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Employment (4)

Louisiana State University: Baton Rouge, US

2023 to present | Professor (Biological Sciences)
Employment
Source: Self-asserted source
Jeremy Brown

Louisiana State University: Baton Rouge, LA, US

2017 to 2023 | Associate Professor (Biological Sciences)
Employment
Source: Self-asserted source
Jeremy Brown

Louisiana State University: Baton Rouge, LA, US

2011 to 2017 | Assistant Professor (Biological Sciences)
Employment
Source: Self-asserted source
Jeremy Brown

University of California Berkeley: Berkeley, CA, US

2009 to 2011 | NSF Bioinformatics Postdoctoral Researcher (Integrative Biology)
Employment
Source: Self-asserted source
Jeremy Brown

Education and qualifications (2)

University of Texas at Austin: Austin, TX, US

2003 to 2009 | Ph.D. Ecology, Evolution, and Behavior (Integrative Biology)
Education
Source: Self-asserted source
Jeremy Brown

Indiana University Bloomington: Bloomington, IN, US

1998 to 2002 | BS Biology (Biology)
Education
Source: Self-asserted source
Jeremy Brown

Funding (7)

RaMP: The Louisiana Graduate Network in Applied Evolution (LAGNiAppE) to strengthen regional connections and broaden the STEM workforce

2022-09-01 to 2026-08-31 | Grant
Directorate for Biological Sciences (Alexandria, US)
GRANT_NUMBER: 2216631
Source: Self-asserted source
Jeremy Brown via DimensionsWizard

Collaborative Research: CIBR: CloudForest: A Portable Cyberinfrastructure Workflow To Advance Biological Insight from Massive, Heterogeneous Phylogenomic Datasets

2019 to 2022 | Grant
National Science Foundation (VA, VA, US)
GRANT_NUMBER: 1934156
Source: Self-asserted source
Jeremy Brown

Training in Innovative Phylogenetics and Comparative Methods at the Society of Systematic Biologists Meeting, January, 2017, Baton Rouge, Louisiana

2017-01 to 2017-12 | Grant
National Science Foundation (Alexandria, VA, US)
GRANT_NUMBER: 1723656
Source: Self-asserted source
Jeremy Brown

Collaborative Research: Bayesian Model Checking for Phylogenetics in the Post-Genomic Era

2014-08-01 to 2017-07-31 | Grant
National Science Foundation - Directorate for Biological Sciences (Arlington, US)
GRANT_NUMBER: 1355071
Source: Self-asserted source
Jeremy Brown via DimensionsWizard

Collaborative Research: ABI Innovation: Quantifying and Exploiting the Structure of Phylogenetic Tree Space Through Network Analyses

Source: Self-asserted source
Jeremy Brown via DimensionsWizard

Extending the Microbial Forensic Toolkit Through Whole Genome Sequencing and Statistical Phylogenomics

2011 to 2013 | Award
National Institute of Justice (DC, DC, US)
GRANT_NUMBER: 2011-DN-BX-K534
Source: Self-asserted source
Jeremy Brown

Postdoctoral Research Fellowships in Biology for FY 2009

2009-09-01 to 2011-08-31 | Grant
National Science Foundation - Directorate for Biological Sciences (Arlington, US)
GRANT_NUMBER: 0905867
Source: Self-asserted source
Jeremy Brown via DimensionsWizard

Works (46)

Complex Models of Sequence Evolution Improve Fit, But Not Gene Tree Discordance, for Tetrapod Mitogenomes

Systematic Biology
2024-10-11 | Journal article
Contributors: Benjamin S Toups; Robert C Thomson; Jeremy M Brown; Ya Yang
Source: check_circle
Crossref

Assessing the Adequacy of Morphological Models Using Posterior Predictive Simulations

Systematic Biology
2024-10-07 | Journal article
Contributors: Laura P A Mulvey; Michael R May; Jeremy M Brown; Sebastian Höhna; April M Wright; Rachel C M Warnock; Seraina Klopfstein
Source: check_circle
Crossref

The Expected Behaviors of Posterior Predictive Tests and Their Unexpected Interpretation

Molecular Biology and Evolution
2024-03-01 | Journal article | Author
Part of ISSN: 0737-4038
Part of ISSN: 1537-1719
Contributors: Luiza Guimarães Fabreti; Lyndon M Coghill; Robert Thomson; Sebastian Hoehna; Jeremy Brown
Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 2)‎

Assessing the Adequacy of Morphological Models used in Palaeobiology

2024-01-27 | Preprint
Contributors: Laura P. A. Mulvey; Michael R. May; Jeremy M. Brown; Sebastian Höhna; April M. Wright; Rachel C. M. Warnock
Source: check_circle
Crossref

Comparing Likelihood Ratios to Understand Genome-Wide Variation in Phylogenetic Support

