-
1
-
-
0037468758
-
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
-
10.1038/nature01521, 12660784
-
Bowers JE, Chapman BA, Rong J, Paterson AH. Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature 2003, 422(6930):433-438. 10.1038/nature01521, 12660784.
-
(2003)
Nature
, vol.422
, Issue.6930
, pp. 433-438
-
-
Bowers, J.E.1
Chapman, B.A.2
Rong, J.3
Paterson, A.H.4
-
2
-
-
25144461143
-
First nuclear DNA amounts in more than 300 angiosperms
-
10.1093/aob/mci170, 15905300
-
Zonneveld BJ, Leitch IJ, Bennett MD. First nuclear DNA amounts in more than 300 angiosperms. Ann Bot 2005, 96(2):229-244. 10.1093/aob/mci170, 15905300.
-
(2005)
Ann Bot
, vol.96
, Issue.2
, pp. 229-244
-
-
Zonneveld, B.J.1
Leitch, I.J.2
Bennett, M.D.3
-
3
-
-
42549120705
-
Synteny and collinearity in plant genomes
-
10.1126/science.1153917, 18436778
-
Tang H, Bowers JE, Wang X, Ming R, Alam M, Paterson AH. Synteny and collinearity in plant genomes. Science 2008, 320(5875):486-488. 10.1126/science.1153917, 18436778.
-
(2008)
Science
, vol.320
, Issue.5875
, pp. 486-488
-
-
Tang, H.1
Bowers, J.E.2
Wang, X.3
Ming, R.4
Alam, M.5
Paterson, A.H.6
-
4
-
-
38849149795
-
28-way vertebrate alignment and conservation track in the UCSC Genome Browser
-
10.1101/gr.6761107, 2099589, 17984227
-
Miller W, Rosenbloom K, Hardison RC, Hou M, Taylor J, Raney B, Burhans R, King DC, Baertsch R, Blankenberg D, et al. 28-way vertebrate alignment and conservation track in the UCSC Genome Browser. Genome Res 2007, 17(12):1797-1808. 10.1101/gr.6761107, 2099589, 17984227.
-
(2007)
Genome Res
, vol.17
, Issue.12
, pp. 1797-1808
-
-
Miller, W.1
Rosenbloom, K.2
Hardison, R.C.3
Hou, M.4
Taylor, J.5
Raney, B.6
Burhans, R.7
King, D.C.8
Baertsch, R.9
Blankenberg, D.10
-
5
-
-
61449175946
-
Synteny of Prunus and other model plant species
-
10.1186/1471-2164-10-76, 2647949, 19208249
-
Jung S, Jiwan D, Cho I, Lee T, Abbott A, Sosinski B, Main D. Synteny of Prunus and other model plant species. BMC Genomics 2009, 10:76. 10.1186/1471-2164-10-76, 2647949, 19208249.
-
(2009)
BMC Genomics
, vol.10
, pp. 76
-
-
Jung, S.1
Jiwan, D.2
Cho, I.3
Lee, T.4
Abbott, A.5
Sosinski, B.6
Main, D.7
-
6
-
-
57149102681
-
Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps
-
10.1101/gr.080978.108, 2593578, 18832442
-
Tang H, Wang X, Bowers JE, Ming R, Alam M, Paterson AH. Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps. Genome Res 2008, 18(12):1944-1954. 10.1101/gr.080978.108, 2593578, 18832442.
-
(2008)
Genome Res
, vol.18
, Issue.12
, pp. 1944-1954
-
-
Tang, H.1
Wang, X.2
Bowers, J.E.3
Ming, R.4
Alam, M.5
Paterson, A.H.6
-
7
-
-
58149105394
-
Haplotype divergence in Beta vulgaris and microsynteny with sequenced plant genomes
-
10.1111/j.1365-313X.2008.03665.x, 18764921
-
Dohm JC, Lange C, Reinhardt R, Himmelbauer H. Haplotype divergence in Beta vulgaris and microsynteny with sequenced plant genomes. Plant J 2009, 57(1):14-26. 10.1111/j.1365-313X.2008.03665.x, 18764921.
