-
1
-
-
20144373138
-
Genetic diversity assessment in cultivated cardoon by AFLP (amplified fragment length polymorphism) and microsatellite markers
-
Portis, E., Barchi, L., Acquadro, A., Macua, J. & Lanteri, S. Genetic diversity assessment in cultivated cardoon by AFLP (amplified fragment length polymorphism) and microsatellite markers. Plant Breed. 124, 299-304 (2005).
-
(2005)
Plant Breed
, vol.124
, pp. 299-304
-
-
Portis, E.1
Barchi, L.2
Acquadro, A.3
Macua, J.4
Lanteri, S.5
-
2
-
-
67349201044
-
Genetic diversity of globe artichoke landraces from Sicilian small-holdings: Implications for evolution and domestication of the species
-
Mauro, R. et al. Genetic diversity of globe artichoke landraces from Sicilian small-holdings: implications for evolution and domestication of the species. Cons. Genet. 10, 431-440 (2009).
-
(2009)
Cons. Genet.
, vol.10
, pp. 431-440
-
-
Mauro, R.1
-
3
-
-
63849340630
-
The isolation and mapping of a novel hydroxycinnamoyltransferase in the globe artichoke chlorogenic acid pathway
-
Comino, C. et al. The isolation and mapping of a novel hydroxycinnamoyltransferase in the globe artichoke chlorogenic acid pathway. BMC Plant Biol. 9, 30 (2009).
-
(2009)
BMC Plant Biol
, vol.9
, pp. 30
-
-
Comino, C.1
-
4
-
-
64549090653
-
Globe artichoke: A functional food and source of nutraceutical ingredients
-
Lattanzio, V., Kroon, P., Linsalata, V. & Cardinali, A. Globe artichoke: A functional food and source of nutraceutical ingredients. J. Funct. Foods 1, 131-144 (2009).
-
(2009)
J. Funct. Foods
, vol.1
, pp. 131-144
-
-
Lattanzio, V.1
Kroon, P.2
Linsalata, V.3
Cardinali, A.4
-
5
-
-
84896955674
-
Cytochrome P450s from Cynara cardunculus L. CYP71AV9 and CYP71BL5, catalyze distinct hydroxylations in the sesquiterpene lactone biosynthetic pathway
-
Eljounaidi, K. et al. Cytochrome P450s from Cynara cardunculus L. CYP71AV9 and CYP71BL5, catalyze distinct hydroxylations in the sesquiterpene lactone biosynthetic pathway. Plant Sci. 223, 59-68 (2014).
-
(2014)
Plant Sci
, vol.223
, pp. 59-68
-
-
Eljounaidi, K.1
-
6
-
-
77951025625
-
Cynara cardunculus L genotypes as a crop for energy purposes in a Mediterranean environment
-
Ierna, A. & Mauromicale, G. Cynara cardunculus L. genotypes as a crop for energy purposes in a Mediterranean environment. Biomass Bioenerg. 34, 754-760 (2010).
-
(2010)
Biomass Bioenerg
, vol.34
, pp. 754-760
-
-
Ierna, A.1
Mauromicale, G.2
-
7
-
-
84865719535
-
Potentiality of Cynara cardunculus L as energy crop
-
Portis, E. et al. Potentiality of Cynara cardunculus L. as energy crop. J Biotechnol. 150, S165-S166 (2010).
-
(2010)
J Biotechnol
, vol.150
, pp. S165-S166
-
-
Portis, E.1
-
8
-
-
0032744072
-
Possible alternative utilization of Cynara spp. I. Biomass, grain yield and chemical composition of grain
-
Foti, S. et al. Possible alternative utilization of Cynara spp. I. Biomass, grain yield and chemical composition of grain. Ind. Crop. Prod. 10, 219-228 (1999).
-
(1999)
Ind. Crop. Prod.
, vol.10
, pp. 219-228
-
-
Foti, S.1
-
9
-
-
0027290437
-
A cytometric exercise in plant DNA histograms, with 2C-values for 70 species
-
Marie, D. & Brown, S. A cytometric exercise in plant DNA histograms, with 2C-values for 70 species. Biol. Cell 78, 41-51 (1993).
-
(1993)
Biol. Cell
, vol.78
, pp. 41-51
-
-
Marie, D.1
Brown, S.2
-
10
-
-
84855224530
-
RAD tag sequencing as a source of SNP markers in Cynara cardunculus L
-
Scaglione, D. et al. RAD tag sequencing as a source of SNP markers in Cynara cardunculus L. BMC Genomics 13, 3 (2012).
