BOWiki: an ontology-based wiki for annotation of data and integration of knowledge in biology (2009)
Hoehndorf, Robert, Bacher, Joshua, Backhaus, Michael, Gregorio, Sergio E, Loebe, Frank, Prüfer, Kay, ...
Abstract Motivation Ontology development and the annotation of biological data using ontologies are time-consuming exercises that currently require input from expert curators. Open, collaborative...
The design of a wiki-based curation system for the Ontology of Functions (2008)
Robert Hoehndorf, Kay Prüfer, Michael Backhaus, Johann Visagie, Janet Kelso
Recently, studies [1] argued that statistical and linguistic methods can be applied to extract information from biomedical ontologies, and represent the identified relations in the top-level ontology...
A Complete Neandertal Mitochondrial Genome Sequence Determined by High-Throughput Sequencing (2008)
Green, Richard E., Malaspinas, Anna-Sapfo, Krause, Johannes, Briggs, Adrian W., Johnson, Philip L. F., Uhler, Caroline, ...
PatMaN: rapid alignment of short sequences to large databases (2008)
Prüfer, Kay, Stenzel, Udo, Dannemann, Michael, Green, Richard E., Lachmann, Michael, Kelso, Janet
PatMaN: rapid alignment of short sequences to large databases (2008)
Prüfer, Kay, Stenzel, Udo, Dannemann, Michael, Green, Richard E., Lachmann, Michael, Kelso, Janet
Summary: We present a tool suited for searching for many short nucleotide sequences in large databases, allowing for a predefined number of gaps and mismatches. The commandline-driven program...
Targeted high-throughput sequencing of tagged nucleic acid samples (2007)
Meyer, Matthias, Stenzel, Udo, Myles, Sean, Prüfer, Kay, Hofreiter, Michael
High-throughput 454 DNA sequencing technology allows much faster and more cost-effective sequencing than traditional Sanger sequencing. However, the technology imposes inherent limitations on the...
Prüfer, Kay, Muetzel, Bjoern, Do, Hong-Hai, Weiss, Gunter, Khaitovich, Philipp, Rahm, Erhard, ...
Abstract Background Genome-wide expression, sequence and association studies typically yield large sets of gene candidates, which must then be further analysed and interpreted. Information about...
Patterns of damage in genomic DNA sequences from a Neandertal (2007)
Briggs, Adrian W., Stenzel, Udo, Johnson, Philip L. F., Green, Richard E., Kelso, Janet, Prüfer, Kay, ...
Neanderthals in central Asia and Siberia (2007)
Krause, Johannes, Orlando, Ludivic, Serre, David, Bence, Viola, Prüfer, Kay, Richards, Michael P., ...
Targeted high-throughput sequencing of tagged nucleic acid samples (2007)
Meyer, Matthias, Stenzel, Udo, Myles, Sean, Prüfer, Kay, Hofreiter, Michael
Evolutionary and Biomedical Insights from the Rhesus Macaque Genome (2007)
Rogers, Jeffrey, Katze, Michael G., Gibbs, Richard A., Burmgarner, Roger, Weinstock, George M., Prüfer, Kay
Initial sequence of the chimpanzee genome and comparison with the human genome (2005)
Mikkelsen, Tarjei S., Hillier, LaDeana W., Eichler, Evan E., Zody, Michael C., Jaffe, David B., Yang, Shiaw-Pyng, ...
Here we present a draft genome sequence of the common chimpanzee (Pan troglodytes). Through comparison with the human genome, we have generated a largely complete catalogue of the genetic differences...
Why do human diversity levels vary at a megabase scale?
Hellmann, Ines, Prüfer, Kay, Ji, Hongkai, Zody, Michael C., Pääbo, Svante, Ptak, Susan E.
Levels of diversity vary across the human genome. This variation is caused by two forces: differences in mutation rates and the differential impact of natural selection. Pertinent to the question of...
Why do human diversity levels vary at a megabase scale?
Hellmann, Ines, Prüfer, Kay, Ji, Hongkai, Zody, Michael C., Pääbo, Svante, Ptak, Susan E.
Levels of diversity vary across the human genome. This variation is caused by two forces: differences in mutation rates and the differential impact of natural selection. Pertinent to the question of...
FUNC: a package for detecting significant associations between gene sets and ontological annotations
Prüfer, Kay, Muetzel, Bjoern, Do, Hong-Hai, Weiss, Gunter, Khaitovich, Philipp, Rahm, Erhard, ...
Targeted high-throughput sequencing of tagged nucleic acid samples
Meyer, Matthias, Stenzel, Udo, Myles, Sean, Prüfer, Kay, Hofreiter, Michael
High-throughput 454 DNA sequencing technology allows much faster and more cost-effective sequencing than traditional Sanger sequencing. However, the technology imposes inherent limitations on the...
Patterns of damage in genomic DNA sequences from a Neandertal
Briggs, Adrian W., Stenzel, Udo, Johnson, Philip L. F., Green, Richard E., Kelso, Janet, Prüfer, Kay, ...
High-throughput direct sequencing techniques have recently opened the possibility to sequence genomes from Pleistocene organisms. Here we analyze DNA sequences determined from a Neandertal, a...
BOWiki: an ontology-based wiki for annotation of data and integration of knowledge in biology
Hoehndorf, Robert, Bacher, Joshua, Backhaus, Michael, Gregorio, Sergio E, Loebe, Frank, Prüfer, Kay, ...
PatMaN: rapid alignment of short sequences to large databases
Prüfer, Kay, Stenzel, Udo, Dannemann, Michael, Green, Richard E., Lachmann, Michael, Kelso, Janet
Summary: We present a tool suited for searching for many short nucleotide sequences in large databases, allowing for a predefined number of gaps and mismatches. The commandline-driven program...
The Neandertal genome and ancient DNA authenticity
Green, Richard E, Briggs, Adrian W, Krause, Johannes, Prüfer, Kay, Burbano, Hernán A, Siebauer, Michael, ...
Recent advances in high-thoughput DNA sequencing have made genome-scale analyses of genomes of extinct organisms possible. With these new opportunities come new difficulties in assessing the...