A physical map of the chicken genome (2004)
Wallis, John W, Aerts, Jan, Groenen, Martien A M, Layman, Dan, Graves, Tina A, ...
Strategies for assembling large, complex genomes have evolved to include a combination of whole-genome shotgun sequencing and hierarchal map-assisted sequencing. Whole-genome maps of all types can...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski,Martin, Wallis,John, Goesele,Claudia, Bosdet,Ian, Chiu,Readman, Graves,Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski,Martin, Wallis,John, Goesele,Claaudia, Bosdet,Ian, Chiu,Readman, Graves,Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski, Martin, Wallis, John, Goesele, Claaudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Integrated and sequence-ordered BAC and YAC-based physical maps for the rat genome (2004)
Krzywinski, Martin, Wallis, John, Goesele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome (2004)
Krzywinski, Martin, Wallis, John, Gösele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
PCAP: A Whole-Genome Assembly Program (2003)
Huang, Xiaoqiu, Wang, Jianmin, Aluru, Srinivas, Yang, Shiaw-Pyng, Hillier, LaDeana
We describe a whole-genome assembly program named PCAP for processing tens of millions of reads. The PCAP program has several features to address efficiency and accuracy issues in assembly. Multiple...
Jones, Steven J.M., Riddle, Donald L., Pouzyrev, Anatoli T., Velculescu, Victor E., Hillier, LaDeana, Eddy, Sean R., ...
Jones, Steven J.M., Riddle, Donald L., Pouzyrev, Anatoli T., Velculescu, Victor E., Hillier, LaDeana, Eddy, Sean R., ...
Jones, Steven J.M., Riddle, Donald L., Pouzyrev, Anatoli T., Velculescu, Victor E., Hillier, LaDeana, Eddy, Sean R., ...
Brent Ewing, Ladeana Hillier, Michael C. Wendl, Phil Green
The availability of massive amounts of DNA sequence information has begun to revolutionize the practice of biology. As a result, current large-scale sequencing output, while impressive, is not...
Overlapping Genomic Sequences: A Treasure Trove of Single-Nucleotide Polymorphisms (1998)
Taillon-Miller, Patricia, Gu, Zhijie, Li, Qun, Hillier, LaDeana, Kwok, Pui-Yan
Base-Calling of Automated Sequencer Traces Using Phred. I. Accuracy Assessment (1998)
Ewing, Brent, Hillier, LaDeana, Wendl, Michael C., Green, Phil
Sequence Assembly with CAFTOOLS (1998)
Dear, Simon, Durbin, Richard, Hillier, LaDeana, Marth, Gabor, Thierry-Mieg, Jean, Mott, Richard
The construction and analysis of M13 libraries prepared from YAC DNA (1995)
Vaudin, Mark, Hillier, LaDeana, Brinkman, Ryan, Sulston, John, Wilson, Richard K., Waterston, Robert H.
Yeast artificial chromosomes (YACs) provide a powerful way to isolate and map large regions of genomlc DNA and their use In genome analysis is now extensive. We modified a series of procedures to...
A trace display and editing program for data from fluorescence based sequencing machines (1991)
Gleeson, Timothy, Hillier, LaDeana
‘Ted’ (Trace editor) is a graphical editor for sequence and trace data from automated fluorescence sequencing machines. It provides facilities for viewing sequence and trace data (in top or...
Manger, Ian D., Hehl, Adrian, Parmley, Steve, Sibley, L. David, Marra, Marco, Hillier, Ladeana, ...
Toxoplasma gondii is a protozoan parasite responsible for widespread infections in humans and animals. Two major asexual forms are produced during the life cycle of this parasite: the rapidly...
Sequence Assembly with CAFTOOLS
Dear, Simon, Durbin, Richard, Hillier, LaDeana, Marth, Gabor, Thierry-Mieg, Jean, Mott, Richard
Large-scale genomic sequencing requires a software infrastructure to support and integrate applications that are not directly compatible. We describe a suite of software tools built around the Common...