-
(2012)
BMC Genomics
, vol.13
, pp. 3
-
-
Scaglione, D.1
-
11
-
-
84865798797
-
Large-scale transcriptome characterization and mass discovery of SNPs in globe artichoke and its related taxa
-
Scaglione, D. et al. Large-scale transcriptome characterization and mass discovery of SNPs in globe artichoke and its related taxa. Plant Biotech. J. 10, 956-969 (2012).
-
(2012)
Plant Biotech. J.
, vol.10
, pp. 956-969
-
-
Scaglione, D.1
-
12
-
-
33746740468
-
A first linkage map of globe artichoke (Cynara cardunculus var scolymus L.) based on AFLP, S-SAP, M-AFLP and microsatellite markers
-
Lanteri, S. et al. A first linkage map of globe artichoke (Cynara cardunculus var. scolymus L.) based on AFLP, S-SAP, M-AFLP and microsatellite markers. Theor. Appl. Genet. 112, 1532-1542 (2006).
-
(2006)
Theor. Appl. Genet.
, vol.112
, pp. 1532-1542
-
-
Lanteri, S.1
-
13
-
-
84861330503
-
Genetic mapping and identification of QTL for earliness in the globe artichoke/cultivated cardoon complex
-
Portis, E. et al. Genetic mapping and identification of QTL for earliness in the globe artichoke/cultivated cardoon complex. BMC Res. Not. 5, 252 (2012).
-
(2012)
BMC Res. Not.
, vol.5
, pp. 252
-
-
Portis, E.1
-
14
-
-
70949093290
-
Construction of a reference molecular linkage map of globe artichoke (Cynara cardunculus var scolymus)
-
Portis, E. et al. Construction of a reference molecular linkage map of globe artichoke (Cynara cardunculus var. scolymus). Theor. Appl. Genet. 120, 59-70 (2009).
-
(2009)
Theor. Appl. Genet.
, vol.120
, pp. 59-70
-
-
Portis, E.1
-
15
-
-
84922226001
-
Mapping yield-associated QTL in globe artichoke
-
Portis, E. et al. Mapping yield-associated QTL in globe artichoke. Mol. Breed. 34, 615-630 (2014).
-
(2014)
Mol. Breed.
, vol.34
, pp. 615-630
-
-
Portis, E.1
-
16
-
-
84925002917
-
Complete chloroplast genome of the multifunctional crop globe artichoke and comparison with other asteraceae
-
Curci, P., De Paola, D., Danzi, D., Vendramin, G. & Sonnante, G. Complete Chloroplast Genome of the Multifunctional Crop Globe Artichoke and Comparison with Other Asteraceae. Plos One 10 (2015).
-
(2015)
Plos One
, vol.10
-
-
Curci, P.1
De Paola, D.2
Danzi, D.3
Vendramin, G.4
Sonnante, G.5
-
17
-
-
0032809163
-
Phylogenetic pattern, diversity, and diversification of eudicots
-
Magallon, S., Crane, P. & Herendeen, P. Phylogenetic pattern, diversity, and diversification of eudicots. Ann. Mo. Bot. Gard. 86, 297-372 (1999).
-
(1999)
Ann. Mo. Bot. Gard.
, vol.86
, pp. 297-372
-
-
Magallon, S.1
Crane, P.2
Herendeen, P.3
-
18
-
-
0000386783
-
Angiosperm biogeography and past continental movements
-
Raven, P. H. & Axelrod, D. I. Angiosperm biogeography and past continental movements. Ann. Mo. Bot. Gard. 61, 39-637 (1974).
-
(1974)
Ann. Mo. Bot. Gard.
, vol.61
, pp. 39-637
-
-
Raven, P.H.1
Axelrod, D.I.2
-
19
-
-
54149092976
-
Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years
-
Barker, M. et al. Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years. Mol. Biol. Evol. 25, 2445-2455 (2008).
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 2445-2455
-
-
Barker, M.1
-
20
-
-
0008885075
-
The Compositae: Systematically fascinating but specifically neglected
-
(eds Paterson, A. H. & Landes, R. G.) Co. Georgetown, TX
-
Kesseli, R. V. & Michelmore, R. W. The Compositae: systematically fascinating but specifically neglected. In Genome Mapping in Plants, (eds Paterson, A. H. & Landes, R. G.) 179-191 (Co. Georgetown, TX, 1997).
