On the Primer Selection Problem (2003)
Gabriel Robins, Dallas E. Wrege, Tongtong Zhang, William R. Pearson
In this paper we address the problem of primer selection in polymerase chain reaction (PCR) experiments. We prove that the problem of minimizing the number of primers required to amplify a set of DNA...
Protein sequence comparison and Protein evolution (2001)
Contents 1 Introduction 2 1.1 Evolutionary time scales . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4 1.2 Similarity, Ancestry and Structure . . . . . . . . . . . . . . . . . ....
Generalized Neighbor-Joining: More Reliable Phylogenetic Tree Reconstruction (1999)
William R. Pearson, Gabriel Robins, Tongtong Zhang
We have developed a phylogenetic tree reconstruction method that detects and reports multiple, topologically distant, low cost solutions. Our method is a generalization of the Neighbor-Joining (NJ)...
Dean Richard, W. Miksad, William A. Wulf, Paul F. Reynolds, William R. Pearson, Adam John Ferrari
Process Introspection is a fundamentally new solution to the process state capture and recovery problem suitable for use in high-performance heterogeneous distributed systems. A process state capture...
On the Primer Selection Problem in Polymerase Chain Reaction Experiments (1997)
William R. Pearson, Gabriel Robins, Dallas E. Wrege, Tongtong Zhang
In this paper we address the problem of primer selection in polymerase chain reaction (PCR) experiments. We prove that the problem of minimizing the number of primers required to amplify a set of DNA...
On the Primer Selection Problem in Polymerase Chain Reaction Experiments (1996)
William R. Pearson, Gabriel Robins, Dallas E. Wrege, Tongtong Zhang
In this paper we address the problem of primer selection in polymerase chain reaction (PCR) experiments. We prove that the problem of minimizing the number of primers required to amplify a set of DNA...
A New Approach to Primer Selection in Polymerase Chain Reaction Experiments (1995)
William R. Pearson, Gabriel Robins, Dallas E. Wrege, Tongtong Zhang
We address the problem of primer selection in polymerase chain reaction (PCR) experiments. We prove that the problem of minimizing the number of primers required to amplify a set of DNA sequences is...
On the Primer Selection Problem in Polymerase Chain Reaction Experiments (1993)
Gabriel Robins, Dallas E. Wrege, Tongtong Zhang, William R. Pearson
In this paper we address the problem of primer selection in polymerase chain reaction (PCR) experiments. We prove that the problem of minimizing the number of primers required to amplify a set of DNA...
Long and short repeats of sea urchin DNA and their evolution (1981)
Pearson, William R., Britten, Roy J., Davidson, Eric H., Moore, Gordon P.
Repeated sequences cloned from the DNA of the sea urchin S. purpuratus were used as probes to measure the lengths of individual families of repeats. Some probes reassociated much more rapidly with...
Murphy, Robert F., Pearson, William R., Bonner, James
Computer programs for the analysis of data from techniques frequently used in nucleic acids research are described. In addition to calculating non-linear least-squares solutions to equations...
Sequence Relationship between Long and Short Repetitive DNA of the Rat: A Preliminary Report (1977)
Wu, Jung-Rung, Pearson, William R., Posakony, James W., Bonner, James
Long and short repetitive sequences of rat DNA can be isolated and characterized. Long [>1.5 kilobases (kb)] sequences can be separated from short (0.2-0.4 kb) sequences by exclusion chromatography...
CRP: Cleavage of Radiolabeled Phosphoproteins
Mackey, Aaron J., Haystead, Timothy A.J., Pearson, William R.
The CRP (Cleavage of Radiolabeled Phosphoproteins) program guides the design and interpretation of experiments to identify protein phosphorylation sites by Edman sequencing of unseparated peptides....
Panning for Genes—A Visual Strategy for Identifying Novel Gene Orthologs and Paralogs
Retief, Jacques D., Lynch, Kevin R., Pearson, William R.
We have developed a rapid visual method for identifying novel members of gene families. Starting with an evolutionary tree, 20–50 protein query sequences for a gene family are selected from...
Kinetic Determination of the Genome Size of the Pea 1
Pearson, William R., Smith, Shelley L., Wu, Jung-Rung, Bonner, James
Renaturation of pea (Pisum sativum) DNA has been used to estimate the size of the pea genome and the fraction of pea DNA containing repeated DNA sequences. Pea DNA renaturation and single copy tracer...
Identification and characterization of GSTT3, a third murine Theta class glutathione transferase.
Coggan, Marjorie, Flanagan, Jack U, Parker, Michael W, Vichai, Vanicha, Pearson, William R, Board, Philip G
A novel Theta class glutathione transferase (GST) isoenzyme from mouse termed mGSTT3 has been identified by analysis of the expressed sequence tag database. The gene encoding mGSTT3 is clustered with...
CRP: Cleavage of Radiolabeled Phosphoproteins
Mackey, Aaron J., Haystead, Timothy A.J., Pearson, William R.
The CRP (Cleavage of Radiolabeled Phosphoproteins) program guides the design and interpretation of experiments to identify protein phosphorylation sites by Edman sequencing of unseparated peptides....
Panning for Genes—A Visual Strategy for Identifying Novel Gene Orthologs and Paralogs
Retief, Jacques D., Lynch, Kevin R., Pearson, William R.
We have developed a rapid visual method for identifying novel members of gene families. Starting with an evolutionary tree, 20–50 protein query sequences for a gene family are selected from...
Kinetic Determination of the Genome Size of the Pea 1
Pearson, William R., Smith, Shelley L., Wu, Jung-Rung, Bonner, James
Renaturation of pea (Pisum sativum) DNA has been used to estimate the size of the pea genome and the fraction of pea DNA containing repeated DNA sequences. Pea DNA renaturation and single copy tracer...
Identification and characterization of GSTT3, a third murine Theta class glutathione transferase.
Coggan, Marjorie, Flanagan, Jack U, Parker, Michael W, Vichai, Vanicha, Pearson, William R, Board, Philip G
A novel Theta class glutathione transferase (GST) isoenzyme from mouse termed mGSTT3 has been identified by analysis of the expressed sequence tag database. The gene encoding mGSTT3 is clustered with...
Sensitivity and selectivity in protein structure comparison
Sierk, Michael L., Pearson, William R.
Seven protein structure comparison methods and two sequence comparison programs were evaluated on their ability to detect either protein homologs or domains with the same topology (fold) as defined...