Systematic Biology
2022-06-16 | Journal article | Author
Part of ISSN: 1063-5157
Part of ISSN: 1076-836X
Contributors: Genevieve G Mount; Jeremy Brown
Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 2)‎

On the Need for New Measures of Phylogenomic Support

Systematic Biology
2022-06-16 | Journal article | Author
Part of ISSN: 1063-5157
Part of ISSN: 1076-836X
Contributors: Robert Thomson; Jeremy Brown
Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 2)‎

Lessons learned from organizing and teaching virtual phylogenetics workshops

Bulletin of the Society of Systematic Biologists
2022-06-06 | Journal article
Part of ISSN: 2768-0819
Contributors: Joëlle Barido-Sottani; Joshua A. Justison; Rui Borges; Jeremy M. Brown; Wade Dismukes; Bruno Do Rosario Petrucci; Luiza Guimarães Fabreti; Sebastian Höhna; Michael J. Landis; Paul O. Lewis et al.
Source: Self-asserted source
Jeremy Brown

Lessons learned from organizing and teaching virtual phylogenetics workshops

2022-04-12 | Preprint
Contributors: Joëlle Barido-Sottani; Joshua Justison; Rui Borges; Jeremy Brown; Wade Dismukes; Bruno Petrucci; Luiza Fabreti; Sebastian Höhna; Michael Landis; Paul Lewis
Source: check_circle
Crossref

Investigating the Genomic Distribution of Phylogenetic Signal with CloudForest

Practice and Experience in Advanced Research Computing
2021-07-17 | Conference paper
Contributors: Reid Wagner; Benjamin S. Toups; Zhifeng Deng; Kyle A. Gallivan; Jeremy M. Brown; James C. Wilgenbusch
Source: Self-asserted source
Jeremy Brown

Phylogenomics Reveals Ancient Gene Tree Discordance in the Amphibian Tree of Life

Systematic Biology
2021-01-01 | Journal article
Part of ISSN: 1063-5157
Part of ISSN: 1076-836X
Contributors: Paul M Hime; Alan R Lemmon; Emily C Moriarty Lemmon; Elizabeth Prendini; Jeremy M Brown; Robert C Thomson; Justin D Kratovil; Brice P Noonan; R Alexander Pyron; Pedro L V Peloso et al.
Source: Self-asserted source
Jeremy Brown

Evolution in the Courtroom: Using Phylogenetics to Investigate Legal Claims of HIV Transmission

2020-07-28 | Preprint | Author
Contributors: Benjamin Toups; Jeremy Brown
Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 2)‎

The Diverse Applications of Tree Set Visualization and Exploration

2020-07-17 | Preprint
Contributors: Jeremy Brown; Genevieve Mount; Kyle Gallivan; James Wilgenbusch
Source: check_circle
Crossref

Hinge Region in DNA Packaging Terminase pUL15 of Herpes Simplex Virus: A Potential Allosteric Target for Antiviral Drugs

Biomolecules
2019-10 | Journal article | Author
Contributors: Lana F. Thaljeh; J. Ainsley Rothschild; Misagh Naderi; Lyndon M. Coghill; Jeremy Brown; Michal Brylinski
Source: check_circle
Multidisciplinary Digital Publishing Institute
grade
Preferred source (of 2)‎

Identification and Visualization of Functionally Important Domains and Residues in Herpes Simplex Virus Glycoprotein K(gK) Using a Combination of Phylogenetics and Protein Modeling

Scientific Reports
2019-10-10 | Journal article | Author
Part of ISSN: 2045-2322
Contributors: Paul J. F. Rider; Lyndon M. Coghill; Misagh Naderi; Jeremy Brown; Michal Brylinski; Konstantin G. Kousoulas
Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 2)‎

Evaluating Model Performance in Evolutionary Biology

Annual Review of Ecology, Evolution, and Systematics
2018 | Journal article
Source: Self-asserted source
Jeremy Brown

Impact of Model Violations on the Inference of Species Boundaries Under the Multispecies Coalescent

Syst Biol
2018 | Journal article
Contributors: Barley, A. J.; Brown, J. M.; Thomson, R. C.
Source: Self-asserted source
Jeremy Brown via ResearcherID

The behavior of Metropolis-coupled Markov chains when sampling rugged phylogenetic distributions

Syst Biol
2018 | Journal article
Contributors: Brown, J. M.; Thomson, R. C.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Variation across mitochondrial gene trees provides evidence for systematic error: How much gene tree variation is biological?