-
(1997)
Genome Mapping in Plants
, pp. 179-191
-
-
Kesseli, R.V.1
Michelmore, R.W.2
-
21
-
-
84908592627
-
De novo genome assembly of the economically important weed horseweed using integrated data from multiple sequencing platforms
-
Peng, Y. et al. De Novo Genome Assembly of the Economically Important Weed Horseweed Using Integrated Data from Multiple Sequencing Platforms. Plant Physiol. 166, 1241 (2014).
-
(2014)
Plant Physiol
, vol.166
, pp. 1241
-
-
Peng, Y.1
-
22
-
-
79960422847
-
Genome sequence and analysis of the tuber crop potato
-
Xu, X. et al. Genome sequence and analysis of the tuber crop potato. Nature 475, 189-194 (2011).
-
(2011)
Nature
, vol.475
, pp. 189-194
-
-
Xu, X.1
-
23
-
-
84863693752
-
The tomato genome sequence provides insights into fleshy fruit evolution
-
Sato, S. et al. The tomato genome sequence provides insights into fleshy fruit evolution. Nature 485, 635-641 (2012).
-
(2012)
Nature
, vol.485
, pp. 635-641
-
-
Sato, S.1
-
24
-
-
84895880054
-
Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species
-
Kim, S. et al. Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species. Nat. Genet. 46, 270-278 (2014).
-
(2014)
Nat. Genet.
, vol.46
, pp. 270-278
-
-
Kim, S.1
-
25
-
-
84898022114
-
Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization
-
Qin, C. et al. Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization. P. Natl. Acad. Sci. USA 111, 5135-5140 (2014).
-
(2014)
P. Natl. Acad. Sci. USA
, vol.111
, pp. 5135-5140
-
-
Qin, C.1
-
26
-
-
84922178556
-
Draft genome sequence of eggplant (Solanum melongena L.): The representative Solanum species indigenous to the old world
-
Hirakawa, H. et al. Draft genome sequence of eggplant (Solanum melongena L.): the representative Solanum species indigenous to the old world. DNA Res. 1-12 (2014).
-
(2014)
DNA Res
, pp. 1-12
-
-
Hirakawa, H.1
-
27
-
-
84955263121
-
An Eggplant (Solanum melongena L.) High Quality Genome Draft
-
edn (San Diego (CA, USA) 2014
-
Rotino, G. L. et al. An Eggplant (Solanum melongena L.) High Quality Genome Draft. In Plant and Animal Genome XXIInd-January 11-15, 2014 edn (San Diego (CA, USA), 2014).
-
(2014)
Plant and Animal Genome XXIInd-January
, pp. 11-15
-
-
Rotino, G.L.1
-
28
-
-
77953796079
-
Parent-independent genotyping for constructing an ultrahigh-density linkage map based on population sequencing
-
Xie, W. et al. Parent-independent genotyping for constructing an ultrahigh-density linkage map based on population sequencing. P. Natl. Acad. Sci. USA 107, 10578-10583 (2010).
-
(2010)
P. Natl. Acad. Sci. USA
, vol.107
, pp. 10578-10583
-
-
Xie, W.1
-
29
-
-
84884835056
-
Application of genotyping-by-sequencing on semiconductor sequencing platforms: A comparison of genetic and reference-based marker ordering in barley
-
Mascher, M., Wu, S., St Amand, P., Stein, N. & Poland, J. Application of genotyping-by-sequencing on semiconductor sequencing platforms: a comparison of genetic and reference-based marker ordering in barley. PLoS One 8, e76925 (2013).
-
(2013)
PLoS One
, vol.8
, pp. e76925
-
-
Mascher, M.1
Wu, S.2
St Amand, P.3
Stein, N.4
Poland, J.5
-
30
-
-
70350444763
-
Ontology and diversity of transcript-associated microsatellites mined from a globe artichoke EST database
-
Scaglione, D. et al. Ontology and diversity of transcript-associated microsatellites mined from a globe artichoke EST database. BMC Genomics 10, 454 (2009).
-
(2009)
BMC Genomics
, vol.10
, pp. 454
-
-
Scaglione, D.1
-
31
-
-
67349153318
-
Genetic mapping and annotation of genomic microsatellites isolated from globe artichoke
-
Acquadro, A. et al. Genetic mapping and annotation of genomic microsatellites isolated from globe artichoke. Theor. Appl. Genet. 118, 1573-1587 (2009).
