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N. Putnam · SciRah

Researcher profile · Semantic Scholar

N. Putnam

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N. Putnam — researcher profile on SciRah

h-index: 31
Works: 60
Citations: 26K

Most-cited papers

Phytozome: a comparative platform for green plant genomics
D. Goodstein, S. Shu, R. Howson, R. Neupane +7 more
2011Nucleic Acids Res.4,965 citations Open access
Semantic Scholar
Towards complete and error-free genome assemblies of all vertebrate species
A. Rhie, Shane A. McCarthy, O. Fedrigo, Joana Damas +123 more
2020Nature2,918 citations Open access
Semantic Scholar
The Genome of the Diatom Thalassiosira Pseudonana: Ecology, Evolution, and Metabolism
E. Armbrust, J. A. Berges, C. Bowler, B. R. Green +41 more
2004Science2,040 citations Open access
Semantic Scholar
The amphioxus genome and the evolution of the chordate karyotype
N. Putnam, Thomas W. Butts, D. E. Ferrier, R. F. Furlong +33 more
2008Nature1,616 citations Open access
Semantic Scholar
Sea Anemone Genome Reveals Ancestral Eumetazoan Gene Repertoire and Genomic Organization
N. Putnam, M. Srivastava, U. Hellsten, B. Dirks +15 more
2007Science1,552 citations Open access
Semantic Scholar
The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans
N. King, M. J. Westbrook, S. L. Young, A. Kuo +32 more
2008Nature1,107 citations Open access
Semantic Scholar
Phytophthora Genome Sequences Uncover Evolutionary Origins and Mechanisms of Pathogenesis
B. Tyler, S. Tripathy, Xue-Min Zhang, P. Dehal +49 more
2006Science1,081 citations Open access
Semantic Scholar
The Amphimedon queenslandica genome and the evolution of animal complexity
M. Srivastava, O. Simakov, J. Chapman, B. Fahey +29 more
2010Nature1,032 citations Open access
Semantic Scholar
Genome evolution in the allotetraploid frog Xenopus laevis
Adam M. Session, Yoshinobu Uno, T. Kwon, J. Chapman +70 more
2016Nature909 citations Open access
Semantic Scholar
The Trichoplax genome and the nature of placozoans
M. Srivastava, E. Begović, J. Chapman, N. Putnam +17 more
2008Nature887 citations Open access
Semantic Scholar
The Genome of the Western Clawed Frog Xenopus tropicalis
U. Hellsten, R. Harland, Michael J. Gilchrist, D. Hendrix +44 more
2010Science831 citations Open access
Semantic Scholar
Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)
Diego Martinez, R. Berka, B. Henrissat, M. Saloheimo +41 more
2008Nature Biotechnology816 citations Open access
Semantic Scholar
The dynamic genome of Hydra
J. Chapman, E. Kirkness, O. Simakov, S. Hampson +70 more
2010Nature810 citations Open access
Semantic Scholar
Chromosome-scale shotgun assembly using an in vitro method for long-range linkage
N. Putnam, Brendan L. O’Connell, Jonathan Stites, Brandon J. Rice +9 more
2015Genome Research733 citations Open access
Semantic Scholar
The genome of the ctenophore Mnemiopsis leidyi and its implications for cell type evolution
Joseph F. Ryan, K. Pang, C. Schnitzler, A. Nguyen +13 more
2013Science667 citations Open access
Semantic Scholar
The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation
B. Palenik, J. Grimwood, A. Aerts, P. Rouzé +34 more
2007Proceedings of the National Academy of Sciences of the United States of America644 citations Open access
Semantic Scholar
Insights into bilaterian evolution from three spiralian genomes
O. Simakov, Ferdinand Marlétaz, Sung-Jin Cho, E. Edsinger-Gonzales +22 more
2012Nature618 citations Open access
Semantic Scholar
The amphioxus genome illuminates vertebrate origins and cephalochordate biology.
L. Holland, R. Albalat, K. Azumi, Èlia Benito-Gutiérrez +60 more
2008Genome Research499 citations Open access
Semantic Scholar
Public biotech 2007—the numbers
Diego A. Martinez, R. Berka, B. Henrissat, M. Saloheimo +41 more
2008Nature Biotechnology431 citations Open access
Semantic Scholar
Deeply conserved synteny resolves early events in vertebrate evolution
O. Simakov, Ferdinand Marlétaz, Jia-Xing Yue, Brendan L O'Connell +11 more
2020Nature Ecology & Evolution327 citations Open access
Semantic Scholar
Hemichordate genomes and deuterostome origins
O. Simakov, T. Kawashima, Ferdinand Marlétaz, J. Jenkins +57 more
2015Nature234 citations Open access
Semantic Scholar
Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum
R. Sucgang, A. Kuo, Xiang-Jun Tian, W. Salerno +37 more
2011Genome Biology165 citations Open access
Semantic Scholar
Genome biology of the paleotetraploid perennial biomass crop Miscanthus
T. Mitros, Adam M. Session, Brandon T James, G. Wu +38 more
2020Nature Communications109 citations Open access
Semantic Scholar
Joint assembly and genetic mapping of the Atlantic horseshoe crab genome reveals ancient whole genome duplication
C. Nossa, P. Havlak, Jia-Xing Yue, Jie Lv +3 more
2013GigaScience99 citations Open access
Semantic Scholar
Domain shuffling and the evolution of vertebrates.
T. Kawashima, Shuichi Kawashima, Chisaki Tanaka, Miho Murai +6 more
2009Genome Research94 citations Open access
Semantic Scholar
