• Publications
  • Influence
Integration of over 9,000 mass spectrometry experiments builds a global map of human protein complexes
Macromolecular protein complexes carry out many of the essential functions of cells, and many genetic diseases arise from disrupting the functions of such complexes. Currently, there is greatExpand
  • 90
  • 10
  • PDF
Towards Consensus Gene Ages
Correctly estimating the age of a gene or gene family is important for a variety of fields, including molecular evolution, comparative genomics, and phylogenetics, and increasingly for systemsExpand
  • 36
  • 5
  • PDF
Sequence amplification via cell passaging creates spurious signals of positive adaptation in influenza virus H3N2 hemagglutinin
Abstract Clinical influenza A virus isolates are frequently not sequenced directly. Instead, a majority of these isolates (∼70% in 2015) are first subjected to passaging for amplification, mostExpand
  • 32
  • 2
  • PDF
colorspace: A Toolbox for Manipulating and Assessing Colors and Palettes
TLDR
The R package colorspace provides a flexible toolbox for selecting individual colors or color palettes, manipulating these colors, and employing them in statistical graphics and data visualizations. Expand
  • 19
  • 1
  • PDF
A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies
Plants are foundational for global ecological and economic systems, but most plant proteins remain uncharacterized. Protein interaction networks often suggest protein functions and open new avenuesExpand
  • 9
Systematic bacterialization of yeast genes identifies a near-universally swappable pathway
Eukaryotes and prokaryotes last shared a common ancestor ~2 billion years ago, and while many present-day genes in these lineages predate this divergence, the extent to which these genes stillExpand
  • 15
  • PDF
A pan-plant protein complex map reveals deep conservation and novel assemblies
Plants are foundational to global ecological and economic systems, yet most plant proteins remain uncharacterized. Protein interaction networks often suggest protein functions and open new avenues toExpand
  • 9
  • PDF
Applications of comparative evolution to human disease genetics.
Direct comparison of human diseases with model phenotypes allows exploration of key areas of human biology which are often inaccessible for practical or ethical reasons. We review recent developmentsExpand
  • 6
  • PDF
A synthesis of over 9,000 mass spectrometry experiments reveals the core set of human protein complexes
Macromolecular protein complexes carry out many of the essential functions of cells, and many genetic diseases arise from disrupting the functions of such complexes. Currently there is great interestExpand
  • 4
Influenza passaging annotations: what they tell us and why we should listen
TLDR
We provide a concise overview of why viruses are passaged, a clear overview of passaging annotation nomenclature currently in use, and suggestions for a standardized nomenklature going forward. Expand
  • 4
  • PDF