-
(2009)
Theor. Appl. Genet.
, vol.118
, pp. 1573-1587
-
-
Acquadro, A.1
-
32
-
-
79952178131
-
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
-
Gnerre, S. et al. High-quality draft assemblies of mammalian genomes from massively parallel sequence data. P. Natl. Acad. Sci. USA 108, 1513-1518 (2011).
-
(2011)
P. Natl. Acad. Sci. USA
, vol.108
, pp. 1513-1518
-
-
Gnerre, S.1
-
33
-
-
75149155568
-
The sequence and de novo assembly of the giant panda genome
-
Li, R. et al. The sequence and de novo assembly of the giant panda genome. Nature 463, 311-317 (2010).
-
(2010)
Nature
, vol.463
, pp. 311-317
-
-
Li, R.1
-
34
-
-
84890824399
-
Assembly and validation of the genome of the nonmodel basal angiosperm amborella
-
Chamala, S. et al. Assembly and Validation of the Genome of the Nonmodel Basal Angiosperm Amborella. Science 342, 1516-1517 (2013).
-
(2013)
Science
, vol.342
, pp. 1516-1517
-
-
Chamala, S.1
-
35
-
-
34249848751
-
CEGMA: A pipeline to accurately annotate core genes in eukaryotic genornes
-
Parra, G., Bradnam, K. & Korf, I. CEGMA: a pipeline to accurately annotate core genes in eukaryotic genornes. Bioinformatics 23, 1061-1067 (2007).
-
(2007)
Bioinformatics
, vol.23
, pp. 1061-1067
-
-
Parra, G.1
Bradnam, K.2
Korf, I.3
-
36
-
-
49549099085
-
HapCUT: An efficient and accurate algorithm for the haplotype assembly problem
-
Bansal, V. & Bafna, V. HapCUT: an efficient and accurate algorithm for the haplotype assembly problem. Bioinformatics 24, 1153-1159 (2008).
-
(2008)
Bioinformatics
, vol.24
, pp. 1153-1159
-
-
Bansal, V.1
Bafna, V.2
-
37
-
-
28444482413
-
SMOOTH: A statistical method for successful removal of genotyping errors from highdensity genetic linkage data
-
van Os, H., Stam, P., Visser, R. & van Eck, H. SMOOTH: a statistical method for successful removal of genotyping errors from highdensity genetic linkage data. Theor. Appl. Genet. 112, 187-194 (2005).
-
(2005)
Theor. Appl. Genet.
, vol.112
, pp. 187-194
-
-
Van Os, H.1
Stam, P.2
Visser, R.3
Van Eck, H.4
-
38
-
-
84955322101
-
CyMSatDB: The globe artichoke (Cynara cardunculus var scolymus) Microsatellite Database
-
XXIIIrd-January 2015 edn. (San Diego (CA, USA)
-
Portis, E. et al. CyMSatDB: The Globe Artichoke (Cynara cardunculus var. scolymus) Microsatellite Database. In Plant and Animal Genome XXIIIrd-January 10-14, 2015 edn. (San Diego (CA, USA), 2015).
-
(2015)
Plant and Animal Genome
, pp. 10-14
-
-
Portis, E.1
-
39
-
-
84907200661
-
The coffee genome provides insight into the convergent evolution of caffeine biosynthesis
-
Denoeud, F. et al. The coffee genome provides insight into the convergent evolution of caffeine biosynthesis. Science 345, 1181-1184 (2014).
-
(2014)
Science
, vol.345
, pp. 1181-1184
-
-
Denoeud, F.1
-
40
-
-
84856067479
-
The miRNAome of globe artichoke: Conserved and novel micro RNAs and target analysis
-
De Paola, D., Cattonaro, F., Pignone, D. & Sonnante, G. The miRNAome of globe artichoke: conserved and novel micro RNAs and target analysis. BMC Genomics 13, 41 (2012).
-
(2012)
BMC Genomics
, vol.13
, pp. 41
-
-
De Paola, D.1
Cattonaro, F.2
Pignone, D.3
Sonnante, G.4
-
41
-
-
84877247082
-
Reconstructing the evolution and biogeographic history of tribe Cardueae (Compositae)
-
Barres, L. et al. Reconstructing the evolution and biogeographic history of tribe Cardueae (Compositae). American Journal of Botany 100, 867-882 (2013).
