Works by Dunn, Casey

Results: 48

Integrating siphonophores into marine food‐web ecology.

Published in:

Limnology & Oceanography Letters, 2022, v. 7, n. 2, p. 81, doi. 10.1002/lol2.10235

By:

Hetherington, Elizabeth D.;
Damian‐Serrano, Alejandro;
Haddock, Steven H. D.;
Dunn, Casey W.;
Choy, C. Anela

Publication type:

Article

Incorporating Within-Host Diversity in Phylogenetic Analyses for Detecting Clusters of New HIV Diagnoses.

Published in:

Frontiers in Microbiology, 2022, v. 12, p. 1, doi. 10.3389/fmicb.2021.803190

By:

Guang, August;
Howison, Mark;
Ledingham, Lauren;
D'Antuono, Matthew;
Chan, Philip A.;
Lawrence, Charles;
Dunn, Casey W.;
Kantor, Rami

Publication type:

Article

Empirical comparison of analytical approaches for identifying molecular HIV-1 clusters.

Published in:

Scientific Reports, 2020, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41598-020-75560-1

By:

Novitsky, Vlad;
Steingrimsson, Jon A.;
Howison, Mark;
Gillani, Fizza S.;
Li, Yuanning;
Manne, Akarsh;
Fulton, John;
Spence, Matthew;
Parillo, Zoanne;
Marak, Theodore;
Chan, Philip A.;
Bertrand, Thomas;
Bandy, Utpala;
Alexander-Scott, Nicole;
Dunn, Casey W.;
Hogan, Joseph;
Kantor, Rami

Publication type:

Article

Giants among Cnidaria: Large Nuclear Genomes and Rearranged Mitochondrial Genomes in Siphonophores.

Published in:

Genome Biology & Evolution, 2024, v. 16, n. 3, p. 1, doi. 10.1093/gbe/evae048

By:

Ahuja, Namrata;
Cao, Xuwen;
Schultz, Darrin T;
Picciani, Natasha;
Lord, Arianna;
Shao, Shengyuan;
Jia, Kejue;
Burdick, David R;
Haddock, Steven H D;
Li, Yuanning;
Dunn, Casey W

Publication type:

Article

Characterization of differential transcript abundance through time during Nematostella vectensis development.

Published in:

BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-266

By:

Helm, Rebecca Rae;
Siebert, Stefan;
Tulin, Sarah;
Smith, Joel;
Dunn, Casey William

Publication type:

Article

Complex colony‐level organization of the deep‐sea siphonophore Bargmannia elongata (Cnidaria, Hydrozoa) is directionally asymmetric and arises by the subdivision of pro‐buds.

Published in:

Developmental Dynamics, 2005, v. 234, n. 4, p. 835

By:

Casey W. Dunn

Publication type:

Article

Corrigendum: Resolving the evolutionary relationships of molluscs with phylogenomic tools.

Published in:

2013

By:

Smith, Stephen A.;
Wilson, Nerida G.;
Goetz, Freya E.;
Feehery, Caitlin;
Andrade, Sónia C. S.;
Rouse, Greg W.;
Giribet, Gonzalo;
Dunn, Casey W.

Publication type:

Erratum

Resolving the evolutionary relationships of molluscs with phylogenomic tools.

Published in:

Nature, 2011, v. 480, n. 7377, p. 364, doi. 10.1038/nature10526

By:

Smith, Stephen A.;
Wilson, Nerida G.;
Goetz, Freya E.;
Feehery, Caitlin;
Andrade, Sónia C. S.;
Rouse, Greg W.;
Giribet, Gonzalo;
Dunn, Casey W.

Publication type:

Article

Integrating phylogenies into single-cell RNA sequencing analysis allows comparisons across species, genes, and cells.

Published in:

PLoS Biology, 2024, v. 22, n. 5, p. 1, doi. 10.1371/journal.pbio.3002633

By:

Church, Samuel H.;
Mah, Jasmine L.;
Dunn, Casey W.

Publication type:

Article

Evolution of Gene Expression across Species and Specialized Zooids in Siphonophora.

Published in:

Molecular Biology & Evolution, 2022, v. 39, n. 2, p. 1, doi. 10.1093/molbev/msac027

By:

Munro, Catriona;
Zapata, Felipe;
Howison, Mark;
Siebert, Stefan;
Dunn, Casey W

Publication type:

Article

Rooting the Animal Tree of Life.

