-
1
-
-
84978218359
-
1,135 Genomes reveal the global pattern of polymorphism in Arabidopsis thaliana
-
Genomes Consortium (2016). 1,135 Genomes reveal the global pattern of polymorphism in Arabidopsis thaliana. Cell 166: 481-491.
-
(2016)
Cell
, vol.166
, pp. 481-491
-
-
-
2
-
-
34547137028
-
The Bonferonni and Sidák corrections for multiple comparisons. Encycl
-
Abdi, H. (2007). The Bonferonni and Sidák corrections for multiple comparisons. Encycl. Meas. Stat. 3: 103-107.
-
(2007)
Meas. Stat.
, vol.3
, pp. 103-107
-
-
Abdi, H.1
-
3
-
-
84901587064
-
Model selection for ecologists: The worldviews of AIC and BIC
-
Aho, K., Derryberry, D., and Peterson, T. (2014). Model selection for ecologists: the worldviews of AIC and BIC. Ecology 95: 631-636.
-
(2014)
Ecology
, vol.95
, pp. 631-636
-
-
Aho, K.1
Derryberry, D.2
Peterson, T.3
-
4
-
-
84873701087
-
International Consortium for Blood Pressure GWAS; Diabetes Genetics Replication and Meta-analysis Consortium; Psychiatric Genomics Consortium Schizophrenia Working Group (2013) Improved detection of common variants asso- ciated with schizophrenia by leveraging pleiotropy with cardiovascular-disease risk factors
-
Andreassen, O.A., et al.; International Consortium for Blood Pressure GWAS; Diabetes Genetics Replication and Meta-analysis Consortium; Psychiatric Genomics Consortium Schizophrenia Working Group (2013) Improved detection of common variants asso- ciated with schizophrenia by leveraging pleiotropy with cardiovascular-disease risk factors. Am. J. Hum. Genet. 92: 197-209.
-
Am. J. Hum. Genet.
, vol.92
, pp. 197-209
-
-
Andreassen, O.A.1
-
5
-
-
84905591635
-
Noncoding transcription byalternative RNA polymerases dynamically regulates an auxin-driven chromatin loop
-
Ariel, F., Jegu, T., Latrasse, D., Romero-Barrios, N., Christ, A., Benhamed, M., and Crespi, M. (2014). Noncoding transcription by alternative RNA polymerases dynamically regulates an auxin-driven chromatin loop. Mol. Cell 55: 383-396.
-
(2014)
Mol. Cell
, vol.55
, pp. 383-396
-
-
Ariel, F.1
Jegu, T.2
Latrasse, D.3
Romero-Barrios, N.4
Christ, A.5
Benhamed, M.6
Crespi, M.7
-
6
-
-
84966559388
-
FlyBase: Establishing a Gene Group resource for Drosophila melanogaster
-
Attrill, H., Falls, K., Goodman, J.L., Millburn, G.H., Antonazzo, G., Rey, A.J., and Marygold, S.J.; FlyBase Consortium (2016). FlyBase: establishing a Gene Group resource for Drosophila melanogaster. Nucleic Acids Res. 44 (D1): D786-D792.
-
(2016)
Nucleic Acids Res
, vol.44
, Issue.D1
, pp. D786-D792
-
-
Attrill, H.1
Falls, K.2
Goodman, J.L.3
Millburn, G.H.4
Antonazzo, G.5
Rey, A.J.6
Marygold, S.J.7
-
7
-
-
77953233453
-
Genome-wide association study of 107 phe- notypes in Arabidopsis thaliana inbred lines
-
Atwell, S., et al. (2010). Genome-wide association study of 107 phe- notypes in Arabidopsis thaliana inbred lines. Nature 465: 627-631.
-
(2010)
Nature
, vol.465
, pp. 627-631
-
-
Atwell, S.1
-
8
-
-
84879900677
-
Efficient network-guided multi-locus as-sociation mapping with graph cuts
-
Azencott, C.-A., Grimm, D., Sugiyama, M., Kawahara, Y., and Borgwardt, K.M. (2013). Efficient network-guided multi-locus as-sociation mapping with graph cuts. Bioinformatics 29: i171-i179.
-
(2013)
Bioinformatics
, vol.29
, pp. i171-i179
-
-
Azencott, C.-A.1
Grimm, D.2
Sugiyama, M.3
Kawahara, Y.4
Borgwardt, K.M.5
-
9
-
-
85012209691
-
Controlling the false dis-covery rate: A practical and powerful approach to multiple testing
-
Benjamini, Y., and Hochberg, Y. (1995). Controlling the false dis- covery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B Methodol. 57: 289-300.
-
(1995)
J. R. Stat. Soc. Ser. B Methodol
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
10
-
-
0035733108
-
The control of the false dis- covery rate in multiple testing under dependency
-
Benjamini, Y., and Yekutieli, D. (2001). The control of the false dis- covery rate in multiple testing under dependency. Ann. Stat. 29: 1165-1188.
