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Matthew MacManes
Matthew MacManes
University of New Hampshire
Bestätigte E-Mail-Adresse bei unh.edu - Startseite
Titel
Zitiert von
Zitiert von
Jahr
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
BJ Haas, A Papanicolaou, M Yassour, M Grabherr, PD Blood, J Bowden, ...
Nature protocols 8 (8), 1494-1512, 2013
83072013
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
KR Bradnam, JN Fass, A Alexandrov, P Baranay, M Bechner, I Birol, ...
Gigascience 2 (1), 2047-217X-2-10, 2013
8182013
On the optimal trimming of high-throughput mRNA sequence data
MD MacManes
Frontiers in genetics 5, 13, 2014
2412014
Comparative genomics explains the evolutionary success of reef-forming corals
D Bhattacharya, S Agrawal, M Aranda, S Baumgarten, M Belcaid, ...
eLife, 2016
1942016
Museum genomics: low‐cost and high‐accuracy genetic data from historical specimens
KC Rowe, S Singhal, MD Macmanes, JF Ayroles, TL Morelli, EM Rubidge, ...
Molecular Ecology Resources 11 (6), 1082-1092, 2011
1612011
Dynamic pigmentary and structural coloration within cephalopod chromatophore organs
TL Williams, SL Senft, J Yeo, FJ Martín-Martínez, AM Kuzirian, CA Martin, ...
Nature communications 10 (1), 1004, 2019
1512019
The Oyster River Protocol: a multi-assembler and kmer approach for de novo transcriptome assembly
MD MacManes
PeerJ 6, e5428, 2018
1182018
Genomic takeover by transposable elements in the strawberry poison frog
RL Rogers, L Zhou, C Chu, R Márquez, A Corl, T Linderoth, L Freeborn, ...
Molecular Biology and Evolution 35 (12), 2913-2927, 2018
722018
A total crapshoot? Evaluating bioinformatic decisions in animal diet metabarcoding analyses
DR O'Rourke, NA Bokulich, MA Jusino, MD MacManes, JT Foster
Ecology and Evolution 10 (18), 9721-9739, 2020
682020
Widespread patterns of sexually dimorphic gene expression in an avian hypothalamic–pituitary–gonadal (HPG) axis
MD MacManes, SH Austin, AS Lang, A Booth, V Farrar, RM Calisi
Scientific reports 7 (1), 45125, 2017
552017
Improving transcriptome assembly through error correction of high-throughput sequence reads
MD MacManes, MB Eisen
PeerJ 1, e113, 2013
532013
PALADIN: protein alignment for functional profiling whole metagenome shotgun data
A Westbrook, J Ramsdell, T Schuelke, L Normington, RD Bergeron, ...
Bioinformatics 33 (10), 1473-1478, 2017
512017
Comparative and population genomics approaches reveal the basis of adaptation to deserts in a small rodent
A Tigano, JP Colella, MD MacManes
Molecular ecology 29 (7), 1300-1314, 2020
472020
Variation in pigmentation gene expression is associated with distinct aposematic color morphs in the poison frog Dendrobates auratus
AMM Stuckert, E Moore, KP Coyle, I Davison, MD MacManes, R Roberts, ...
BMC Evolutionary Biology 19, 1-15, 2019
472019
Severe acute dehydration in a desert rodent elicits a transcriptional response that effectively prevents kidney injury
MD MacManes
American Journal of Physiology-Renal Physiology 313 (2), F262-F272, 2017
472017
Characterization of the transcriptome, nucleotide sequence polymorphism, and natural selection in the desert adapted mouse Peromyscus eremicus
MD MacManes, MB Eisen
PeerJ 2, e642, 2014
432014
Establishing evidenced-based best practice for the de novo assembly and evaluation of transcriptomes from non-model organisms
MD MacManes
BioRxiv, 035642, 2015
38*2015
Isolation and characterization of polymorphic microsatellite loci from Octodon degus
YF Quan, MD Macmanes, LA Ebensperger, EA Lacey, LD Hayes
Molecular Ecology Resources 9 (3), 999-1001, 2009
352009
RETRACTED: The genomics of mimicry: Gene expression throughout development provides insights into convergent and divergent phenotypes in a Müllerian mimicry system
AMM Stuckert, M Chouteau, M McClure, TM LaPolice, T Linderoth, ...
Molecular Ecology 30 (16), 4039-4061, 2021
332021
Brain transcriptional profiles of male alternative reproductive tactics and females in bluegill sunfish
CG Partridge, MD MacManes, R Knapp, BD Neff
PLoS One 11 (12), e0167509, 2016
332016
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