-
(2013)
American Journal of Botany
, vol.100
, pp. 867-882
-
-
Barres, L.1
-
42
-
-
60249100398
-
Darwin's second abominable mystery": Why are there so many angiosperm species
-
Crepet, W. & Niklas, K. Darwin's second "abominable mystery": why are there so many angiosperm species American Journal of Botany 96, 366-381 (2009).
-
(2009)
American Journal of Botany
, vol.96
, pp. 366-381
-
-
Crepet, W.1
Niklas, K.2
-
43
-
-
79955783956
-
A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species
-
Elshire, R. et al. A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One 6, e19379 (2011).
-
(2011)
PLoS One
, vol.6
, pp. e19379
-
-
Elshire, R.1
-
44
-
-
79954584270
-
Local de novo assembly of RAD paired-end contigs using short sequencing reads
-
Etter, P., Preston, J., Bassham, S., Cresko, W. & Johnson, E. Local de novo assembly of RAD paired-end contigs using short sequencing reads. PLoS One 6, e18561 (2011).
-
(2011)
PLoS One
, vol.6
, pp. e18561
-
-
Etter, P.1
Preston, J.2
Bassham, S.3
Cresko, W.4
Johnson, E.5
-
45
-
-
84861691274
-
Double Digest RADseq: An inexpensive method for de novo SNP discovery and genotyping in model and non-model species
-
Peterson, B., Weber, J., Kay, E., Fisher, H. & Hoekstra, H. Double Digest RADseq: an inexpensive method for de novo SNP discovery and genotyping in model and non-model species. PLoS One 7, e37135 (2012).
-
(2012)
PLoS One
, vol.7
, pp. e37135
-
-
Peterson, B.1
Weber, J.2
Kay, E.3
Fisher, H.4
Hoekstra, H.5
-
46
-
-
79953304894
-
Multiplexed shotgun genotyping for rapid and efficient genetic mapping
-
Andolfatto, P. et al. Multiplexed shotgun genotyping for rapid and efficient genetic mapping. Genome Res. 21, 610-617 (2011).
-
(2011)
Genome Res
, vol.21
, pp. 610-617
-
-
Andolfatto, P.1
-
47
-
-
0025936264
-
Multigene families and the evolution of complexity
-
Ohta, T. Multigene families and the evolution of complexity. J. Mol. Evol. 33, 34-41 (1991).
-
(1991)
J. Mol. Evol.
, vol.33
, pp. 34-41
-
-
Ohta, T.1
-
48
-
-
84867868500
-
Regulation of eukaryotic gene expression by the untranslated gene regions and other non-coding elements
-
Barrett, L., Fletcher, S. & Wilton, S. Regulation of eukaryotic gene expression by the untranslated gene regions and other non-coding elements. Cell. Mol. Life Sci. 69, 3613-3634 (2012).
-
(2012)
Cell. Mol. Life Sci.
, vol.69
, pp. 3613-3634
-
-
Barrett, L.1
Fletcher, S.2
Wilton, S.3
-
49
-
-
84859813961
-
Characterization and evolution of microRNA genes derived from repetitive elements and duplication events in plants
-
Sun, J., Zhou, M., Mao, Z. & Li, C. Characterization and evolution of microRNA genes derived from repetitive elements and duplication events in plants. PLoS One 7, e34092 (2012).
-
(2012)
PLoS One
, vol.7
, pp. e34092
-
-
Sun, J.1
Zhou, M.2
Mao, Z.3
Li, C.4
-
50
-
-
84904382612
-
A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome
-
Mayer, K. et al. A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science 345, 6194 (2014).
-
(2014)
Science
, vol.345
, pp. 6194
-
-
Mayer, K.1
-
51
-
-
47649106761
-
The origin and evolution of plant cystatins and their target cysteine proteinases indicate a complex functional relationship
-
Martinez, M. & Diaz, I. The origin and evolution of plant cystatins and their target cysteine proteinases indicate a complex functional relationship. BMC Evol. Biol. 8, 198 (2008).
-
(2008)
BMC Evol. Biol.
, vol.8
, pp. 198
-
-
Martinez, M.1
Diaz, I.2
-
52
-
-
84891147191
-
Identification and characterization of salt responsive miRNA-SSR markers in rice (Oryza sativa)
-
Mondal, T. & Ganie, S. Identification and characterization of salt responsive miRNA-SSR markers in rice (Oryza sativa). Gene 535, 204-209 (2014).
