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Document Outline - Defining KIR and HLA Class I Genotypes at Highest Resolution via High-Throughput Sequencing
- Introduction
- Material and Methods
- Overview
- Human Subjects and Data
- Laboratory Methods
- Design of Capture Oligonucleotide Probes
- Preparation of Biotinylated Capture Probes
- Library Preparation, Enrichment, and Sequencing
- NGS Strategies
- Enrichment Efficiency
- Validating the Results from Capture/NGS via Established Methods
- Bioinformatics Methods: PING Pipeline
- Harvesting KIR-Specific Reads
- KIR-Gene-Content Module: PING_gc
- KIR-Allele-Genotyping Module: PING_allele
- HLA Class I Genotypes
- Haplotype Assignments
- Results
- Validation of the KIR Capture Method
- Efficiency of the KIR Capture Method
- Specificity of Sequence-Read Harvesting
- Measurement of KIR Gene Copy Number: PING_gc
- High-Resolution Genotypes of KIR Alleles: PING_allele
- Identification of Novel Alleles by PING
- High-Resolution KIR Allele and Copy-Number Genotypes
- Validation of the High-Resolution HLA Class I Capture Method
- Discussion
- Appendix A: KIR Nomenclature
- Accession Numbers
- Supplemental Data
- Conflicts of Interest
- Web Resources
- References
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