-
(2009)
Plant J
, vol.57
, Issue.1
, pp. 14-26
-
-
Dohm, J.C.1
Lange, C.2
Reinhardt, R.3
Himmelbauer, H.4
-
8
-
-
47249151337
-
Analysis of genome organization, composition and microsynteny using 500 kb BAC sequences in chickpea
-
10.1007/s00122-008-0789-0, 18504542
-
Rajesh PN, O'Bleness M, Roe BA, Muehlbauer FJ. Analysis of genome organization, composition and microsynteny using 500 kb BAC sequences in chickpea. Theor Appl Genet 2008, 117(3):449-458. 10.1007/s00122-008-0789-0, 18504542.
-
(2008)
Theor Appl Genet
, vol.117
, Issue.3
, pp. 449-458
-
-
Rajesh, P.N.1
O'Bleness, M.2
Roe, B.A.3
Muehlbauer, F.J.4
-
10
-
-
33645509923
-
Evolution of Arabidopsis microRNA families through duplication events
-
10.1101/gr.4680506, 1457037, 16520461
-
Maher C, Stein L, Ware D. Evolution of Arabidopsis microRNA families through duplication events. Genome Res 2006, 16(4):510-519. 10.1101/gr.4680506, 1457037, 16520461.
-
(2006)
Genome Res
, vol.16
, Issue.4
, pp. 510-519
-
-
Maher, C.1
Stein, L.2
Ware, D.3
-
11
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
10.1093/nar/25.17.3389, 146917, 9254694
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25(17):3389-3402. 10.1093/nar/25.17.3389, 146917, 9254694.
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
12
-
-
0036852286
-
The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice
-
10.1101/gr.400202, 187543, 12421767
-
Vandepoele K, Saeys Y, Simillion C, Raes J, Van De Peer Y. The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice. Genome Res 2002, 12(11):1792-1801. 10.1101/gr.400202, 187543, 12421767.
-
(2002)
Genome Res
, vol.12
, Issue.11
, pp. 1792-1801
-
-
Vandepoele, K.1
Saeys, Y.2
Simillion, C.3
Raes, J.4
Van De Peer, Y.5
-
13
-
-
68149122283
-
Automated identification of conserved synteny after whole-genome duplication
-
10.1101/gr.090480.108, 2720179, 19465509
-
Catchen JM, Conery JS, Postlethwait JH. Automated identification of conserved synteny after whole-genome duplication. Genome Res 2009, 19(8):1497-1505. 10.1101/gr.090480.108, 2720179, 19465509.
-
(2009)
Genome Res
, vol.19
, Issue.8
, pp. 1497-1505
-
-
Catchen, J.M.1
Conery, J.S.2
Postlethwait, J.H.3
-
14
-
-
2342554268
-
Building genomic profiles for uncovering segmental homology in the twilight zone
-
10.1101/gr.2179004, 419788, 15173115
-
Simillion C, Vandepoele K, Saeys Y, Van de Peer Y. Building genomic profiles for uncovering segmental homology in the twilight zone. Genome Res 2004, 14(6):1095-1106. 10.1101/gr.2179004, 419788, 15173115.
-
(2004)
Genome Res
, vol.14
, Issue.6
, pp. 1095-1106
-
-
Simillion, C.1
Vandepoele, K.2
Saeys, Y.3
Van de Peer, Y.4
-
15
-
-
75649134588
-
PLAZA: a comparative genomics resource to study gene and genome evolution in plants
-
10.1105/tpc.109.071506, 2814516, 20040540
-
Proost S, Van Bel M, Sterck L, Billiau K, Van Parys T, Van de Peer Y, Vandepoele K. PLAZA: a comparative genomics resource to study gene and genome evolution in plants. Plant Cell 2009, 21(12):3718-3731. 10.1105/tpc.109.071506, 2814516, 20040540.
-
(2009)
Plant Cell
, vol.21
, Issue.12
, pp. 3718-3731
-
-
Proost, S.1
Van Bel, M.2
Sterck, L.3
Billiau, K.4
Van Parys, T.5
Van de Peer, Y.6
Vandepoele, K.7
-
16
-
-
38549175740
-
GreenPhylDB: a database for plant comparative genomics
-
2238940, 17986457
-
Conte MG, Gaillard S, Lanau N, Rouard M, Perin C. GreenPhylDB: a database for plant comparative genomics. Nucleic Acids Res 2008, (36 Database):D991-998. 2238940, 17986457.
