71 citations
Counting papers with at most 25 authors, so collaboration author lists do not stand in for the people here.
- Carnegie Institution for ScienceUS5 papers
- University of Illinois Urbana-ChampaignUS5 papers
- Stanford UniversityUS4 papers
- University of California, BerkeleyUS2 papers
- Agricultural Research ServiceUS1 paper
- Brandeis UniversityUS1 paper
- Dignity HealthUS1 paper
- Fundación Biofísica BizkaiaES1 paper
- Harvard UniversityUS1 paper
- Heidelberg Institute for Theoretical StudiesDE1 paper
- Howard Hughes Medical InstituteUS1 paper
- Instituto BiofisikaES1 paper
11 papers
PhenoAssistant: A Conversational Multi-Agent AI System for Automated Plant Phenotyping
Feng Chen, Ilias Stogiannidis, Andrew Wood +12
Plant phenotyping increasingly relies on (semi-)automated image-based analysis workflows to improve its accuracy and scalability. However, many existing solutions remain overly com…
Interfacial Stresses on Droplet Interface Bilayers Using Two Photon Fluorescence Lifetime Imaging Microscopy
Yaoqi Huang, Vineeth Chandran Suja, Menghao Yang +5
Response of lipid bilayers to external mechanical stimuli is an active area of research with implications for fundamental and synthetic cell biology. However, there is a lack of to…
grenedalf: population genetic statistics for the next generation of pool sequencing
Lucas Czech, Jeffrey P. Spence, Moisés Expósito-Alonso
Pool sequencing is an efficient method for capturing genome-wide allele frequencies from multiple individuals, with broad applications such as studying adaptation in Evolve-and-Res…
A note on retrodiction and machine evolution
Gustavo Caetano-Anollés
Biomolecular communication demands that interactions between parts of a molecular system act as scaffolds for message transmission. It also requires an evolving and organized syste…
Metagenomic Analysis using Phylogenetic Placement -- A Review of the First Decade
Lucas Czech, Alexandros Stamatakis, Micah Dunthorn +1
Phylogenetic placement refers to a family of tools and methods to analyze, visualize, and interpret the tsunami of metagenomic sequencing data generated by high-throughput sequenci…
grenepipe: A flexible, scalable, and reproducible pipeline to automate variant and frequency calling from sequence reads
Lucas Czech, Moises Exposito-Alonso
Processing high-throughput DNA sequencing data of individuals or populations requires stringing together independent software tools with many parameters, often leading to non-repro…
The impact of species-neutral stage structure on macroecological patterns
Rafael D'Andrea, James P. O'Dwyer
Despite its radical assumption of ecological equivalence between species, neutral biodiversity theory can often provide good fits to species abundance distributions observed in nat…
Reinterpreting Maximum Entropy in Ecology: a null hypothesis constrained by ecological mechanism
James P. O'Dwyer, Andrew Rominger, Xiao Xiao
Simplified mechanistic models in ecology have been criticized for the fact that a good fit to data does not imply the mechanism is true: pattern does not equal process. In parallel…
Inferring processes of cultural transmission: the critical role of rare variants in distinguishing neutrality from novelty biases
James P. O'Dwyer, Anne Kandler
Neutral evolution assumes that there are no selective forces distinguishing different variants in a population. Despite this striking assumption, many recent studies have sought to…
Rigid cluster decomposition reveals criticality in frictional jamming
Silke Henkes, David A. Quint, Y. Fily +1
We study the nature of the frictional jamming transition within the framework of rigidity percolation theory. Slowly sheared frictional packings are decomposed into rigid clusters…
The genomic impacts of drift and selection for hybrid performance in maize
Justin P. Gerke, Jode W. Edwards, Katherine E. Guill +2
Modern maize breeding relies upon selection in inbreeding populations to improve the performance of cross-population hybrids. The United States Department of Agriculture - Agricult…