DNA Sequence Chromatogram Browsing Using JAVA and CORBA
Parsons, Jeremy D., Buehler, Eugen, Hillier, LaDeana
DNA sequence chromatograms (traces) are the primary data source for all large-scale genomic and expressed sequence tags (ESTs) sequencing projects. Access to the sequencing trace assists many later...
Overlapping Genomic Sequences: A Treasure Trove of Single-Nucleotide Polymorphisms
Taillon-Miller, Patricia, Gu, Zhijie, Li, Qun, Hillier, LaDeana, Kwok, Pui-Yan
An efficient strategy to develop a dense set of single-nucleotide polymorphism (SNP) markers is to take advantage of the human genome sequencing effort currently under way. Our approach is based on...
Automated Sequence Preprocessing in a Large-Scale Sequencing Environment
Wendl, Michael C., Dear, Simon, Hodgson, Dave, Hillier, LaDeana
A software system for transforming fragments from four-color fluorescence-based gel electrophoresis experiments into assembled sequence is described. It has been developed for large-scale processing...
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome
Krzywinski, Martin, Wallis, John, Gösele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
PCAP: A Whole-Genome Assembly Program
Huang, Xiaoqiu, Wang, Jianmin, Aluru, Srinivas, Yang, Shiaw-Pyng, Hillier, LaDeana
We describe a whole-genome assembly program named PCAP for processing tens of millions of reads. The PCAP program has several features to address efficiency and accuracy issues in assembly. Multiple...
Manger, Ian D., Hehl, Adrian, Parmley, Steve, Sibley, L. David, Marra, Marco, Hillier, Ladeana, ...
Toxoplasma gondii is a protozoan parasite responsible for widespread infections in humans and animals. Two major asexual forms are produced during the life cycle of this parasite: the rapidly...
Sequence Assembly with CAFTOOLS
Dear, Simon, Durbin, Richard, Hillier, LaDeana, Marth, Gabor, Thierry-Mieg, Jean, Mott, Richard
Large-scale genomic sequencing requires a software infrastructure to support and integrate applications that are not directly compatible. We describe a suite of software tools built around the Common...
DNA Sequence Chromatogram Browsing Using JAVA and CORBA
Parsons, Jeremy D., Buehler, Eugen, Hillier, LaDeana
DNA sequence chromatograms (traces) are the primary data source for all large-scale genomic and expressed sequence tags (ESTs) sequencing projects. Access to the sequencing trace assists many later...
Overlapping Genomic Sequences: A Treasure Trove of Single-Nucleotide Polymorphisms
Taillon-Miller, Patricia, Gu, Zhijie, Li, Qun, Hillier, LaDeana, Kwok, Pui-Yan
An efficient strategy to develop a dense set of single-nucleotide polymorphism (SNP) markers is to take advantage of the human genome sequencing effort currently under way. Our approach is based on...
Automated Sequence Preprocessing in a Large-Scale Sequencing Environment
Wendl, Michael C., Dear, Simon, Hodgson, Dave, Hillier, LaDeana
A software system for transforming fragments from four-color fluorescence-based gel electrophoresis experiments into assembled sequence is described. It has been developed for large-scale processing...
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome
Krzywinski, Martin, Wallis, John, Gösele, Claudia, Bosdet, Ian, Chiu, Readman, Graves, Tina, ...
As part of the effort to sequence the genome of Rattus norvegicus, we constructed a physical map comprised of fingerprinted bacterial artificial chromosome (BAC) clones from the CHORI-230 BAC...
PCAP: A Whole-Genome Assembly Program
Huang, Xiaoqiu, Wang, Jianmin, Aluru, Srinivas, Yang, Shiaw-Pyng, Hillier, LaDeana
We describe a whole-genome assembly program named PCAP for processing tens of millions of reads. The PCAP program has several features to address efficiency and accuracy issues in assembly. Multiple...