-
(2008)
Nucleic Acids Res
, Issue.36
-
-
Conte, M.G.1
Gaillard, S.2
Lanau, N.3
Rouard, M.4
Perin, C.5
-
17
-
-
0030458552
-
Phylogenetic analysis in molecular evolutionary genetics
-
10.1146/annurev.genet.30.1.371, 8982459
-
Nei M. Phylogenetic analysis in molecular evolutionary genetics. Annu Rev Genet 1996, 30:371-403. 10.1146/annurev.genet.30.1.371, 8982459.
-
(1996)
Annu Rev Genet
, vol.30
, pp. 371-403
-
-
Nei, M.1
-
18
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
10.1093/bioinformatics/btm404, 17846036
-
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, et al. Clustal W and Clustal X version 2.0. Bioinformatics 2007, 23(21):2947-2948. 10.1093/bioinformatics/btm404, 17846036.
-
(2007)
Bioinformatics
, vol.23
, Issue.21
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
-
19
-
-
0033990046
-
Phylogenetic analysis using PHYLIP
-
Retief JD. Phylogenetic analysis using PHYLIP. Methods Mol Biol 2000, 132:243-258.
-
(2000)
Methods Mol Biol
, vol.132
, pp. 243-258
-
-
Retief, J.D.1
-
20
-
-
33748760611
-
The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
-
10.1126/science.1128691, 16973872
-
Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, et al. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 2006, 313(5793):1596-1604. 10.1126/science.1128691, 16973872.
-
(2006)
Science
, vol.313
, Issue.5793
, pp. 1596-1604
-
-
Tuskan, G.A.1
Difazio, S.2
Jansson, S.3
Bohlmann, J.4
Grigoriev, I.5
Hellsten, U.6
Putnam, N.7
Ralph, S.8
Rombauts, S.9
Salamov, A.10
-
21
-
-
34848886909
-
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
-
10.1038/nature06148, 17721507
-
Jaillon O, Aury JM, Noel B, Policriti A, Clepet C, Casagrande A, Choisne N, Aubourg S, Vitulo N, Jubin C, et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 2007, 449(7161):463-467. 10.1038/nature06148, 17721507.
-
(2007)
Nature
, vol.449
, Issue.7161
, pp. 463-467
-
-
Jaillon, O.1
Aury, J.M.2
Noel, B.3
Policriti, A.4
Clepet, C.5
Casagrande, A.6
Choisne, N.7
Aubourg, S.8
Vitulo, N.9
Jubin, C.10
-
22
-
-
41249098849
-
A high quality draft consensus sequence of the genome of a heterozygous grapevine variety
-
10.1371/journal.pone.0001326, 2147077, 18094749
-
Velasco R, Zharkikh A, Troggio M, Cartwright DA, Cestaro A, Pruss D, Pindo M, Fitzgerald LM, Vezzulli S, Reid J, et al. A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. PLoS One 2007, 2(12):e1326. 10.1371/journal.pone.0001326, 2147077, 18094749.
-
(2007)
PLoS One
, vol.2
, Issue.12
-
-
Velasco, R.1
Zharkikh, A.2
Troggio, M.3
Cartwright, D.A.4
Cestaro, A.5
Pruss, D.6
Pindo, M.7
Fitzgerald, L.M.8
Vezzulli, S.9
Reid, J.10
-
23
-
-
4143051590
-
Ancestral genome duplication in rice
-
10.1139/g04-016, 15190378
-
Guyot R, Keller B. Ancestral genome duplication in rice. Genome 2004, 47(3):610-614. 10.1139/g04-016, 15190378.
-
(2004)
Genome
, vol.47
, Issue.3
, pp. 610-614
-
-
Guyot, R.1
Keller, B.2
-
24
-
-
12344335569
-
DAGchainer: a tool for mining segmental genome duplications and synteny
-
10.1093/bioinformatics/bth397, 15247098
-
Haas BJ, Delcher AL, Wortman JR, Salzberg SL. DAGchainer: a tool for mining segmental genome duplications and synteny. Bioinformatics 2004, 20(18):3643-3646. 10.1093/bioinformatics/bth397, 15247098.
