-
1
-
-
77952534535
-
Rapid genomic characterization of the genus Vitis
-
10.1371/journal.pone.0008219, 2805708, 20084295
-
Myles S, Chia J-M, Hurwitz B, Simon C, Zhong GY, Buckler E, Ware D. Rapid genomic characterization of the genus Vitis. PLoS ONE 2010, 5:e8219. 10.1371/journal.pone.0008219, 2805708, 20084295.
-
(2010)
PLoS ONE
, vol.5
-
-
Myles, S.1
Chia, J.-M.2
Hurwitz, B.3
Simon, C.4
Zhong, G.Y.5
Buckler, E.6
Ware, D.7
-
2
-
-
79952753900
-
Genetic structure and domestication history of the grape
-
10.1073/pnas.1009363108, 3048109, 21245334
-
Myles S, Boyko AR, Owens CL, Brown PJ, Grassi F, Aradhya MK, Prins B, Reynolds A, Chia J-M, Ware D, et al. Genetic structure and domestication history of the grape. Proc Natl Acad Sci USA 2011, 108:3530-3535. 10.1073/pnas.1009363108, 3048109, 21245334.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 3530-3535
-
-
Myles, S.1
Boyko, A.R.2
Owens, C.L.3
Brown, P.J.4
Grassi, F.5
Aradhya, M.K.6
Prins, B.7
Reynolds, A.8
Chia, J.-M.9
Ware, D.10
-
3
-
-
77950545365
-
Characterization of transcriptional complexity during berry development in Vitis vinifera using RNA-seq
-
10.1104/pp.109.149716, 2850006, 20118272
-
Zenoni S, Ferrarini A, Giacomelli E, Xumerle L, Fasoli M, Malerba G, Bellin D, Pezzotti M, Delledonne M. Characterization of transcriptional complexity during berry development in Vitis vinifera using RNA-seq. Plant Physiol 2010, 152:1787-1795. 10.1104/pp.109.149716, 2850006, 20118272.
-
(2010)
Plant Physiol
, vol.152
, pp. 1787-1795
-
-
Zenoni, S.1
Ferrarini, A.2
Giacomelli, E.3
Xumerle, L.4
Fasoli, M.5
Malerba, G.6
Bellin, D.7
Pezzotti, M.8
Delledonne, M.9
-
5
-
-
33749821311
-
Multiple origins of cultivated grapevine (Vitis vinifera L. ssp. sativa) based on chloroplast DNA polymorphisms
-
10.1111/j.1365-294X.2006.03049.x, 17032268
-
Arroyo-García R, Ruiz-García L, Bolling L, Ocete R, López MA, Arnold C, Ergul A, Soylemezoglu G, Uzun HI, Cabello F, et al. Multiple origins of cultivated grapevine (Vitis vinifera L. ssp. sativa) based on chloroplast DNA polymorphisms. Mol Ecol 2006, 15:3707-3714. 10.1111/j.1365-294X.2006.03049.x, 17032268.
-
(2006)
Mol Ecol
, vol.15
, pp. 3707-3714
-
-
Arroyo-García, R.1
Ruiz-García, L.2
Bolling, L.3
Ocete, R.4
López, M.A.5
Arnold, C.6
Ergul, A.7
Soylemezoglu, G.8
Uzun, H.I.9
Cabello, F.10
-
6
-
-
77950096283
-
Molecular and cellular mechanisms of diversity within grapevine varieties
-
10.1038/hdy.2009.161, 19935824
-
Pelsy F. Molecular and cellular mechanisms of diversity within grapevine varieties. Heredity 2010, 104:331-340. 10.1038/hdy.2009.161, 19935824.
-
(2010)
Heredity
, vol.104
, pp. 331-340
-
-
Pelsy, F.1
-
7
-
-
0037770194
-
Genetic structure and differentiation in cultivated grape Vitis vinifera L
-
10.1017/S0016672303006177, 12929909
-
Aradhya MK, Dangl GS, Prins BH, Boursiquot JM, Walker MA, Meredith CP, Simon CJ. Genetic structure and differentiation in cultivated grape Vitis vinifera L. Genet Res 2003, 81:179-192. 10.1017/S0016672303006177, 12929909.