-
(2014)
Gene
, vol.535
, pp. 204-209
-
-
Mondal, T.1
Ganie, S.2
-
53
-
-
84908361215
-
Novel insights from non-conserved microRNAs in plants
-
Qin, Z., Li, C., Mao, L. & Wu, L. Novel insights from non-conserved microRNAs in plants. Frontiers in Plant Science 5, (2014).
-
(2014)
Frontiers in Plant Science
, vol.5
-
-
Qin, Z.1
Li, C.2
Mao, L.3
Wu, L.4
-
54
-
-
84866730704
-
The sunflower (Helianthus annuus L.) genome reflects a recent history of biased accumulation of transposable elements
-
Staton, S. et al. The sunflower (Helianthus annuus L.) genome reflects a recent history of biased accumulation of transposable elements. Plant J. 72, 142-153 (2012).
-
(2012)
Plant J
, vol.72
, pp. 142-153
-
-
Staton, S.1
-
55
-
-
0000479431
-
Isolation of plant DNA from fresh tissue
-
Doyle, J. & Doyle, J. Isolation of plant DNA from fresh tissue. Focus 12, 13-14 (1990).
-
(1990)
Focus
, vol.12
, pp. 13-14
-
-
Doyle, J.1
Doyle, J.2
-
56
-
-
0033555906
-
Tandem repeats finder: A program to analyze DNA sequences
-
Benson, G. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Research 27, 573-580 (1999).
-
(1999)
Nucleic Acids Research
, vol.27
, pp. 573-580
-
-
Benson, G.1
-
57
-
-
33745634395
-
Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences
-
Li, W. & Godzik, A. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 22, 1658-1659 (2006).
-
(2006)
Bioinformatics
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
58
-
-
38049057159
-
MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes
-
Cantarel, B. et al. MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes. Genome Res. 18, 188-196 (2008).
-
(2008)
Genome Res
, vol.18
, pp. 188-196
-
-
Cantarel, B.1
-
59
-
-
84899518211
-
InterProScan 5: Genome-scale protein function classification
-
Jones, P. et al. InterProScan 5: genome-scale protein function classification. Bioinformatics 30, 1236-1240 (2014).
-
(2014)
Bioinformatics
, vol.30
, pp. 1236-1240
-
-
Jones, P.1
-
60
-
-
84904010850
-
Using OrthoMCL to assign proteins to orthoMCL-DB groups or to cluster proteomes into new ortholog groups
-
eds Wiley, J & Sons
-
Fischer, S. et al. Using OrthoMCL to assign proteins to orthoMCL-DB groups or to cluster proteomes into new ortholog groups. In Current protocols in bioinformatics. (eds Wiley, J & Sons (2002).
-
(2002)
Current Protocols in Bioinformatics
-
-
Fischer, S.1
-
61
-
-
84891805647
-
The genome portal of the department of energy
-
Joint Genome Institute: 2014 updates
-
Nordberg, H. et al. The genome portal of the Department of Energy Joint Genome Institute: 2014 updates. Nucleic Acids Res. 42, D26-D31 (2014).
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D26-D31
-
-
Nordberg, H.1
-
62
-
-
77956508095
-
MIReNA: Finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing data
-
Mathelier, A. & Carbone, A. MIReNA: finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing data. Bioinformatics 26, 2226-2234 (2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 2226-2234
-
-
Mathelier, A.1
Carbone, A.2
-
63
-
-
84863106315
-
Grass microRNA gene paleohistory unveils new insights into gene dosage balance in subgenome partitioning after whole-genome duplication
-
Abrouk, M. et al. Grass microRNA gene paleohistory unveils new insights into gene dosage balance in subgenome partitioning after whole-genome duplication. Plant Cell 24, 1776-1792 (2012).
-
(2012)
Plant Cell
, vol.24
, pp. 1776-1792
-
-
Abrouk, M.1
-
64
-
-
84928987900
-
HTSeq - A Python framework to work with high-throughput sequencing data
-
Anders, S., Pyl, P. & Huber, W. HTSeq-a Python framework to work with high-throughput sequencing data. Bioinformatics 31, 166-169 (2014).
