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Support Vector Machines and Kernels for Computational Biology

Author

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  • Asa Ben-Hur
  • Cheng Soon Ong
  • Sören Sonnenburg
  • Bernhard Schölkopf
  • Gunnar Rätsch

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  • Asa Ben-Hur & Cheng Soon Ong & Sören Sonnenburg & Bernhard Schölkopf & Gunnar Rätsch, 2008. "Support Vector Machines and Kernels for Computational Biology," PLOS Computational Biology, Public Library of Science, vol. 4(10), pages 1-10, October.
    • Handle: RePEc:plo:pcbi00:1000173
    DOI: 10.1371/journal.pcbi.1000173
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    References listed on IDEAS

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    1. Adi L Tarca & Vincent J Carey & Xue-wen Chen & Roberto Romero & Sorin Drăghici, 2007. "Machine Learning and Its Applications to Biology," PLOS Computational Biology, Public Library of Science, vol. 3(6), pages 1-11, June.
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    1. Emili Balaguer-Ballester & Christopher C Lapish & Jeremy K Seamans & Daniel Durstewitz, 2011. "Attracting Dynamics of Frontal Cortex Ensembles during Memory-Guided Decision-Making," PLOS Computational Biology, Public Library of Science, vol. 7(5), pages 1-19, May.
    2. Kay H Brodersen & Thomas M Schofield & Alexander P Leff & Cheng Soon Ong & Ekaterina I Lomakina & Joachim M Buhmann & Klaas E Stephan, 2011. "Generative Embedding for Model-Based Classification of fMRI Data," PLOS Computational Biology, Public Library of Science, vol. 7(6), pages 1-19, June.
    3. Shweta Bhandare & Debra S Goldberg & Robin Dowell, 2017. "Discriminating between HuR and TTP binding sites using the k-spectrum kernel method," PLOS ONE, Public Library of Science, vol. 12(3), pages 1-14, March.
    4. A Ivanenko & P Watkins & M A J van Gerven & K Hammerschmidt & B Englitz, 2020. "Classifying sex and strain from mouse ultrasonic vocalizations using deep learning," PLOS Computational Biology, Public Library of Science, vol. 16(6), pages 1-27, June.
    5. Yue Deng & Yanyu Zhao & Yebin Liu & Qionghai Dai, 2013. "Differences Help Recognition: A Probabilistic Interpretation," PLOS ONE, Public Library of Science, vol. 8(6), pages 1-10, June.
    6. Charlotte Soneson & Sarah Gerster & Mauro Delorenzi, 2014. "Batch Effect Confounding Leads to Strong Bias in Performance Estimates Obtained by Cross-Validation," PLOS ONE, Public Library of Science, vol. 9(6), pages 1-13, June.
    7. Takaya Saito & Marc Rehmsmeier, 2015. "The Precision-Recall Plot Is More Informative than the ROC Plot When Evaluating Binary Classifiers on Imbalanced Datasets," PLOS ONE, Public Library of Science, vol. 10(3), pages 1-21, March.
    8. Igor O Korolev & Laura L Symonds & Andrea C Bozoki & Alzheimer's Disease Neuroimaging Initiative, 2016. "Predicting Progression from Mild Cognitive Impairment to Alzheimer's Dementia Using Clinical, MRI, and Plasma Biomarkers via Probabilistic Pattern Classification," PLOS ONE, Public Library of Science, vol. 11(2), pages 1-25, February.
    9. Stephen J Gilmore, 2018. "Automated decision support in melanocytic lesion management," PLOS ONE, Public Library of Science, vol. 13(9), pages 1-15, September.
    10. Juan A G Ranea & Ian Morilla & Jon G Lees & Adam J Reid & Corin Yeats & Andrew B Clegg & Francisca Sanchez-Jimenez & Christine Orengo, 2010. "Finding the “Dark Matter” in Human and Yeast Protein Network Prediction and Modelling," PLOS Computational Biology, Public Library of Science, vol. 6(9), pages 1-14, September.
    11. Alaa Tharwat & Aboul Ella Hassanien, 2019. "Quantum-Behaved Particle Swarm Optimization for Parameter Optimization of Support Vector Machine," Journal of Classification, Springer;The Classification Society, vol. 36(3), pages 576-598, October.
    12. S. Camelo & M. González-Lima & A. Quiroz, 2015. "Nearest neighbors methods for support vector machines," Annals of Operations Research, Springer, vol. 235(1), pages 85-101, December.
    13. Emily S W Wong & Margaret C Hardy & David Wood & Timothy Bailey & Glenn F King, 2013. "SVM-Based Prediction of Propeptide Cleavage Sites in Spider Toxins Identifies Toxin Innovation in an Australian Tarantula," PLOS ONE, Public Library of Science, vol. 8(7), pages 1-11, July.
    14. Wei Shui & Yiyi Zhang & Xinggui Wang & Yuanmeng Liu & Qianfeng Wang & Fei Duan & Chaowei Wu & Wanyu Shui, 2022. "Does Tibetan Household Livelihood Capital Enhance Tourism Participation Sustainability? Evidence from China’s Jiaju Tibetan Village," IJERPH, MDPI, vol. 19(15), pages 1-15, July.
    15. Lior Shamir & John D Delaney & Nikita Orlov & D Mark Eckley & Ilya G Goldberg, 2010. "Pattern Recognition Software and Techniques for Biological Image Analysis," PLOS Computational Biology, Public Library of Science, vol. 6(11), pages 1-10, November.
    16. Marina M -C Vidovic & Nico Görnitz & Klaus-Robert Müller & Gunnar Rätsch & Marius Kloft, 2015. "SVM2Motif—Reconstructing Overlapping DNA Sequence Motifs by Mimicking an SVM Predictor," PLOS ONE, Public Library of Science, vol. 10(12), pages 1-23, December.

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