-
(2004)
Bioinformatics
, vol.20
, Issue.18
, pp. 3643-3646
-
-
Haas, B.J.1
Delcher, A.L.2
Wortman, J.R.3
Salzberg, S.L.4
-
25
-
-
2942610254
-
DiagHunter and GenoPix2D: programs for genomic comparisons, large-scale homology discovery and visualization
-
10.1186/gb-2003-4-10-r68, 328457, 14519203
-
Cannon SB, Kozik A, Chan B, Michelmore R, Young ND. DiagHunter and GenoPix2D: programs for genomic comparisons, large-scale homology discovery and visualization. Genome Biol 2003, 4(10):R68. 10.1186/gb-2003-4-10-r68, 328457, 14519203.
-
(2003)
Genome Biol
, vol.4
, Issue.10
-
-
Cannon, S.B.1
Kozik, A.2
Chan, B.3
Michelmore, R.4
Young, N.D.5
-
26
-
-
1042276327
-
Fast identification and statistical evaluation of segmental homologies in comparative maps
-
10.1093/bioinformatics/btg1008, 12855440
-
Calabrese PP, Chakravarty S, Vision TJ. Fast identification and statistical evaluation of segmental homologies in comparative maps. Bioinformatics 2003, 19(Suppl 1):i74-80. 10.1093/bioinformatics/btg1008, 12855440.
-
(2003)
Bioinformatics
, vol.19
, Issue.SUPPL. 1
-
-
Calabrese, P.P.1
Chakravarty, S.2
Vision, T.J.3
-
27
-
-
33947408098
-
Cinteny: flexible analysis and visualization of synteny and genome rearrangements in multiple organisms
-
10.1186/1471-2105-8-82, 1821339, 17343765
-
Sinha AU, Meller J. Cinteny: flexible analysis and visualization of synteny and genome rearrangements in multiple organisms. BMC Bioinformatics 2007, 8:82. 10.1186/1471-2105-8-82, 1821339, 17343765.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 82
-
-
Sinha, A.U.1
Meller, J.2
-
28
-
-
63549088678
-
Accurate identification of orthologous segments among multiple genomes
-
10.1093/bioinformatics/btp070, 19188192
-
Hachiya T, Osana Y, Popendorf K, Sakakibara Y. Accurate identification of orthologous segments among multiple genomes. Bioinformatics 2009, 25(7):853-860. 10.1093/bioinformatics/btp070, 19188192.
-
(2009)
Bioinformatics
, vol.25
, Issue.7
, pp. 853-860
-
-
Hachiya, T.1
Osana, Y.2
Popendorf, K.3
Sakakibara, Y.4
-
29
-
-
67650961327
-
OrthoClusterDB: an online platform for synteny blocks
-
10.1186/1471-2105-10-192, 2711082, 19549318
-
Ng MP, Vergara IA, Frech C, Chen Q, Zeng X, Pei J, Chen N. OrthoClusterDB: an online platform for synteny blocks. BMC Bioinformatics 2009, 10:192. 10.1186/1471-2105-10-192, 2711082, 19549318.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 192
-
-
Ng, M.P.1
Vergara, I.A.2
Frech, C.3
Chen, Q.4
Zeng, X.5
Pei, J.6
Chen, N.7
-
30
-
-
77049118564
-
SyntenyTracker: a tool for defining homologous synteny blocks using radiation hybrid maps and whole-genome sequence
-
10.1186/1756-0500-2-148, 2726151, 19627596
-
Donthu R, Lewin HA, Larkin DM. SyntenyTracker: a tool for defining homologous synteny blocks using radiation hybrid maps and whole-genome sequence. BMC Res Notes 2009, 2:148. 10.1186/1756-0500-2-148, 2726151, 19627596.
-
(2009)
BMC Res Notes
, vol.2
, pp. 148
-
-
Donthu, R.1
Lewin, H.A.2
Larkin, D.M.3
-
31
-
-
77952854165
-
Genome-wide synteny through highly sensitive sequence alignment: Satsuma
-
10.1093/bioinformatics/btq102, 20208069
-
Grabherr MG, Russell P, Meyer M, Mauceli E, Alfoldi J, Di Palma F, Lindblad-Toh K. Genome-wide synteny through highly sensitive sequence alignment: Satsuma. Bioinformatics 2010, 26(9):1145-1151. 10.1093/bioinformatics/btq102, 20208069.
-
(2010)
Bioinformatics
, vol.26
, Issue.9
, pp. 1145-1151
-
-
Grabherr, M.G.1
Russell, P.2
Meyer, M.3
Mauceli, E.4
Alfoldi, J.5
Di Palma, F.6
Lindblad-Toh, K.7
|