-
(2014)
Bioinformatics
, vol.31
, pp. 166-169
-
-
Anders, S.1
Pyl, P.2
Huber, W.3
-
65
-
-
84865131821
-
In-silico and in-vivo analyses of EST databases unveil conserved miRNAs from Carthamus tinctorius and Cynara cardunculus
-
Catalano, D., Pignone, D., Sonnante, G. & Finetti-Sialer, M. In-silico and in-vivo analyses of EST databases unveil conserved miRNAs from Carthamus tinctorius and Cynara cardunculus. BMC Bioinformatics 13 (Suppl 4), S12 (2012).
-
(2012)
BMC Bioinformatics
, vol.13
, pp. S12
-
-
Catalano, D.1
Pignone, D.2
Sonnante, G.3
Finetti-Sialer, M.4
-
66
-
-
39749179047
-
LTRharvest an efficient and flexible software for de novo detection of LTR retrotransposons
-
Ellinghaus, D., Kurtz, S. & Willhoeft, U. LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons. BMC Bioinformatics 9, 18 (2008).
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 18
-
-
Ellinghaus, D.1
Kurtz, S.2
Willhoeft, U.3
-
67
-
-
84891782659
-
Pfam: The protein families database
-
Finn, R. et al. Pfam: the protein families database. Nucleic Acids Res. 42, D222-D230 (2014).
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D222-D230
-
-
Finn, R.1
-
68
-
-
75349090212
-
Fine-grained annotation and classification of de novo predicted LTR retrotransposons
-
Steinbiss, S., Willhoeft, U., Gremme, G. & Kurtz, S. Fine-grained annotation and classification of de novo predicted LTR retrotransposons. Nucleic Acids Res. 37, 7002-7013 (2009).
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 7002-7013
-
-
Steinbiss, S.1
Willhoeft, U.2
Gremme, G.3
Kurtz, S.4
-
69
-
-
79959931985
-
HMMER web server: Interactive sequence similarity searching
-
Finn, R., Clements, J. & Eddy, S. HMMER web server: interactive sequence similarity searching. Nucleic Acids Res. 39, W29-W37 (2011).
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W29-W37
-
-
Finn, R.1
Clements, J.2
Eddy, S.3
-
71
-
-
36249023071
-
A unified classification system for eukaryotic transposable elements
-
Wicker, T. et al. A unified classification system for eukaryotic transposable elements. Nature Rev. Genet. 8, 973-982 (2007).
-
(2007)
Nature Rev. Genet.
, vol.8
, pp. 973-982
-
-
Wicker, T.1
-
72
-
-
59949097135
-
Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome
-
Baucom, R., Estill, J., Leebens-Mack, J. & Bennetzen, J. Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome. Genome Res. 19, 243-254 (2009).
-
(2009)
Genome Res
, vol.19
, pp. 243-254
-
-
Baucom, R.1
Estill, J.2
Leebens-Mack, J.3
Bennetzen, J.4
-
73
-
-
34547740136
-
LTR retrotransposons in rice (Oryza sativa L.): Recent burst amplifications followed by rapid DNA loss
-
Vitte, C., Panaud, O. & Quesneville, H. LTR retrotransposons in rice (Oryza sativa L.): recent burst amplifications followed by rapid DNA loss. BMC Genomics 8, 218 (2007).
-
(2007)
BMC Genomics
, vol.8
, pp. 218
-
-
Vitte, C.1
Panaud, O.2
Quesneville, H.3
-
74
-
-
80054078476
-
Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega
-
Sievers, F. et al. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol. Syst. Biol. 7, 539 (2011).
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 539
-
-
Sievers, F.1
-
75
-
-
34547803197
-
PAML 4: Phylogenetic analysis by maximum likelihood
-
Yang, Z. PAML 4: Phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 24, 1586-1591 (2007).
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1586-1591
-
-
Yang, Z.1
-
76
-
-
47749146161
-
Molecular demographic history of the annual sunflowers Helianthus annuus and H-petiolaris-large effective population sizes and rates of long-term gene flow
-
Strasburg, J. & Rieseberg, L. Molecular demographic history of the annual sunflowers Helianthus annuus and H-petiolaris-large effective population sizes and rates of long-term gene flow. Evolution 62, 1936-1950 (2008).
-
(2008)
Evolution
, vol.62
, pp. 1936-1950
-
-
Strasburg, J.1
Rieseberg, L.2
-
77
-
-
57149089296
-
Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with Rosids
-
Lyons, E. et al. Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with Rosids. Plant Physiol. 148, 1772-1781 (2008).
-
(2008)
Plant Physiol
, vol.148
, pp. 1772-1781
-
-
Lyons, E.1
|