Syst Biol
2018 | Journal article
Contributors: Richards, E. J.; Brown, J. M.; Barley, A. J.; Chong, R. A.; Thomson, R. C.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Bayes Factors Unmask Highly Variable Information Content, Bias, and Extreme Influence in Phylogenomic Analyses

Syst Biol
2017 | Journal article
Contributors: Brown, J. M.; Thomson, R. C.
Source: Self-asserted source
Jeremy Brown via ResearcherID

P3: Phylogenetic Posterior Prediction in RevBayes

Mol Biol Evol
2017 | Journal article
Contributors: Höhna, S.; Coghill, L. M.; Mount, G. G.; Thomson, R. C.; Brown, J. M.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Short Communication: Lack of Support for Socially Connected HIV-1 Transmission Among Young Adult Black Men Who Have Sex with Men

AIDS Res Hum Retroviruses
2017 | Journal article
Contributors: Fujimoto, K.; Coghill, L. M.; Weier, C. A.; Hwang, L. Y.; Kim, J. Y.; Schneider, J. A.; Metzker, M. L.; Brown, J. M.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Unexpected variation across mitochondrial gene trees and evidence for systematic error: How much gene tree variation is biological?

2017-08-01 | Preprint
Contributors: Emilie J. Richards; Jeremy M. Brown; Anthony J. Barley; Rebecca A. Chong; Robert C. Thomson
Source: check_circle
Crossref

EmpPrior: using outside empirical data to inform branch-length priors for Bayesian phylogenetics

Bmc Bioinformatics
2016 | Journal article
WOSUID:

WOS:000378846700002

Contributors: Andersen, John J.; Nelson, Bradley J.; Brown, Jeremy M.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Quantifying the spatiotemporal dynamics in a chorus frog (Pseudacris) hybrid zone over 30 years

Ecology and Evolution
2016 | Journal article
WOSUID:

WOS:000380033400031

Contributors: Engebretsen, Kristin N.; Barrow, Lisa N.; Rittmeyer, Eric N.; Brown, Jeremy M.; Lemmon, Emily Moriarty
Source: Self-asserted source
Jeremy Brown via ResearcherID

TreeScaper: Visualizing and Extracting Phylogenetic Signal from Sets of Trees

Molecular Biology and Evolution
2016 | Journal article
WOSUID:

WOS:000387925300025

Contributors: Huang, W.; Zhou, G. F.; Marchand, M.; Ash, J. R.; Morris, D.; Van Dooren, P.; Brown, J. M.; Gallivan, K. A.; Wilgenbusch, J. C.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Human adipose tissue as a reservoir for memory CD4(+) T cells and HIV

Aids
2015 | Journal article
WOSUID:

WOS:000351688200004

Contributors: Couturier, J.; Suliburk, J. W.; Brown, J. M.; Luke, D. J.; Agarwal, N.; Yu, X. Y.; Nguyen, C.; Iyer, D.; Kozinetz, C. A.; Overbeek, P. A. et al.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Can we identify genes with increased phylogenetic reliability?

Systematic Biology
2015-06 | Journal article
DOI:

10.1093/sysbio/syv041

Contributors: V. P. Doyle; R. E. Young; G. J. P. Naylor; J. M. Brown
Source: Self-asserted source
Jeremy Brown via Crossref Metadata Search

Deflating Trees: Improving Bayesian Branch-Length Estimates using Informed Priors

Systematic Biology
2015-01 | Journal article
DOI:

10.1093/sysbio/syv003

Contributors: B. J. Nelson; J. J. Andersen; J. M. Brown
Source: Self-asserted source
Jeremy Brown via Crossref Metadata Search

Detection of implausible phylogenetic inferences using posterior predictive assessment of model fit

Systematic Biology
2014 | Journal article
DOI:

10.1093/sysbio/syu002

Contributors: Brown, Jeremy M.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Poor Fit to the Multispecies Coalescent is Widely Detectable in Empirical Data

Systematic Biology
2014 | Journal article
DOI:

10.1093/sysbio/syt057

Contributors: Reid, Noah M.; Hird, Sarah M.; Brown, Jeremy M.; Pelletier, Tara a; McVay, John D.; Satler, Jordan D.; Carstens, Bryan C.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Predictive Approaches to Assessing the Fit of Evolutionary Models

Systematic Biology
2014 | Journal article
DOI:

10.1093/sysbio/syu009

Contributors: Brown, Jeremy M.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Untangling the influences of unmodeled evolutionary processes on phylogenetic signal in a forensically important HIV-1 transmission cluster

Molecular Phylogenetics and Evolution
2014 | Journal article
DOI:

10.1016/j.ympev.2014.02.022

Contributors: Doyle, Vinson P.; Andersen, John J.; Nelson, Bradley J.; Metzker, Michael L.; Brown, Jeremy M.
Source: Self-asserted source
Jeremy Brown via ResearcherID

A Phylogenomic Approach to Vertebrate Phylogeny Supports a Turtle-Archosaur Affinity and a Possible Paraphyletic Lissamphibia

Plos One
2012 | Journal article
DOI:

