Publications - Published papers
Please find below publications of our group. Currently, we list 565 papers. Some of the publications are in collaboration with the group of Sonja Prohaska and are also listed in the publication list for her individual group. Access to published papers (
) is restricted to our local network and chosen collaborators.
If you have problems accessing electronic information, please let us know:
) is restricted to our local network and chosen collaborators.
If you have problems accessing electronic information, please let us know:©NOTICE: All papers are copyrighted by the authors; If you would like to use all or a portion of any paper, please contact the author.
A comprehensively molecular haplotype-resolved genome of a European individual.
Suk, EK., McEwen, G.K., Duitama, J., Nowick, K., Schulz, S., Palczewski, S., Schreiber, S., Holloway, D., McLaughlin S., Peckham, H., Lee, C., Huebsch, T., and Hoehe, M.R.
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Status: Published
Genome Research, Epub 2011/08/05
Abstract
Independent determination of both haplotype sequences of an individual genome is essential to relate genetic variation to
genome function, phenotype, and disease. To address the importance of phase, we have generated the most complete
haplotype-resolved genome to date, ‘‘Max Planck One’’ (MP1), by fosmid pool-based next generation sequencing. Virtually
all SNPs (>99%) and 80,000 indels were phased into haploid sequences of up to 6.3 Mb (N50 ~1 Mb). The
completeness of phasing allowed determination of the concrete molecular haplotype pairs for the vast majority of genes
(81%) including potential regulatory sequences, of which >90% were found to be constituted by two different molecular
forms. A subset of 159 genes with potentially severe mutations in either cis or trans configurations exemplified in particular
the role of phase for gene function, disease, and clinical interpretation of personal genomes (e.g., BRCA1). Extended genomic
regions harboring manifold combinations of physically and/or functionally related genes and regulatory elements
were resolved into their underlying ‘‘haploid landscapes,’’ which may define the functional genome. Moreover, the majority
of genes and functional sequences were found to contain individual or rare SNPs, which cannot be phased from
population data alone, emphasizing the importance of molecular phasing for characterizing a genome in its molecular
individuality. Our work provides the foundation to understand that the distinction of molecular haplotypes is essential to
resolve the (inherently individual) biology of genes, genomes, and disease, establishing a reference point for ‘‘phasesensitive’’
personal genomics. MP1’s annotated haploid genomes are available as a public resource.