De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
Haas, Brian J, Papanicolaou, Alexie, Yassour, Moran, Grabherr, Manfred, Blood, Philip D, Bowden, Joshua, Couger, Matthew Brian, Eccles, David, Li, Bo, Lieber, Matthias, MacManes, Matthew D, Ott, Michael, Orvis, Joshua, Pochet, Nathalie, Strozzi, Francesco, Weeks, Nathan, Westerman, Rick, William, Thomas, Dewey, Colin N, Henschel, Robert, LeDuc, Richard D, Friedman, Nir, Regev, Aviv
Published in Nature protocols (01.08.2013)
Published in Nature protocols (01.08.2013)
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Journal Article
Dynamic pigmentary and structural coloration within cephalopod chromatophore organs
Williams, Thomas L., Senft, Stephen L., Yeo, Jingjie, Martín-Martínez, Francisco J., Kuzirian, Alan M., Martin, Camille A., DiBona, Christopher W., Chen, Chun-Teh, Dinneen, Sean R., Nguyen, Hieu T., Gomes, Conor M., Rosenthal, Joshua J. C., MacManes, Matthew D., Chu, Feixia, Buehler, Markus J., Hanlon, Roger T., Deravi, Leila F.
Published in Nature communications (01.03.2019)
Published in Nature communications (01.03.2019)
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Journal Article
A linked‐read approach to museomics: Higher quality de novo genome assemblies from degraded tissues
Colella, Jocelyn P., Tigano, Anna, MacManes, Matthew D.
Published in Molecular ecology resources (01.07.2020)
Published in Molecular ecology resources (01.07.2020)
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Journal Article
High total water loss driven by low-fat diet in desert-adapted mice
Blumstein, Danielle M, Colella, Jocelyn P, Linder, Ernst, MacManes, Matthew D
Published in Journal of mammalogy (05.09.2024)
Published in Journal of mammalogy (05.09.2024)
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Journal Article
Disentangling environmental drivers of circadian metabolism in desert-adapted mice
Colella, Jocelyn P., Blumstein, Danielle M., MacManes, Matthew D.
Published in Journal of experimental biology (15.09.2021)
Published in Journal of experimental biology (15.09.2021)
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Journal Article
The genomics of mimicry: Gene expression throughout development provides insights into convergent and divergent phenotypes in a Müllerian mimicry system
Stuckert, Adam M. M., Chouteau, Mathieu, McClure, Melanie, LaPolice, Troy M., Linderoth, Tyler, Nielsen, Rasmus, Summers, Kyle, MacManes, Matthew D.
Published in Molecular ecology (01.08.2021)
Published in Molecular ecology (01.08.2021)
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Journal Article
The genomics of mimicry: Gene expression throughout development provides insights into convergent and divergent phenotypes in a Müllerian mimicry system
Stuckert, Adam M. M., Chouteau, Mathieu, McClure, Melanie, LaPolice, Troy M., Linderoth, Tyler, Nielsen, Rasmus, Summers, Kyle, MacManes, Matthew D.
Published in Molecular ecology (01.07.2024)
Published in Molecular ecology (01.07.2024)
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Journal Article
Prolactin and prolactin receptor expression in the HPG axis and crop during parental care in both sexes of a biparental bird (Columba livia)
Farrar, Victoria S., Harris, Rayna M., Austin, Suzanne H., Nava Ultreras, Brandon M., Booth, April M., Angelier, Frédéric, Lang, Andrew S., Feustel, Tanner, Lee, Candice, Bond, Annie, MacManes, Matthew D., Calisi, Rebecca M.
Published in General and comparative endocrinology (01.01.2022)
Published in General and comparative endocrinology (01.01.2022)
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Journal Article
PALADIN: protein alignment for functional profiling whole metagenome shotgun data
Westbrook, Anthony, Ramsdell, Jordan, Schuelke, Taruna, Normington, Louisa, Bergeron, R Daniel, Thomas, W Kelley, MacManes, Matthew D
Published in Bioinformatics (Oxford, England) (15.05.2017)
Published in Bioinformatics (Oxford, England) (15.05.2017)
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Journal Article
Variation in pigmentation gene expression is associated with distinct aposematic color morphs in the poison frog Dendrobates auratus
Stuckert, Adam M M, Moore, Emily, Coyle, Kaitlin P, Davison, Ian, MacManes, Matthew D, Roberts, Reade, Summers, Kyle
Published in BMC ecology and evolution (18.04.2019)
Published in BMC ecology and evolution (18.04.2019)
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Journal Article
Brain Transcriptional Profiles of Male Alternative Reproductive Tactics and Females in Bluegill Sunfish
Partridge, Charlyn G, MacManes, Matthew D, Knapp, Rosemary, Neff, Bryan D
Published in PloS one (01.12.2016)
Published in PloS one (01.12.2016)
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Journal Article
Transcriptomic analyses during development reveal mechanisms of integument structuring and color production
Stuckert, Adam M. M., Freeborn, Layla, Howell, Kimberly A., Yang, Yusan, Nielsen, Rasmus, Richards-Zawacki, Corinne, MacManes, Matthew D.
Published in Evolutionary ecology (01.10.2024)
Published in Evolutionary ecology (01.10.2024)
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