Demonstration venue · read-only. Every page can be browsed; the buttons that would change it are switched off. Create an account to run TaxoReview on your own data. A simulation from public publication records: the people listed were not invited and did not agree to review.
? Tutorial for this page

Tyler A. Joseph

dblp:217/7759 · DBLP profile ↗
← Back
3ranked-venue papers
3as first author
0since 2021 · last 2020
0000-0001-6013-7285ORCID · reported

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 3 · 3 first-author

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
2 papers
Bioinformatics and computational biology · 100%

Topics — the 4 heaviest of 4, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology
metagenomics
0.412020
Efficient and Accurate Inference of Microbial Trajectories from Longitudinal Count Data · RECOMB 2020
Bioinformatics and computational biology › population genetics
ancestry inference
0.312018
Inference of Population Structure from Ancient DNA · RECOMB 2018
Bioinformatics and computational biology › population genetics
ancient DNA
0.312018
Inference of Population Structure from Ancient DNA · RECOMB 2018
Bioinformatics and computational biology
population genetics
0.312018
Inference of Population Structure from Ancient DNA · RECOMB 2018
YearPublicationVenuePosition
2020 Efficient and Accurate Inference of Microbial Trajectories from Longitudinal Count Data
Tyler A. Joseph, Amey P. Pasarkar, Itsik Pe'er
RECOMB1
2020 Compositional Lotka-Volterra describes microbial dynamics in the simplex
abstract
Dynamic changes in microbial communities play an important role in human health and disease. Specifically, deciphering how microbial species in a community interact with each other and their environment can elucidate mechanisms of disease, a problem typically investigated using tools from community ecology. Yet, such methods require measurements of absolute densities, whereas typical datasets only provide estimates of relative abundances. Here, we systematically investigate models of microbial dynamics in the simplex of relative abundances. We derive a new nonlinear dynamical system for microbial dynamics, termed "compositional" Lotka-Volterra (cLV), unifying approaches using generalized Lotka-Volterra (gLV) equations from community ecology and compositional data analysis. On three real datasets, we demonstrate that cLV recapitulates interactions between relative abundances implied by gLV. Moreover, we show that cLV is as accurate as gLV in forecasting microbial trajectories in terms of relative abundances. We further compare cLV to two other models of relative abundance dynamics motivated by common assumptions in the literature-a linear model in a log-ratio transformed space, and a linear model in the space of relative abundances-and provide evidence that cLV more accurately describes community trajectories over time. Finally, we investigate when information about direct effects can be recovered from relative data that naively provide information about only indirect effects. Our results suggest that strong effects may be recoverable from relative data, but more subtle effects are challenging to identify.
Tyler A. Joseph, Liat Shenhav, João B. Xavier, Eran Halperin, Itsik Pe'er
PLoS Comput. Biol.1
2018 Inference of Population Structure from Ancient DNA
Tyler A. Joseph, Itsik Pe'er
RECOMB1