Author

J. M. Calabrese

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Ecology· 9 Biochemistry· 1 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 9 Research Focus:ecology & biodiversity· 5 Research Focus:benchmarking· 3 Approach:deep learning· 2 Approach:experimental assay· 2 Organism:human· 2 Organism:multiple species· 2 Research Focus:software / tool· 2

Frequent Co-Authors

C. H. Fleming· 6 shared M. J. Noonan· 4 shared W. F. Fagan· 4 shared R. Kays· 3 shared A. Mertel· 2 shared E. P. Medici· 2 shared G. Su· 2 shared N. Dejid· 2 shared

Activity by Year

2018-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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6 shared papersEcology

C. H. Fleming

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Author profile →

11 papers

Recent·Most cited

A network based approach to identifying correlations between phylogeny, morphological traits and occurrence information of fish Species in US river basins.

R. Tripathi, A. Reza, G. Su, A. Mertel, J. M. Calabrese

The paper uses a network approach to analyze how phylogeny and morphology influence co-occurrence patterns of fish species in US river basins, finding morphology has a stronger effect.

PLOS ONE · Jun 23, 2023Peer-reviewedEcology

Nomadic ungulate movements under threat: Declining mobility of Mongolian gazelles in the Eastern Steppe.

P. Mendgen, N. Dejid, K. Olson, B. Buuveibaatar, J. M. Calabrese, B. Chimeddorj, M. Dalannast, W. F. Fagan, P. Leimgruber, T. Mueller

This study shows that Mongolian gazelles have reduced long-distance movement by 36% over 15 years due to increasing vehicle traffic, despite no physical barriers.

bioRxiv · Feb 5, 2023Ecology

movedesign: Shiny R app to evaluate sampling design for animal tracking movement studies

I. Silva, C. H. Fleming, M. J. Noonan, W. F. Fagan, J. M. Calabrese

movedesign evaluates sampling design for animal tracking studies to assess precision in estimating home range, speed, and distance traveled.

bioRxiv · Jan 27, 2023Ecology

Mitigating pseudoreplication and bias in resource selection functions with autocorrelation-informed weighting

J. M. Alston, C. H. Fleming, R. Kays, J. P. Streicher, C. T. Downs, T. Ramesh, J. M. Calabrese

This paper introduces a method to improve resource selection functions by weighting animal locations based on autocorrelation, reducing bias and improving confidence intervals in ecological studies.

bioRxiv · Apr 21, 2022Ecology

Species invasiveness and community invasibility of US freshwater fish fauna revealed via trait-based analysis

G. Su, A. Mertel, S. Brosse, J. M. Calabrese

The paper analyzes trait-based data to assess species invasiveness and community invasibility in US freshwater fish, finding that higher reproduction rates, longer life spans, and larger sizes correlate with invasiveness, while community invasibility peaks when native species have high functional distance.

bioRxiv · Mar 4, 2022 · PreprintEcology

Population-level inference for home-range areas

C. H. Fleming, I. Deznabi, S. Alavi, M. C. Crofoot, B. T. Hirsch, E. P. Medici, M. J. Noonan, R. Kays, W. F. Fagan, D. Sheldon, J. M. Calabrese

This paper introduces a framework for population-level home-range analysis that accounts for temporal autocorrelation and uncertainty, applied to multiple species to quantify differences in movement patterns.

bioRxiv · Jul 5, 2021Ecology

A comprehensive framework for handling location error in animal tracking data

C. H. Fleming, J. Drescher-Lehman, M. J. Noonan, T. S. B. Akre, D. J. Brown, M. M. Cochrane, N. Dejid, V. DeNicola, C. S. DePerno, J. N. Dunlop, N. P. Gould, A.-L. Harrison, J. Hollins, H. Ishii, Y. Kaneko, , J. M. Calabrese

This paper introduces a framework for handling location error in animal tracking data, showing that error-model selection improves analysis accuracy across various tracking devices and species.

bioRxiv · Jun 12, 2020 · PreprintEcology

ctmmweb: A graphical user interface for autocorrelation-informed home range estimation

J. M. Calabrese, C. H. Fleming, M. J. Noonan, X. Dong

The paper introduces ctmmweb, a graphical interface for autocorrelation-informed home range estimation, demonstrating its use on jaguar tracking data.

bioRxiv · May 11, 2020Ecology

RNP-MaP: In-cell analysis of protein interaction networks defines functional hubs in RNA

C. A. Weidmann, A. M. Mustoe, P. B. Jariwala, J. M. Calabrese, K. M. Weeks

RNP-MaP maps protein interaction networks on RNAs with single-nucleotide resolution, revealing conserved hubs and functional sites in RNAs like XIST.

bioRxiv · Feb 7, 2020Biochemistry

How range residency and long-range perception change encounter rates

R. Martinez-Garcia, C. H. Fleming, R. Seppelt, W. Fagan, J. M. Calabrese

The paper derives analytical expressions for encounter rates under Ornstein-Uhlenbeck motion and compares them to Reflected Brownian Motion, showing that neglecting realistic movement and perceptual behaviors can bias encounter rate predictions.

bioRxiv · Jul 23, 2019Ecology

SWI/SNF remains localized to chromatin in the presence of SCHLAP1

J. R. Raab, K. N. Smith, C. C. Spear, C. J. Manner, J. M. Calabrese, T. Magnuson

The paper investigates how SCHLAP1 affects SWI/SNF chromatin remodeling complexes and finds that SWI/SNF remains localized to chromatin, with SCHLAP1 influencing chromatin openness and RNA interactions.

bioRxiv · May 14, 2018Cancer Biology