-
(2001)
Ann. Stat
, vol.29
, pp. 1165-1188
-
-
Benjamini, Y.1
Yekutieli, D.2
-
11
-
-
85101510947
-
A basic introduction to fixed-effect and random-effects models for meta-analysis
-
Borenstein, M., Hedges, L.V., Higgins, J.P.T., and Rothstein, H.R. (2010). A basic introduction to fixed-effect and random-effects models for meta-analysis. Res. Synth. Methods 1: 97-111.
-
(2010)
Res. Synth. Methods
, vol.1
, pp. 97-111
-
-
Borenstein, M.1
Hedges, L.V.2
Higgins, J.P.T.3
Rothstein, H.R.4
-
12
-
-
84889351499
-
-
(Chichester, UK: John Wiley & Sons
-
Borenstein, M., Hedges, L.V., Higgins, J.P.T., and Rothstein, H.R. (2011). Introduction to Meta-Analysis. (Chichester, UK: John Wiley & Sons)
-
(2011)
Introduction to Meta-Analysis
-
-
Borenstein, M.1
Hedges, L.V.2
Higgins, J.P.T.3
Rothstein, H.R.4
-
13
-
-
0000133998
-
An analysis of transformations
-
Box, G.E.P., and Cox, D.R. (1964). An analysis of transformations. J. R. Stat. Soc. B 26: 211-252.
-
(1964)
J. R. Stat. Soc. B
, vol.26
, pp. 211-252
-
-
Box, G.E.P.1
Cox, D.R.2
-
15
-
-
84872040426
-
Chapter 11: Genome-wide as- sociation studies
-
Bush, W.S., and Moore, J.H. (2012). Chapter 11: Genome-wide as- sociation studies. PLOS Comput. Biol. 8: e1002822.
-
(2012)
PLOS Comput. Biol.
, vol.8
, pp. 2822
-
-
Bush, W.S.1
Moore, J.H.2
-
16
-
-
80053384429
-
Whole-genome sequencing of multiple Arabi- dopsis thaliana populations
-
Cao, J., et al. (2011). Whole-genome sequencing of multiple Arabi- dopsis thaliana populations. Nat. Genet. 43: 956-963.
-
(2011)
Nat. Genet.
, vol.43
, pp. 956-963
-
-
Cao, J.1
-
17
-
-
79959721099
-
Genome-wide association study reveals three susceptibility loci for common migraine in the general pop- ulation
-
Chasman, D.I., et al. (2011). Genome-wide association study reveals three susceptibility loci for common migraine in the general pop- ulation. Nat. Genet. 43: 695-698.
-
(2011)
Nat. Genet.
, vol.43
, pp. 695-698
-
-
Chasman, D.I.1
-
18
-
-
84859356670
-
Matapax: An online high-throughput genome-wide association study pipeline
-
Childs, L.H., Lisec, J., and Walther, D. (2012). Matapax: an online high-throughput genome-wide association study pipeline. Plant Physiol. 158: 1534-1541.
-
(2012)
Plant Physiol
, vol.158
, pp. 1534-1541
-
-
Childs, L.H.1
Lisec, J.2
Walther, D.3
-
19
-
-
25144501575
-
Genetic association studies
-
Cordell, H.J., and Clayton, D.G. (2005). Genetic association studies. Lancet 366: 1121-1131.
-
(2005)
Lancet
, vol.366
, pp. 1121-1131
-
-
Cordell, H.J.1
Clayton, D.G.2
-
20
-
-
84858843257
-
Expression variation in connected re- combinant populations of Arabidopsis thaliana highlights distinct transcriptome architectures
-
Cubillos, F.A., et al. (2012). Expression variation in connected re- combinant populations of Arabidopsis thaliana highlights distinct transcriptome architectures. BMC Genomics 13: 117.
-
(2012)
BMC Genomics
, vol.13
, pp. 117
-
-
Cubillos, F.A.1
-
21
-
-
0032714352
-
Genomic control for association studies
-
Devlin, B., and Roeder, K. (1999). Genomic control for association studies. Biometrics 55: 997-1004.
-
(1999)
Biometrics
, vol.55
, pp. 997-1004
-
-
Devlin, B.1
Roeder, K.2
-
22
-
-
84878020180
-
Meta-analysis methods for genome-wide association studies and beyond
-
Evangelou, E., and Ioannidis, J.P.A. (2013). Meta-analysis methods for genome-wide association studies and beyond. Nat. Rev. Genet. 14: 379-389.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 379-389
-
-
Evangelou, E.1
Ioannidis, J.P.A.2
-
23
-
-
84859261348
-
A genome-wide association study identifies variants underlying the Arabidopsis thaliana shade avoidance response
-
Filiault, D.L., and Maloof, J.N. (2012). A genome-wide association study identifies variants underlying the Arabidopsis thaliana shade avoidance response. PLoS Genet. 8: e1002589.
-
(2012)
Plos Genet
, vol.8
, pp. 2589
-
-
Filiault, D.L.1
Maloof, J.N.2
-
24
-
-
85012172375
-
-
Statistical Methods for Research Workers
-
Fisher, R.A. (1925). Statistical Methods for Research Workers. (Genesis Publishing).