-
(2003)
Genet Res
, vol.81
, pp. 179-192
-
-
Aradhya, M.K.1
Dangl, G.S.2
Prins, B.H.3
Boursiquot, J.M.4
Walker, M.A.5
Meredith, C.P.6
Simon, C.J.7
-
8
-
-
84862997101
-
A crop of maize variants
-
10.1038/ng.2326, 22735582
-
Huang X, Han B. A crop of maize variants. Nature Genetics 2012, 44:734-735. 10.1038/ng.2326, 22735582.
-
(2012)
Nature Genetics
, vol.44
, pp. 734-735
-
-
Huang, X.1
Han, B.2
-
9
-
-
84867875610
-
A map of rice genome variation reveals the origin of cultivated rice
-
10.1038/nature11532, 23034647
-
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, et al. A map of rice genome variation reveals the origin of cultivated rice. Nature 2012, 490:497-501. 10.1038/nature11532, 23034647.
-
(2012)
Nature
, vol.490
, pp. 497-501
-
-
Huang, X.1
Kurata, N.2
Wei, X.3
Wang, Z.X.4
Wang, A.5
Zhao, Q.6
Zhao, Y.7
Liu, K.8
Lu, H.9
Li, W.10
-
10
-
-
81355147024
-
Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor)
-
Zheng L-Y, Guo X-S, He B, Sun L-J, Peng Y, Dong S-S, Liu T-F, Jiang S, Ramachandran S, Liu C-M, et al. Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor). Genome Bio 2011, 12:R114.
-
(2011)
Genome Bio
, vol.12
-
-
Zheng, L.-Y.1
Guo, X.-S.2
He, B.3
Sun, L.-J.4
Peng, Y.5
Dong, S.-S.6
Liu, T.-F.7
Jiang, S.8
Ramachandran, S.9
Liu, C.-M.10
-
11
-
-
34848886909
-
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
-
10.1038/nature06148, 17721507
-
Jaillon O, Aury J-M, 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, 449:463-467. 10.1038/nature06148, 17721507.
-
(2007)
Nature
, vol.449
, 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
-
12
-
-
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:e1326. 10.1371/journal.pone.0001326, 2147077, 18094749.
-
(2007)
PLoS ONE
, vol.2
-
-
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
-
14
-
-
84977623941
-
-
Las Vegas: Proceedings of BIOCOMP12
-
Price JC, Udall JA, Bodily PM, Ward JA, Schatz MC, Page JT, Jensen JD, Snell QO, Clement MJ. De novo identification of "heterotigs" towards accurate and in-phase assembly of complex plant genomes 2012, Las Vegas: Proceedings of BIOCOMP12.
-
(2012)
De novo identification of "heterotigs" towards accurate and in-phase assembly of complex plant genomes
-
-
Price, J.C.1
Udall, J.A.2
Bodily, P.M.3
Ward, J.A.4
Schatz, M.C.5
Page, J.T.6
Jensen, J.D.7
Snell, Q.O.8
Clement, M.J.9
-
15
-
-
77957560949
-
The genome of the domesticated apple (Malus domestica Borkh.)
-
10.1038/ng.654, 20802477
-
Velasco R, Zharkikh A, Affourtit J, Dhingra A, Cestaro A, Kalyanaraman A, Fontana P, Bhatnagar SK, Troggio M, Pruss D, et al. The genome of the domesticated apple (Malus domestica Borkh.). Nat Genet 2010, 42:833-839. 10.1038/ng.654, 20802477.
-
(2010)
Nat Genet
, vol.42
, pp. 833-839
-
-
Velasco, R.1
Zharkikh, A.2
Affourtit, J.3
Dhingra, A.4
Cestaro, A.5
Kalyanaraman, A.6
Fontana, P.7
Bhatnagar, S.K.8
Troggio, M.9
Pruss, D.10
-
16
-
-
79952178131
-
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
-
10.1073/pnas.1017351108, 3029755, 21187386
-
Gnerre S, Maccallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, Sharpe T, Hall G, Shea TP, Sykes S, et al. High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci USA 2011, 108:1513-1508. 10.1073/pnas.1017351108, 3029755, 21187386.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 1513-11508
-
-
Gnerre, S.1
Maccallum, I.2
Przybylski, D.3
Ribeiro, F.J.4
Burton, J.N.5
Walker, B.J.6
Sharpe, T.7
Hall, G.8
Shea, T.P.9
Sykes, S.10
-
17
-
-
84871329875
-
How important are transposons for plant evolution?