Published in:

Molecular Biology & Evolution, 2021, v. 38, n. 10, p. 4322, doi. 10.1093/molbev/msab170

By:

Li, Yuanning;
Shen, Xing-Xing;
Evans, Benjamin;
Dunn, Casey W;
Rokas, Antonis

Publication type:

Article

Treeio: An R Package for Phylogenetic Tree Input and Output with Richly Annotated and Associated Data.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 2, p. 599, doi. 10.1093/molbev/msz240

By:

Wang, Li-Gen;
Lam, Tommy Tsan-Yuk;
Xu, Shuangbin;
Dai, Zehan;
Zhou, Lang;
Feng, Tingze;
Guo, Pingfan;
Dunn, Casey W;
Jones, Bradley R;
Bradley, Tyler;
Zhu, Huachen;
Guan, Yi;
Jiang, Yong;
Yu, Guangchuang

Publication type:

Article

Phylogenetic Analysis of Gene Expression.

Published in:

Integrative & Comparative Biology, 2013, v. 53, n. 5, p. 847, doi. 10.1093/icb/ict068

By:

Dunn, Casey W.;
Luo, Xi;
Wu, Zhijin

Publication type:

Article

Prospective Evaluation of Routine Statewide Integration of Molecular Epidemiology and Contact Tracing to Disrupt Human Immunodeficiency Virus Transmission.

Published in:

Open Forum Infectious Diseases, 2024, v. 11, n. 10, p. 1, doi. 10.1093/ofid/ofae599

By:

Kantor, Rami;
Steingrimsson, Jon;
Fulton, John;
Novitsky, Vladimir;
Howison, Mark;
Gillani, Fizza;
Bhattarai, Lila;
MacAskill, Meghan;
Hague, Joel;
Guang, August;
Khanna, Aditya;
Dunn, Casey;
Hogan, Joseph;
Bertrand, Thomas;
Bandy, Utpala

Publication type:

Article

NOT ALL CLUSTERS ARE EQUAL: STATEWIDE MOLECULAR HIV CLUSTER DYNAMICS IN RHODE ISLAND.

Published in:

Topics in Antiviral Medicine, 2023, v. 31, n. 2, p. 341

By:

Novitsky, Vlad;
Steingrimsson, Jon A.;
Howison, Mark;
Dunn, Casey;
Gillani, Fizza;
Fulton, John;
Bertrand, Thomas;
Howe, Katharine;
Bhattarai, Lila;
Ronquillo, Guillermo;
Macaskill, Meghan;
Bandy, Utpala;
Hogan, Joseph W.;
Kantor, Rami

Publication type:

Article

The histology of Nanomia bijuga (Hydrozoa: Siphonophora).

Published in:

Journal of Experimental Zoology Part B: Molecular & Developmental Evolution, 2015, v. 324, n. 5, p. 435, doi. 10.1002/jez.b.22629

By:

Church, Samuel H.;
Siebert, Stefan;
Bhattacharyya, Pathikrit;
Dunn, Casey W.

Publication type:

Article

Genomics: Acorn worms in a nutshell.

Published in:

Nature, 2015, v. 527, n. 7579, p. 448, doi. 10.1038/nature16315

By:

Dunn, Casey W.

Publication type:

Article

Morphology and development of the Portuguese man of war, Physalia physalis.

Published in:

Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-51842-1

By:

Munro, Catriona;
Vue, Zer;
Behringer, Richard R.;
Dunn, Casey W.

Publication type:

Article

Indoles induce metamorphosis in a broad diversity of jellyfish, but not in a crown jelly (Coronatae).

Published in:

PLoS ONE, 2017, v. 12, n. 12, p. 1, doi. 10.1371/journal.pone.0188601

By:

Helm, Rebecca R.;
Dunn, Casey W.

Publication type:

Article

Vertical trophic structure and niche partitioning of gelatinous predators in a pelagic food web: Insights from stable isotopes of siphonophores.

Published in:

Limnology & Oceanography, 2024, v. 69, n. 4, p. 902, doi. 10.1002/lno.12536

By:

Hetherington, Elizabeth D.;
Close, Hilary G.;
Haddock, Steven H. D.;
Damian‐Serrano, Alejandro;
Dunn, Casey W.;
Wallsgrove, Natalie J.;
Doherty, Shannon C.;
Choy, C. Anela

Publication type:

Article

Automation and Evaluation of the SOWH Test with SOWHAT.