10.1371/journal.pone.0048990

Part of ISSN:

1932-6203

Contributors: Fong, J. J.; Brown, J. M.; Fujita, M. K.; Boussau, B.
Source: Self-asserted source
Jeremy Brown via ResearcherID

DIM SUM: demography and individual migration simulated using a Markov chain

Molecular Ecology Resources
2011 | Journal article
DOI:

10.1111/j.1755-0998.2010.02925.x

Part of ISSN:

1755-098X

Contributors: Brown, JM; Savidge, K; McTavish, EJB
Source: Self-asserted source
Jeremy Brown via ResearcherID

Guidelines for HIV in court cases

Nature
2011 | Journal article
WOSUID:

WOS:000290722400019

Contributors: Leitner, T.
Source: Self-asserted source
Jeremy Brown via ResearcherID

NONADAPTIVE EVOLUTION OF MITOCHONDRIAL GENOME SIZE

Evolution
2011 | Journal article
DOI:

10.1111/j.1558-5646.2011.01322.x

Contributors: Boussau, Bastien; Brown, Jeremy M.; Fujita, Matthew K.
Source: Self-asserted source
Jeremy Brown via ResearcherID

Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences

Proceedings of the National Academy of Sciences of the United States of America
2010 | Journal article
DOI:

10.1073/pnas.1015673107

Part of ISSN:

0027-8424

Contributors: Scaduto, DI; Brown, JM; Haaland, WC; Zwickl, DJ; Hillis, DM; Metzker, ML
Source: Self-asserted source
Jeremy Brown via ResearcherID

When Trees Grow Too Long: Investigating the Causes of Highly Inaccurate Bayesian Branch-Length Estimates

SYSTEMATIC BIOLOGY
2010 | Journal article
DOI:

10.1093/sysbio/syp081

Part of ISSN:

1063-5157

Contributors: BROWN, JM; HEDTKE, SM; LEMMON, AR; LEMMON, EM
Source: Self-asserted source
Jeremy Brown via ResearcherID

PuMA: Bayesian analysis of partitioned (and unpartitioned) model adequacy

BIOINFORMATICS
2009 | Journal article
DOI:

10.1093/bioinformatics/btn651

Part of ISSN:

1367-4803

Contributors: BROWN, JM; ELDABAJE, R
Source: Self-asserted source
Jeremy Brown via ResearcherID

The Effect of Ambiguous Data on Phylogenetic Estimates Obtained by Maximum Likelihood and Bayesian Inference

Systematic Biology
2009 | Journal article
ARXIV:

/oup/backfile/content_public/journal/sysbio/58/1/10.1093_sysbio_syp017/1/syp017.pdf

Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 3)‎

Newly discovered sister lineage sheds light on early ant evolution

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
2008 | Journal article
DOI:

10.1073/pnas.0806187105

Part of ISSN:

0027-8424

Contributors: RABELING, C; BROWN, JM; VERHAAGH, M
Source: Self-asserted source
Jeremy Brown via ResearcherID

The Importance of Data Partitioning and the Utility of Bayes Factors in Bayesian Phylogenetics

Systematic Biology
2007 | Journal article
ARXIV:

/oup/backfile/content_public/journal/sysbio/56/4/10.1080_10635150701546249/4/56-4-643.pdf

Source: Self-asserted source
Jeremy Brown
grade
Preferred source (of 3)‎

Increased rates of molecular evolution in an equatorial plant clade: An effect of environment or phylogenetic nonindependence?

EVOLUTION
2005 | Journal article
Part of ISSN:

0014-3820

Contributors: BROWN, JM; PAULY, GB
Source: Self-asserted source
Jeremy Brown via ResearcherID

On the social structure of offspring rearing in the burrower bug, Sehirus cinctus (Hemiptera : Cydnidae)

BEHAVIORAL ECOLOGY AND SOCIOBIOLOGY
2004 | Journal article
DOI:

10.1007/s00265-004-0841-2

Part of ISSN:

0340-5443

Contributors: AGRAWAL, AF; BROWN, JM; BRODIE, ED
Source: Self-asserted source
Jeremy Brown via ResearcherID

An analysis of single clutch paternity in the burrower bug Sehirus cinctus using microsatellites

JOURNAL OF INSECT BEHAVIOR
2003 | Journal article
Part of ISSN:

0892-7553

Contributors: BROWN, JM; AGRAWAL, AF; BRODIE, ED
Source: Self-asserted source
Jeremy Brown via ResearcherID

Parent-offspring coadaptation and the dual genetic control of maternal care

SCIENCE
2001 | Journal article
Part of ISSN:

0036-8075

Contributors: AGRAWAL, AF; BRODIE, ED; BROWN, J
Source: Self-asserted source
Jeremy Brown via ResearcherID