-
Lisch D. How important are transposons for plant evolution?. Nat Rev Genet 2012, 14:49-61.
-
(2012)
Nat Rev Genet
, vol.14
, pp. 49-61
-
-
Lisch, D.1
-
18
-
-
84858118265
-
Transposable elements are a major cause of somatic polymorphism in Vitis vinifera L
-
10.1371/journal.pone.0032973, 3299709, 22427919
-
Carrier G, Cunff LL, Dereeper A, Legrand D, Sabot F, Bouchez O, Audeguin L, Boursiquot J-M, This P, Schonbach C, et al. Transposable elements are a major cause of somatic polymorphism in Vitis vinifera L. PLoS ONE 2012, 7:e32973. 10.1371/journal.pone.0032973, 3299709, 22427919.
-
(2012)
PLoS ONE
, vol.7
-
-
Carrier, G.1
Cunff, L.L.2
Dereeper, A.3
Legrand, D.4
Sabot, F.5
Bouchez, O.6
Audeguin, L.7
Boursiquot, J.-M.8
This, P.9
Schonbach, C.10
-
19
-
-
79961181124
-
Structural variation in two human genomes mapped at single-nucleotide resolution by whole genome de novo assembly
-
10.1038/nbt.1904, 21785424
-
Li Y, Zheng H, Luo R, Wu H, Zhu H, Li R, Cao H, Wu B, Huang S, Shao H, et al. Structural variation in two human genomes mapped at single-nucleotide resolution by whole genome de novo assembly. Nat Biotechnol 2011, 29:723-730. 10.1038/nbt.1904, 21785424.
-
(2011)
Nat Biotechnol
, vol.29
, pp. 723-730
-
-
Li, Y.1
Zheng, H.2
Luo, R.3
Wu, H.4
Zhu, H.5
Li, R.6
Cao, H.7
Wu, B.8
Huang, S.9
Shao, H.10
-
20
-
-
33845618112
-
The molecular genetics of crop domestication
-
10.1016/j.cell.2006.12.006, 17190597
-
Doebley JF, Gaut BS, Smith BD. The molecular genetics of crop domestication. Cell 2006, 127:1309-1321. 10.1016/j.cell.2006.12.006, 17190597.
-
(2006)
Cell
, vol.127
, pp. 1309-1321
-
-
Doebley, J.F.1
Gaut, B.S.2
Smith, B.D.3
-
21
-
-
34249672111
-
A genetic analysis of seed and berry weight in grapevine
-
10.1139/g06-122, 17426772
-
Cabezas JA, Cervera MT, Ruiz-García L, Carreño J, Martínez-Zapater JM. A genetic analysis of seed and berry weight in grapevine. Genome 2006, 49:1572-1585. 10.1139/g06-122, 17426772.
-
(2006)
Genome
, vol.49
, pp. 1572-1585
-
-
Cabezas, J.A.1
Cervera, M.T.2
Ruiz-García, L.3
Carreño, J.4
Martínez-Zapater, J.M.5
-
22
-
-
0036935197
-
Genetic mapping of grapevine (Vitis vinifera L.) applied to the detection of QTLs for seedlessness and berry weight
-
10.1007/s00122-002-0951-z, 12582493
-
Doligez A, Bouquet A, Danglot Y, Lahogue F, Riaz S, Meredith P, Edwards J, This P. Genetic mapping of grapevine (Vitis vinifera L.) applied to the detection of QTLs for seedlessness and berry weight. Theor Appl Genet 2002, 105:780-795. 10.1007/s00122-002-0951-z, 12582493.
