledmohammadalomari dnasequenceclassificationfordiabetesmellitususingnusvcandxgboostacomparative AT ayhamsalloum dnasequenceclassificationfordiabetesmellitususingnusvcandxgboostacomparative |