A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation.
C. Kelleher, Readman Chiu, Heesun Shin, I. Bosdet +37 more
2007The Plant Journal76 citations Open access
Semantic Scholar
The Transcriptome of an Amphioxus, Asymmetron lucayanum, from the Bahamas: A Window into Chordate Evolution
Jia-Xing Yue, Jr-Kai Yu, N. Putnam, L. Holland
2014Genome Biology and Evolution64 citations Open access
Semantic Scholar
Timing and Scope of Genomic Expansion within Annelida: Evidence from Homeoboxes in the Genome of the Earthworm Eisenia fetida
Allison S. Zwarycz, C. Nossa, N. Putnam, Joseph F. Ryan
2015bioRxiv49 citations Open access
Semantic Scholar
Evolutionary profiling reveals the heterogeneous origins of classes of human disease genes: implications for modeling disease genetics in animals
Evan K. Maxwell, C. Schnitzler, P. Havlak, N. Putnam +3 more
2014BMC Evolutionary Biology44 citations Open access
Semantic Scholar
Insights into bilaterian evolution from three spiralian
Ferdinand Marlétaz, Sung-Jin Cho, E. Edsinger-Gonzales, P. Havlak +20 more
201335 citations
Semantic Scholar
Constraints on genes shape long-term conservation of macro-synteny in metazoan genomes
Jie Lv, P. Havlak, N. Putnam
2011BMC Bioinformatics31 citations Open access
Semantic Scholar
Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis
Kyle A Long, C. Nossa, M. Sewell, N. Putnam +1 more
2016GigaScience29 citations Open access
Semantic Scholar
The Trichoplax genome and the nature of
E. Begović, J. Chapman, N. Putnam, U. Hellsten +16 more
200825 citations
Semantic Scholar
Conserved Noncoding Elements in the Most Distant Genera of Cephalochordates: The Goldilocks Principle
Jia-Xing Yue, I. Kozmikova, Hiroki Ono, C. Nossa +4 more
2016Genome Biology and Evolution24 citations Open access
Semantic Scholar
Evolution of the Perlecan/HSPG2 Gene and Its Activation in Regenerating Nematostella vectensis
C. R. Warren, E. Kassir, James W. Spurlin, J. Martinez +2 more
2015PLoS ONE22 citations Open access
Semantic Scholar
The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications
Toshiaki Katayama, Mark D. Wilkinson, Rutger A. Vos, T. Kawashima +53 more
2011Journal of Biomedical Semantics21 citations Open access
Semantic Scholar
The genome of the choanoflagellate Monosiga brevicollis and the origins of metazoan multicellularity
N. King, M. J. Westbrook, S. L. Young, A. Kuo +36 more
200816 citations
Semantic Scholar
Peer Review #3 of "Comparative transcriptome analysis revealed genes involved in the fruiting body development of Ophiocordyceps sinensis (v0.3)"
X. Tong, Han Zhang, Fang Wang, Zheng-Yao Xue +359 more
202014 citations Open access
Semantic Scholar
Structural Variation Detection by Proximity Ligation from Formalin-Fixed, Paraffin-Embedded Tumor Tissue.
Christopher J. Troll, N. Putnam, Paul D. Hartley, Brandon J. Rice +10 more
2019Journal of Molecular Diagnostics14 citations Open access
Semantic Scholar
Sea anemone genome reveals the gene repertoire and genomic organization of the eumetazoan ancestor - eScholarship
N. Putnam, M. Srivastava, U. Hellsten, B. Dirks +15 more
20076 citations
Semantic Scholar
Repertoire and Genomic Organization Sea Anemone Genome Reveals Ancestral Eumetazoan Gene
N. Putnam, M. Srivastava, U. Hellsten, B. Dirks +15 more
20142 citations
Semantic Scholar
Comparative pair-wise domain-combinations for screening the clade specific domain-architectures in metazoan genomes.
Shuichi Kawashima, T. Kawashima, N. Putnam, D. Rokhsar +2 more
2007Genome informatics. International Conference on Genome Informatics2 citations
Semantic Scholar
Applications of statistical physics to genome assembly and protein folding
N. Putnam
20042 citations
Semantic Scholar
The amphioxus genome and the evolution of the chordate karyotype
N. Putnam
20081 citations
Semantic Scholar
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
Gustavo A. Bravo, A. Antonelli, C. Bacon, K. Bartoszek +496 more
20190 citations Open access
Semantic Scholar
Peer Review #1 of "A draft genome and transcriptome of common milkweed (Asclepias syriaca) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae (v0.1)"
K. Weitemier, S. Straub, M. Fishbein, Donovan Bailey +496 more
20190 citations Open access
Semantic Scholar
Structural variation detection by proximity ligation from FFPE tumor tissue
Christopher J. Troll, N. Putnam, Paul D. Hartley, Brandon J. Rice +9 more
2018bioRxiv0 citations Open access
Semantic Scholar
Symphonic Band Concert
Ewu Symphonic Band, Ewu Trumpet Sextet, Nathan James, Jay E. Jones +4 more
20160 citations
Semantic Scholar
Implications for Cell Type Evolution and Its Mnemiopsis leidyi The Genome of the Ctenophore
Joseph F. Ryan, K. Pang, C. Schnitzler, A. Nguyen +13 more
20140 citations
Semantic Scholar
Microbial Genomics 60 Gene Expression Profiles of Rhodopseudomonas palustris Nitrogenases by Whole Genome Microarray
Michael Bechner, Michael Place, Andrew C. Kile, E. Kvikstad +14 more
20100 citations
Semantic Scholar

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