-
(2002)
Theor Appl Genet
, vol.105
, pp. 780-795
-
-
Doligez, A.1
Bouquet, A.2
Danglot, Y.3
Lahogue, F.4
Riaz, S.5
Meredith, P.6
Edwards, J.7
This, P.8
-
23
-
-
23944505767
-
QTL analysis for fruit yield components in table grapes (Vitis vinifera)
-
10.1007/s00122-005-2016-6, 15995866
-
Fanizza G, Lamaj F, Costantini L, Chaabane R, Grando MS. QTL analysis for fruit yield components in table grapes (Vitis vinifera). Theor Appl Genet 2005, 111:658-664. 10.1007/s00122-005-2016-6, 15995866.
-
(2005)
Theor Appl Genet
, vol.111
, pp. 658-664
-
-
Fanizza, G.1
Lamaj, F.2
Costantini, L.3
Chaabane, R.4
Grando, M.S.5
-
24
-
-
79953119232
-
Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine
-
10.1186/1471-2229-11-57, 3076230, 21447172
-
Mejía N, Soto B, Guerrero M, Casanueva X, Houel C, Miccono MA, Ramos R, Cunff LL, Boursiquot J-M, Hinrichsen P, et al. Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine. BMC Plant Biol 2011, 11:57. 10.1186/1471-2229-11-57, 3076230, 21447172.
-
(2011)
BMC Plant Biol
, vol.11
, pp. 57
-
-
Mejía, N.1
Soto, B.2
Guerrero, M.3
Casanueva, X.4
Houel, C.5
Miccono, M.A.6
Ramos, R.7
Cunff, L.L.8
Boursiquot, J.-M.9
Hinrichsen, P.10
-
26
-
-
38849198020
-
Identification of QTLs for seedlessness, berry size, and ripening date in a seedless x seedless table grape progeny
-
Mejía N, Gebauer M, Muñoz L, Hewstone N, Muñoz C, Hinrichsen P. Identification of QTLs for seedlessness, berry size, and ripening date in a seedless x seedless table grape progeny. Am J Enol Vitic 2007, 58:499-507.
-
(2007)
Am J Enol Vitic
, vol.58
, pp. 499-507
-
-
Mejía, N.1
Gebauer, M.2
Muñoz, L.3
Hewstone, N.4
Muñoz, C.5
Hinrichsen, P.6
-
27
-
-
62949125843
-
Genetic relationships among table-grape varieties
-
Ibáñez J, Vargas AM, Palancar M, Borrego J, de Andrés MT. Genetic relationships among table-grape varieties. Am J Enol Vitic 2009, 60:35-42.
-
(2009)
Am J Enol Vitic
, vol.60
, pp. 35-42
-
-
Ibáñez, J.1
Vargas, A.M.2
Palancar, M.3
Borrego, J.4
de Andrés, M.T.5
-
28
-
-
71049134771
-
Pedigrees of fifty table-grape cultivars
-
Vargas AM, Teresa de Andrés M, Borrego J, Ibáñez J. Pedigrees of fifty table-grape cultivars. Am J Enol Vitic 2009, 60:525-532.
-
(2009)
Am J Enol Vitic
, vol.60
, pp. 525-532
-
-
Vargas, A.M.1
Teresa de Andrés, M.2
Borrego, J.3
Ibáñez, J.4
-
29
-
-
79960177288
-
Polyphenolic profiles detected in the ripe berries of Vitis vinifera germplasm
-
Liang Z, Owens CL, Zhong G-Y, Cheng L. Polyphenolic profiles detected in the ripe berries of Vitis vinifera germplasm. Food Chem 2011, 129:940-950.
-
(2011)
Food Chem
, vol.129
, pp. 940-950
-
-
Liang, Z.1
Owens, C.L.2
Zhong, G.-Y.3
Cheng, L.4
-
30
-
-
77956828564
-
Rice structural variation: a comparative analysis of structural variation between rice and three of its closest relatives in the genus Oryza
-
10.1111/j.1365-313X.2010.04293.x, 20626650
-
Hurwitz BL, Kudrna D, Yu Y, Sebastian A, Zuccolo A, Jackson SA, Ware D, Wing RA, Stein L. Rice structural variation: a comparative analysis of structural variation between rice and three of its closest relatives in the genus Oryza. Plant J 2010, 63:990-1003. 10.1111/j.1365-313X.2010.04293.x, 20626650.