Published in:

Systematic Biology, 2015, v. 64, n. 6, p. 1048, doi. 10.1093/sysbio/syv055

By:

CHURCH, SAMUEL H.;
DUNN, CASEY W.;
RYAN, JOSEPH F.

Publication type:

Article

Molecular Phylogenetics of the Siphonophora (Cnidaria), with Implications for the Evolution of Functional Specialization.

Published in:

Systematic Biology, 2005, v. 54, n. 6, p. 916, doi. 10.1080/10635150500354837

By:

Dunn, Casey W.;
Pugh, Philip R.;
Haddock, Steven H. D.

Publication type:

Article

Trimming the fat in acute ischemic stroke: an assessment of 24-h CT scans in tPA patients.

Published in:

International Journal of Stroke, 2015, v. 10, n. 1, p. 37, doi. 10.1111/ijs.12293

By:

George, Alexander J.;
Boehme, Amelia K.;
Dunn, Casey R.;
Beasley, T.;
Siegler, James E.;
Albright, Karen C.;
El Khoury, Ramy;
Martin-Schild, Sheryl

Publication type:

Article

Toward a statistically explicit understanding of de novo sequence assembly.

Published in:

Bioinformatics, 2013, v. 29, n. 23, p. 2959, doi. 10.1093/bioinformatics/btt525

By:

Howison, Mark;
Zapata, Felipe;
Dunn, Casey W.

Publication type:

Article

Phyutility: a phyloinformatics tool for trees, alignments and molecular data.

Published in:

Bioinformatics, 2008, v. 24, n. 5, p. 715, doi. 10.1093/bioinformatics/btm619

By:

Stephen A. Smith;
Casey W. Dunn

Publication type:

Article

Comparative genomics and the diversity of life.

Published in:

Zoologica Scripta, 2016, v. 45, p. 5, doi. 10.1111/zsc.12211

By:

Dunn, Casey W.;
Munro, Catriona

Publication type:

Article

Characterizing the secret diets of siphonophores (Cnidaria: Hydrozoa) using DNA metabarcoding.

Published in:

PLoS ONE, 2022, v. 17, n. 5, p. 1, doi. 10.1371/journal.pone.0267761

By:

Damian-Serrano, Alejandro;
Hetherington, Elizabeth D.;
Choy, C. Anela;
Haddock, Steven H. D.;
Lapides, Alexandra;
Dunn, Casey W.

Publication type:

Article

Hepatitis C and recurrent treatment-resistant acute ischemic stroke.

Published in:

2013

By:

Saxsena, Aneeta;
Tarsia, Joseph;
Dunn, Casey;
Aysenne, Aimee;
Shah, Basil;
Moore, David F.

Publication type:

Journal Article

Hepatitis C and recurrent treatment-resistant acute ischemic stroke.

Published in:

Baylor University Medical Center Proceedings, 2013, v. 26, n. 2, p. 182, doi. 10.1080/08998280.2013.11928955

By:

Saxsena, Aneeta;
Tarsia, Joseph;
Dunn, Casey;
Aysenne, Aimee;
Shah, Basil;
Moore, David F.

Publication type:

Article

Agalma: an automated phylogenomics workflow.

Published in:

BMC Bioinformatics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2105-14-330

By:

Dunn, Casey W.;
Howison, Mark;
Zapata, Felipe

Publication type:

Article

The evolution of ovary-biased gene expression in Hawaiian Drosophila.

Published in:

PLoS Genetics, 2023, v. 18, n. 1, p. 1, doi. 10.1371/journal.pgen.1010607

By:

Church, Samuel H.;
Munro, Catriona;
Dunn, Casey W.;
Extavour, Cassandra G.

Publication type:

Article

Statewide Longitudinal Trends in Transmitted HIV-1 Drug Resistance in Rhode Island, USA.

Published in:

Open Forum Infectious Diseases, 2022, v. 9, n. 1, p. 1, doi. 10.1093/ofid/ofab587

By:

Novitsky, Vlad;
Steingrimsson, Jon;
Gillani, Fizza S;
Howison, Mark;
Aung, Su;
Solomon, Matthew;
Won, Cindy Y;
Brotherton, Amy;
Shah, Rajeev;
Dunn, Casey;
Fulton, John;
Bertrand, Thomas;
Civitarese, Anna;
Howe, Katharine;
Marak, Theodore;
Chan, Philip;
Bandy, Utpala;
Alexander-Scott, Nicole;
Hogan, Joseph;
Kantor, Rami

Publication type:

Article

Stem cells in Nanomia bijuga (Siphonophora), a colonial animal with localized growth zones.

