Sequence Language Models & Deep Learning in Genomics
Multi-Modal-Biology
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Multi-Modal Biology
Preface
What is this Book About?
How to Read this Book
The software stack
Structure of an ML model
DNA models
1
Preparing DNA data for training
2
Training our first DNA Language Model
3
Evaluating DNA Language Models
4
Evolution-Aware Encoders
5
Comparing Models
6
A Review of Current DNA Language Models
Scale up Training
Protein models
7
Proteins: from sequence to structure
8
Selecting and curating protein sequences
9
Training our first Protein Language Model
10
Protein contact maps from attention maps
11
Integrated protein diffusion language models
Multi-Modal-Biology
12
Multi-Modal Biology
13
Summary
References
Multi-Modal-Biology
12
Multi-Modal Biology
12
Multi-Modal Biology
11
Integrated protein diffusion language models
13
Summary