-
(2010)
Plant J
, vol.63
, pp. 990-1003
-
-
Hurwitz, B.L.1
Kudrna, D.2
Yu, Y.3
Sebastian, A.4
Zuccolo, A.5
Jackson, S.A.6
Ware, D.7
Wing, R.A.8
Stein, L.9
-
31
-
-
84863121835
-
Identification of genome-wide variations among three elite restorer lines for hybrid-rice
-
10.1371/journal.pone.0030952, 3285608, 22383984
-
Li S, Wang S, Deng Q, Zheng A, Zhu J, Liu H, Wang L, Gao F, Zou T, Huang B, et al. Identification of genome-wide variations among three elite restorer lines for hybrid-rice. PLoS ONE 2012, 7:e30952. 10.1371/journal.pone.0030952, 3285608, 22383984.
-
(2012)
PLoS ONE
, vol.7
-
-
Li, S.1
Wang, S.2
Deng, Q.3
Zheng, A.4
Zhu, J.5
Liu, H.6
Wang, L.7
Gao, F.8
Zou, T.9
Huang, B.10
-
32
-
-
73649121258
-
Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content
-
10.1371/journal.pgen.1000734, 2780416, 19956538
-
Springer NM, Ying K, Fu Y, Ji T, Yeh C-T, Jia Y, Wu W, Richmond T, Kitzman J, Rosenbaum H, et al. Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content. PLoS Genet 2009, 5:e1000734. 10.1371/journal.pgen.1000734, 2780416, 19956538.
-
(2009)
PLoS Genet
, vol.5
-
-
Springer, N.M.1
Ying, K.2
Fu, Y.3
Ji, T.4
Yeh, C.-T.5
Jia, Y.6
Wu, W.7
Richmond, T.8
Kitzman, J.9
Rosenbaum, H.10
-
33
-
-
84861826112
-
Towards the adaptation of grapevine varieties to climate change: QTLs and candidate genes for developmental stages
-
10.1007/s00122-011-1734-1, 22052019
-
Duchêne E, Butterlin G, Dumas V, Merdinoglu D. Towards the adaptation of grapevine varieties to climate change: QTLs and candidate genes for developmental stages. Theor Appl Genet 2012, 124:623-635. 10.1007/s00122-011-1734-1, 22052019.
-
(2012)
Theor Appl Genet
, vol.124
, pp. 623-635
-
-
Duchêne, E.1
Butterlin, G.2
Dumas, V.3
Merdinoglu, D.4
-
34
-
-
84866734994
-
Marker assisted selection for seedlessness in table grape breeding
-
Karaagac E, Vargas AM, TeresaDe Andres M, Carreno I, Ibáñez J, Carreño J, Martínez-Zapater JM, Cabezas JA. Marker assisted selection for seedlessness in table grape breeding. Tree Genet Genomes 2012, 8:1003-1015.
-
(2012)
Tree Genet Genomes
, vol.8
, pp. 1003-1015
-
-
Karaagac, E.1
Vargas, A.M.2
TeresaDe Andres, M.3
Carreno, I.4
Ibáñez, J.5
Carreño, J.6
Martínez-Zapater, J.M.7
Cabezas, J.A.8
-
36
-
-
84891896724
-
-
IASMA database http://genomics.research.iasma.it.
-
IASMA database
-
-
-
37
-
-
84891900077
-
-
Repbase http://www.girinst.org/repbase.
-
Repbase
-
-
-
38
-
-
19944427794
-
Development of a standard set of microsatellite reference alleles for identification of grape cultivars
-
10.1007/s00122-004-1760-3, 15565426
-
This P, Jung A, Boccacci P, Borrego J, Botta R, Costantini L, Crespan M, Dangl G, Eisenheld C, Ferreira-Monteiro F, et al. Development of a standard set of microsatellite reference alleles for identification of grape cultivars. Theor Appl Genet 2004, 109:1448-1458. 10.1007/s00122-004-1760-3, 15565426.
