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Deep Learning for Genomics

You're reading from   Deep Learning for Genomics Data-driven approaches for genomics applications in life sciences and biotechnology

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Product type Paperback
Published in Nov 2022
Publisher Packt
ISBN-13 9781804615447
Length 270 pages
Edition 1st Edition
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Author (1):
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Upendra Kumar Devisetty Upendra Kumar Devisetty
Author Profile Icon Upendra Kumar Devisetty
Upendra Kumar Devisetty
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Table of Contents (18) Chapters Close

Preface 1. Part 1 – Machine Learning in Genomics
2. Chapter 1: Introducing Machine Learning for Genomics FREE CHAPTER 3. Chapter 2: Genomics Data Analysis 4. Chapter 3: Machine Learning Methods for Genomic Applications 5. Part 2 – Deep Learning for Genomic Applications
6. Chapter 4: Deep Learning for Genomics 7. Chapter 5: Introducing Convolutional Neural Networks for Genomics 8. Chapter 6: Recurrent Neural Networks in Genomics 9. Chapter 7: Unsupervised Deep Learning with Autoencoders 10. Chapter 8: GANs for Improving Models in Genomics 11. Part 3 – Operationalizing models
12. Chapter 9: Building and Tuning Deep Learning Models 13. Chapter 10: Model Interpretability in Genomics 14. Chapter 11: Model Deployment and Monitoring 15. Chapter 12: Challenges, Pitfalls, and Best Practices for Deep Learning in Genomics 16. Index 17. Other Books You May Enjoy

What are RNNs?

Before we understand RNNs, let’s refresh our memory and revisit how FNNs and CNNs work. In a typical FNN, you have an input layer, multiple hidden layers, and an output layer. After all the data is fed into the input layer, the information passes to the hidden layer. Then, the dot product of the input value and weight of each node is summed up, along with the bias term, which is turned into an activation function at each of the three nodes (Figure 6.1). The activation function can be binary, sigmoid, ReLu, LeakyReLu, or something else, as you learned in Chapter 4, Deep Learning for Genomics. Depending on the type of activation function, the value of the single node in the hidden layer is outputted:

Figure 6.1 – A multi-dimensional input type FNN

The number of nodes in the output layer depends on the problem and the required output. For example, if you are trying to classify a DNA sequence based on mutations in each of the 10 different...

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