Part I: Haplotyping with Long Range PCR
1. Haplotyping of Heterozygous SNPs in Genomic DNA using Long Range PCR
Barbara Arbeithuber, Angelika Heissl, and Irene Tiemann-Boege
2. Quantification and Sequencing of Crossover Recombinant Molecules from Arabidopsis Pollen DNA
Kyuha Choi, Nataliya E. Yelina, Heidi Serra, and Ian R. Henderson
Part II: Selective Sequencing of Gene Families (including the MHC)
3. Pacbio for Haplotyping in Gene Families
Wei Zhang and Joachim Messing
4. High Molecular Weight DNA Enrichment with Peptide Nucleic Acid Probes
Nicholas M. Murphy, Colin W. Pouton, and Helen R. Irving
5. High-Throughput Sequencing of the Major Histocompatibility Complex following Targeted Sequence Capture
Johannes Proell, Carina Fischer, Gabriele Michelitsch, Martin Danzer, and Norbert Niklas
6. Pedigree-defined Haplotypes and their Applications to Genetic Studies
Chester A. Alper and Charles E. Larsen
Part III: Haploid-cell Typing
7. Haplotyping a Non-Meiotic Diploid Fungal Pathogen using Induced Aneuploidies and SNP/CGH Microarray Analysis
Judith Berman and Anja Forche
8. Whole-genome Haplotyping of Single Sperm of Daphnia Pulex (Crustacea, Anomopoda)
Sen Xu and Kim Young
Part IV: Haplotyping Single Chromosomes
9. Chromosome-range Whole-genome High-throughput Experimental Haplotyping by single-chromosome Microdissection
Li Ma, Wenzhi Li, and Qing Song
10. Phased Genome Sequencing through Chromosome Sorting
Xi Chen, Hong Yang, and Wing Hung Wong
Part V: Genome Wide Haplotyping
11. Long Fragment Read (LFR) Technology: Cost-effective, High-quality Genome-wide Molecular Haplotyping
Mark A. McElwain, Rebecca Yu Zhang, Radoje Drmanac, and Brock A. Peters
12. Contiguity-Preserving Transposition Sequencing (CPT-seq) for Genome-Wide Haplotyping, Assembly, and Single-Cell ATAC-seq
Lena Christiansen, Sasan Amini, Fan Zhang, Mostafa Ronaghi, Kevin L. Gunderson, and Frank J. Steemers
13. Fosmid Pool-Based Next Generation Sequencing to Haplotype-Resolve Whole Genomes
Eun-Kyung Suk, Sabrina Schulz, Birgit Mentrup, Thomas Huebsch, Jorge Duitama,
and Margret R. Hoehe
Part VI: High throughput Haplotyping of Rare Variants
14. Discovery of Rare-haplotype Variants by Typing Millions of Single-molecules with Bead Emulsion Haplotyping (BEH)
Elisabeth Palzenberger, Ronja Reinhardt, Leila Muresan, Barbara Palaoro, and Irene Tiemann-Boege
Part VII: Computational Algorithms for Haplotyping
15. Computational Haplotype Inference from Pooled Samples
Quan Long
