Electronic Health Record Phenotyping
Translational Bioinformatics for Immunogenomics
Welcome
Introduction
Immunogenomics
Human Leukocyte Antigens
1
Functional Divergence
2
HLA Imputation Programs
3
HLA Analysis Programs
Killer Cell Immunoglobulin-like Receptors
4
KIR Allele Imputation Programs
ERAP
5
ERAP Imputation
T-cell Receptors
Electronic Health Record Phenotyping
Bonus
Drug Allergy
6
Immediate Drug Allergy
7
Delayed Drug Allergy
8
Specific Drugs
Bioinformatic Best Practices
9
Reproducible Data Analysis Workflow
10
Project Organization
11
File Naming Conventions
12
Version Control with Git
13
Containerization with Docker
Genotype Imputation
Presenting Your Medical Research
On Being a Physician-Scientist
References
Table of contents
De-identified Electronic Health Records (EHR)
Data Structure
EHR-linked Biobanks
Phenotyping Approaches
Rule-based phenotyping
Higher-order phenotyping
Statistical Models
Large Language Models
Electronic Health Record Phenotyping
De-identified Electronic Health Records (EHR)
Data Structure
EHR-linked Biobanks
Phenotyping Approaches
Rule-based phenotyping
Higher-order phenotyping
Statistical Models
Large Language Models
T-cell Receptors
Bonus