-
(2004)
Theor Appl Genet
, vol.109
, pp. 1448-1458
-
-
This, P.1
Jung, A.2
Boccacci, P.3
Borrego, J.4
Botta, R.5
Costantini, L.6
Crespan, M.7
Dangl, G.8
Eisenheld, C.9
Ferreira-Monteiro, F.10
-
39
-
-
78649358717
-
Quake: quality-aware detection and correction of sequencing errors
-
Kelley DR, Schatz MC, Salzberg SL. Quake: quality-aware detection and correction of sequencing errors. Genome Bio 2010, 11:R116.
-
(2010)
Genome Bio
, vol.11
-
-
Kelley, D.R.1
Schatz, M.C.2
Salzberg, S.L.3
-
40
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
10.1093/bioinformatics/btp324, 2705234, 19451168
-
Li H, Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 2009, 25:1754-1760. 10.1093/bioinformatics/btp324, 2705234, 19451168.
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
41
-
-
79957932376
-
Dindel: accurate indel calls from short-read data
-
10.1101/gr.112326.110, 3106329, 20980555
-
Albers CA, Lunter G, MacArthur DG, McVean G, Ouwehand WH, Durbin R. Dindel: accurate indel calls from short-read data. Genome Res 2011, 21:961-973. 10.1101/gr.112326.110, 3106329, 20980555.
-
(2011)
Genome Res
, vol.21
, pp. 961-973
-
-
Albers, C.A.1
Lunter, G.2
MacArthur, D.G.3
McVean, G.4
Ouwehand, W.H.5
Durbin, R.6
-
42
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, Antonescu C, Salzberg SL. Versatile and open software for comparing large genomes. Genome Bio 2004, 5:R12.
-
(2004)
Genome Bio
, vol.5
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.L.3
Smoot, M.4
Shumway, M.5
Antonescu, C.6
Salzberg, S.L.7
-
44
-
-
69549116107
-
BreakDancer: an algorithm for high-resolution mapping of genomic structural variation
-
10.1038/nmeth.1363, 3661775, 19668202
-
Chen K, Wallis JW, McLellan MD, Larson DE, Kalicki JM, Pohl CS, McGrath SD, Wendl MC, Zhang Q, Locke DP, et al. BreakDancer: an algorithm for high-resolution mapping of genomic structural variation. Nat Methods 2009, 6:677-681. 10.1038/nmeth.1363, 3661775, 19668202.
-
(2009)
Nat Methods
, vol.6
, pp. 677-681
-
-
Chen, K.1
Wallis, J.W.2
McLellan, M.D.3
Larson, D.E.4
Kalicki, J.M.5
Pohl, C.S.6
McGrath, S.D.7
Wendl, M.C.8
Zhang, Q.9
Locke, D.P.10
-
45
-
-
68549104404
-
The sequence alignment/map format and SAMtools
-
10.1093/bioinformatics/btp352, 2723002, 19505943
-
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R, Subgroup GPDP, et al. The sequence alignment/map format and SAMtools. Bioinformatics 2009, 25:2078-2079. 10.1093/bioinformatics/btp352, 2723002, 19505943.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
Marth, G.7
Abecasis, G.8
Durbin, R.9
Subgroup, G.P.D.P.10
-
46
-
-
84862506964
-
A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3
-
10.4161/fly.19695, 3679285, 22728672
-
Cingolani P, Platts A, Wang LL, Coon M, Nguyen T, Wang L, Land SJ, Lu X, Ruden DM. A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly 2012, 6:80-92. 10.4161/fly.19695, 3679285, 22728672.
-
(2012)
Fly
, vol.6
, pp. 80-92
-
-
Cingolani, P.1
Platts, A.2
Wang, L.L.3
Coon, M.4
Nguyen, T.5
Wang, L.6
Land, S.J.7
Lu, X.8
Ruden, D.M.9
-
47
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Bio 2009, 10:R25.
-
(2009)
Genome Bio
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
48
-
-
79960405019
-
The variant call format and VCFtools
-
10.1093/bioinformatics/btr330, 3137218, 21653522
-
Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA, Handsaker RE, Lunter G, Marth GT, Sherry ST, et al. The variant call format and VCFtools. Bioinformatics 2011, 27:2156-2158. 10.1093/bioinformatics/btr330, 3137218, 21653522.