Published in:

EvoDevo, 2015, v. 6, n. 1, p. 1, doi. 10.1186/s13227-015-0018-2

By:

Siebert, Stefan;
Goetz, Freya E.;
Church, Samuel H.;
Bhattacharyya, Pathikrit;
Zapata, Felipe;
Haddock, Steven H. D.;
Dunn, Casey W.

Publication type:

Article

Par system components are asymmetrically localized in ectodermal epithelia, but not during early development in the sea anemone Nematostella vectensis.

Published in:

EvoDevo, 2015, v. 6, n. 1, p. 1, doi. 10.1186/s13227-015-0014-6

By:

Salinas-Saavedra, Miguel;
Stephenson, Thomas Q.;
Dunn, Casey W.;
Martindale, Mark Q.

Publication type:

Article

Comparative muscle development of scyphozoan jellyfish with simple and complex life cycles.

Published in:

EvoDevo, 2015, v. 6, n. 1, p. 1, doi. 10.1186/s13227-015-0005-7

By:

Helm, Rebecca R.;
Tiozzo, Stefano;
Lilley, Martin K. S.;
Lombard, Fabien;
Dunn, Casey W.

Publication type:

Article

Revising transcriptome assemblies with phylogenetic information.

Published in:

PLoS ONE, 2021, v. 16, n. 1, p. 1, doi. 10.1371/journal.pone.0244202

By:

Guang, August;
Howison, Mark;
Zapata, Felipe;
Lawrence, Charles;
Dunn, Casey W.

Publication type:

Article

Broad phylogenomic sampling improves resolution of the animal tree of life.

Published in:

Nature, 2008, v. 452, n. 7188, p. 745, doi. 10.1038/nature06614

By:

Dunn, Casey W.;
Hejnol, Andreas;
Matus, David Q.;
Pang, Kevin;
Browne, William E.;
Smith, Stephen A.;
Seaver, Elaine;
Rouse, Greg W.;
Obst, Matthias;
Edgecombe, Gregory D.;
Sørensen, Martin V.;
Haddock, Steven H. D.;
Schmidt-Rhaesa, Andreas;
Okusu, Akiko;
Kristensen, Reinhardt Møbjerg;
Wheeler, Ward C.;
Martindale, Mark Q.;
Giribet, Gonzalo

Publication type:

Article

An Automated Bioinformatics Pipeline Informing Near-Real-Time Public Health Responses to New HIV Diagnoses in a Statewide HIV Epidemic.

Published in:

Viruses (1999-4915), 2023, v. 15, n. 3, p. 737, doi. 10.3390/v15030737

By:

Howison, Mark;
Gillani, Fizza S.;
Novitsky, Vlad;
Steingrimsson, Jon A.;
Fulton, John;
Bertrand, Thomas;
Howe, Katharine;
Civitarese, Anna;
Bhattarai, Lila;
MacAskill, Meghan;
Ronquillo, Guillermo;
Hague, Joel;
Dunn, Casey W.;
Bandy, Utpala;
Hogan, Joseph W.;
Kantor, Rami

Publication type:

Article

Normalizing need not be the norm: count-based math for analyzing single-cell data.

Published in:

Theory in Biosciences, 2024, v. 143, n. 1, p. 45, doi. 10.1007/s12064-023-00408-x

By:

Church, Samuel H.;
Mah, Jasmine L.;
Wagner, Günter;
Dunn, Casey W.

Publication type:

Article

Phylogenomic Analyses Support Traditional Relationships within Cnidaria.

Published in:

PLoS ONE, 2015, v. 10, n. 10, p. 1, doi. 10.1371/journal.pone.0139068

By:

Zapata, Felipe;
Goetz, Freya E.;
Smith, Stephen A.;
Howison, Mark;
Siebert, Stefan;
Church, Samuel H.;
Sanders, Steven M.;
Ames, Cheryl Lewis;
McFadden, Catherine S.;
France, Scott C.;
Daly, Marymegan;
Collins, Allen G.;
Haddock, Steven H. D.;
Dunn, Casey W.;
Cartwright, Paulyn

Publication type:

Article

Phylogenomic Analyses of Echinodermata Support the Sister Groups of Asterozoa and Echinozoa.

