User profiles for Peter Midford

Peter Midford

SRI International
Verified email at ai.sri.com
Cited by 9875

Estimating a binary character's effect on speciation and extinction

WP Maddison, PE Midford, SP Otto - Systematic biology, 2007 - academic.oup.com
Determining whether speciation and extinction rates depend on the state of a particular
character has been of long-standing interest to evolutionary biologists. To assess the effect of a …

The MetaCyc database of metabolic pathways and enzymes-a 2019 update

…, A Kothari, M Krummenacker, PE Midford… - Nucleic acids …, 2020 - academic.oup.com
MetaCyc ( MetaCyc.org ) is a comprehensive reference database of metabolic pathways and
enzymes from all domains of life. It contains 2749 pathways derived from more than 60 000 …

The MetaCyc database of metabolic pathways and enzymes

…, M Latendresse, PE Midford… - Nucleic acids …, 2018 - academic.oup.com
MetaCyc ( https://MetaCyc.org ) is a comprehensive reference database of metabolic pathways
and enzymes from all domains of life. It contains more than 2570 pathways derived from >…

The BioCyc collection of microbial genomes and metabolic pathways

…, M Krummenacker, PE Midford… - Briefings in …, 2019 - academic.oup.com
BioCyc.org is a microbial genome Web portal that combines thousands of genomes with
additional information inferred by computer programs, imported from other databases and …

Synthesis of phylogeny and taxonomy into a comprehensive tree of life

…, EJ McTavish, PE Midford… - Proceedings of the …, 2015 - pnas.org
Reconstructing the phylogenetic relationships that unite all lineages (the tree of life) is a grand
challenge. The paucity of homologous character data across disparately related lineages …

An introduction to phylogenetically based statistical methods, with a new method for confidence intervals on ancestral values

T Garland Jr, PE Midford, AR Ives - American Zoologist, 1999 - academic.oup.com
Interspecific comparisons have played a prominent role in evolutionary biology at least since
the time of Charles Darwin. Since 1985, the “comparative method” has been revitalized by …

Within-species variation and measurement error in phylogenetic comparative methods

AR Ives, PE Midford, T Garland Jr - Systematic biology, 2007 - academic.oup.com
Most phylogenetically based statistical methods for the analysis of quantitative or continuously
varying phenotypic traits assume that variation within species is absent or at least …

The EcoCyc database in 2021

…, A Kothari, M Krummenacker, PE Midford… - Frontiers in …, 2021 - frontiersin.org
The EcoCyc model-organism database collects and summarizes experimental data for
Escherichia coli K-12. EcoCyc is regularly updated by the manual curation of individual database …

Exploring power and parameter estimation of the BiSSE method for analyzing species diversification

MP Davis, PE Midford, W Maddison - BMC evolutionary biology, 2013 - Springer
Background There has been a considerable increase in studies investigating rates of
diversification and character evolution, with one of the promising techniques being the BiSSE …

Finding our way through phenotypes

…, JG Lundberg, J Macklin, AR Mast, PE Midford… - PLoS …, 2015 - journals.plos.org
Despite a large and multifaceted effort to understand the vast landscape of phenotypic data,
their current form inhibits productive data analysis. The lack of a community-wide, consensus…