-
(2011)
Bioinformatics
, vol.27
, pp. 2156-2158
-
-
Danecek, P.1
Auton, A.2
Abecasis, G.3
Albers, C.A.4
Banks, E.5
DePristo, M.A.6
Handsaker, R.E.7
Lunter, G.8
Marth, G.T.9
Sherry, S.T.10
-
49
-
-
40049091292
-
Using native and syntenically mapped cDNA alignments to improve de novo gene finding
-
10.1093/bioinformatics/btn013, 18218656
-
Stanke M, Diekhans M, Baertsch R, Haussler D. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics 2008, 24:637-644. 10.1093/bioinformatics/btn013, 18218656.
-
(2008)
Bioinformatics
, vol.24
, pp. 637-644
-
-
Stanke, M.1
Diekhans, M.2
Baertsch, R.3
Haussler, D.4
-
50
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J. Mol. Biol 1990, 3:403-410.
-
(1990)
J. Mol. Biol
, vol.3
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
51
-
-
23144458473
-
InterProScan: protein domains identifier
-
10.1093/nar/gki442, 1160203, 15980438
-
Quevillon E, Silventoinen V, Pillai S, Harte N, Mulder N, Apweiler R, López R. InterProScan: protein domains identifier. Nucleic Acids Res 2005, 33:W116-W120. 10.1093/nar/gki442, 1160203, 15980438.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Quevillon, E.1
Silventoinen, V.2
Pillai, S.3
Harte, N.4
Mulder, N.5
Apweiler, R.6
López, R.7
-
52
-
-
18744383071
-
GMAP: a genomic mapping and alignment program for mRNA and EST sequences
-
10.1093/bioinformatics/bti310, 15728110
-
Wu TD, Watanabe CK. GMAP: a genomic mapping and alignment program for mRNA and EST sequences. Bioinformatics 2005, 21:1859-1875. 10.1093/bioinformatics/bti310, 15728110.
-
(2005)
Bioinformatics
, vol.21
, pp. 1859-1875
-
-
Wu, T.D.1
Watanabe, C.K.2
-
53
-
-
84891897686
-
-
AgriGO tool http://bioinfo.cau.edu.cn/agriGO.
-
AgriGO tool
-
-
-
55
-
-
21344498791
-
A simple and efficient method for DNA extraction from grapevine cultivars and Vitis species
-
Lodhi MA, Ye GN, Weeden NF, Reisch BI. A simple and efficient method for DNA extraction from grapevine cultivars and Vitis species. Plant Mol Biol Rep 1994, 12:6-13.
-
(1994)
Plant Mol Biol Rep
, vol.12
, pp. 6-13
-
-
Lodhi, M.A.1
Ye, G.N.2
Weeden, N.F.3
Reisch, B.I.4
-
56
-
-
0019302053
-
Construction of a genetic linkage map in man using restriction fragment length polymorphisms
-
1686077, 6247908
-
Botstein D, White RL, Skolnick M, Davis RW. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Hum Genet 1980, 32:314-331. 1686077, 6247908.
-
(1980)
Am J Hum Genet
, vol.32
, pp. 314-331
-
-
Botstein, D.1
White, R.L.2
Skolnick, M.3
Davis, R.W.4
-
57
-
-
84862832825
-
Development and application of a set of breeder-friendly SNP markers for genetic analyses and molecular breeding of rice (Oryza sativa L.)
-
10.1007/s00122-011-1633-5, 21681488
-
Chen H, He H, Zou Y, Chen W, Yu R, Liu X, Yang Y, Gao YM, Xu JL, Fan LM, Li Y, Li ZK, Deng XW. Development and application of a set of breeder-friendly SNP markers for genetic analyses and molecular breeding of rice (Oryza sativa L.). Theor Appl Genet 2011, 123:869-879. 10.1007/s00122-011-1633-5, 21681488.
-
(2011)
Theor Appl Genet
, vol.123
, pp. 869-879
-
-
Chen, H.1
He, H.2
Zou, Y.3
Chen, W.4
Yu, R.5
Liu, X.6
Yang, Y.7
Gao, Y.M.8
Xu, J.L.9
Fan, L.M.10
Li, Y.11
Li, Z.K.12
Deng, X.W.13
|