Published in:

PLoS ONE, 2015, v. 10, n. 3, p. 1, doi. 10.1371/journal.pone.0119627

By:

Reich, Adrian;
Dunn, Casey;
Akasaka, Koji;
Wessel, Gary

Publication type:

Article

Bayesian Genome Assembly and Assessment by Markov Chain Monte Carlo Sampling.

Published in:

PLoS ONE, 2014, v. 9, n. 6, p. 1, doi. 10.1371/journal.pone.0099497

By:

Howison, Mark;
Zapata, Felipe;
Edwards, Erika J.;
Dunn, Casey W.

Publication type:

Article

Differential Gene Expression in the Siphonophore Nanomia bijuga (Cnidaria) Assessed with Multiple Next-Generation Sequencing Workflows.

Published in:

PLoS ONE, 2011, v. 6, n. 7, p. 1, doi. 10.1371/journal.pone.0022953

By:

Siebert, Stefan;
Robinson, Mark D.;
Tintori, Sophia C.;
Goetz, Freya;
Helm, Rebecca R.;
Smith, Stephen A.;
Shaner, Nathan;
Haddock, Steven H. D.;
Dunn, Casey W.

Publication type:

Article

We are not so special.

Published in:

eLife, 2018, p. 1, doi. 10.7554/eLife.38726

By:

LEWIS, ZACHARY R.;
DUNN, CASEY W.

Publication type:

Article

Challenges in evaluating the use of viral sequence data to identify HIV transmission networks for public health.

Published in:

Statistical Communications in Infectious Diseases, 2020, v. 12, p. 1, doi. 10.1515/scid-2019-0019

By:

Kantor, Rami;
Fulton, John P.;
Steingrimsson, Jon;
Novitsky, Vladimir;
Howison, Mark;
Gillani, Fizza;
Li, Yuanning;
Manne, Akarsh;
Parillo, Zoanne;
Spence, Matthew;
Marak, Theodore;
Chan, Philip;
Dunn, Casey W.;
Bertrand, Thomas;
Bandy, Utpala;
Alexander-Scott, Nicole;
Hogan, Joseph W.

Publication type:

Article

Challenges in evaluating the use of viral sequence data to identify HIV transmission networks for public health.

Published in:

Statistical Communications in Infectious Diseases, 2020, v. 12, n. 1, p. 1, doi. 10.1515/scid-2019-0019

By:

Kantor, Rami;
Fulton, John P.;
Steingrimsson, Jon;
Novitsky, Vladimir;
Howison, Mark;
Gillani, Fizza;
Li, Yuanning;
Manne, Akarsh;
Parillo, Zoanne;
Spence, Matthew;
Marak, Theodore;
Chan, Philip;
Dunn, Casey W.;
Bertrand, Thomas;
Bandy, Utpala;
Alexander-Scott, Nicole;
Hogan, Joseph W.

Publication type:

Article

The evolution of colony-level development in the Siphonophora (Cnidaria:Hydrozoa).

Published in:

Development Genes & Evolution, 2006, v. 216, n. 12, p. 743, doi. 10.1007/s00427-006-0101-8

By:

Dunn, Casey;
Wagner, Günter

Publication type:

Article

Insights into the BIODIVERSITY, BEHAVIOR, AND BIOLUMINESCENCE OF DEEP-SEA ORGANISMS: Using Molecular and Maritime Technology.

Published in:

Oceanography, 2017, v. 30, n. 4, p. 38, doi. 10.5670/oceanog.2017.422

By:

Haddock, Steven H. D.;
Christianson, Lynne M.;
Francis, Warren R.;
Martini, Séverine;
Dunn, Casey W.;
Pugh, Philip R.;
Mills, Claudia E.;
Osborn, Karen J.;
Seibel, Brad A.;
Choy, C. Anela;
Schnitzler, Christine E.;
Matsumoto, George I.;
Messié, Monique;
Schultz, Darrin T.;
Winnikoff, Jacob R.;
Powers, Meghan L.;
Gasca, Rebeca;
Browne, William E.;
Johnsen, Sönke;
Schlining, Kyra L.

Publication type:

Article