-
(1925)
-
-
Fisher, R.A.1
-
25
-
-
78649489009
-
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn’s disease susceptibility loci
-
Franke, A., et al. (2010). Genome-wide meta-analysis increases to 71 the number of confirmed Crohn’s disease susceptibility loci. Nat. Genet. 42: 1118-1125.
-
(2010)
Nat.
, vol.42
, pp. 1118-1125
-
-
Franke, A.1
-
26
-
-
84862976129
-
International Headache Genetics Consortium (2012) Genome-wide association analysis identifies susceptibility loci for migraine without aura
-
Freilinger, T., et al.; International Headache Genetics Consortium (2012) Genome-wide association analysis identifies susceptibility loci for migraine without aura. Nat. Genet. 44: 777-782.
-
Nat. Genet.
, vol.44
, pp. 777-782
-
-
Freilinger, T.1
-
27
-
-
2442506814
-
Quantitative trait loci affecting starvation resistance in Drosophila melanogaster
-
Harbison, S.T., Yamamoto, A.H., Fanara, J.J., Norga, K.K., and Mackay, T.F.C. (2004). Quantitative trait loci affecting starvation resistance in Drosophila melanogaster. Genetics 166: 1807-1823.
-
(2004)
Genetics
, vol.166
, pp. 1807-1823
-
-
Harbison, S.T.1
Yamamoto, A.H.2
Fanara, J.J.3
Norga, K.K.4
Mackay, T.F.C.5
-
28
-
-
0003684449
-
-
2nd ed. (New York: Springer)
-
Hastie, T., Tibshirani, R., and Friedman, J. (2009). The Elements of Statistical Learning: Data Mining, Inference, and Prediction, 2nd ed. (New York: Springer).
-
(2009)
The Elements of Statistical Learning: Data Mining, Inference, and Prediction
-
-
Hastie, T.1
Tibshirani, R.2
Friedman, J.3
-
29
-
-
65249179516
-
Increased accuracy of artificial selection by using the realized relationship matrix
-
Hayes, B.J., Visscher, P.M., and Goddard, M.E. (2009). Increased accuracy of artificial selection by using the realized relationship matrix. Genet. Res. 91: 47-60.
-
(2009)
Genet. Res.
, vol.91
, pp. 47-60
-
-
Hayes, B.J.1
Visscher, P.M.2
Goddard, M.E.3
-
30
-
-
84856270364
-
Genome-wide patterns of genetic varia- tion in worldwide Arabidopsis thaliana accessions from the RegMap panel. Nat
-
Horton, M.W., et al. (2012). Genome-wide patterns of genetic varia- tion in worldwide Arabidopsis thaliana accessions from the RegMap panel. Nat. Genet. 44: 212-216.
-
(2012)
Genet
, vol.44
, pp. 212-216
-
-
Horton, M.W.1
-
31
-
-
84963770510
-
DELAY OF GERMINATION1 (DOG1) regulates both seed dormancy and flowering time through microRNA pathways
-
Huo, H., Wei, S., and Bradford, K.J. (2016). DELAY OF GERMINATION1 (DOG1) regulates both seed dormancy and flowering time through microRNA pathways. Proc. Natl. Acad. Sci. USA 113: E2199-E2206.
-
(2016)
Proc. Natl. Acad. Sci. USA
, vol.113
, pp. E2199-E2206
-
-
Huo, H.1
Wei, S.2
Bradford, K.J.3
-
32
-
-
85027944044
-
Nucleotide polymorphism affecting FLC ex- pression underpins heading date variation in horticultural brassicas
-
Irwin, J.A., Soumpourou, E., Lister, C., Ligthart, J.-D., Kennedy, S., and Dean, C. (2016). Nucleotide polymorphism affecting FLC ex- pression underpins heading date variation in horticultural brassicas. Plant J. 87: 597-605.
-
(2016)
Plant J
, vol.87
, pp. 597-605
-
-
Irwin, J.A.1
Soumpourou, E.2
Lister, C.3
Ligthart, J.-D.4
Kennedy, S.5
Dean, C.6
-
33
-
-
37249014088
-
Quantitative genomics of locomotor behavior in Drosophila melanogaster
-
Jordan, K.W., Carbone, M.A., Yamamoto, A., Morgan, T.J., and Mackay, T.F. (2007). Quantitative genomics of locomotor behavior in Drosophila melanogaster. Genome Biol. 8: R172.
-
(2007)
Genome Biol
, vol.8
, pp. 172
-
-
Jordan, K.W.1
Carbone, M.A.2
Yamamoto, A.3
Morgan, T.J.4
Mackay, T.F.5
-
34
-
-
77950301214
-
Variance com- ponent model to account for sample structure in genome-wide association studies
-
Kang, H.M., Sul, J.H., Service, S.K., Zaitlen, N.A., Kong, S.Y., Freimer, N.B., Sabatti, C., and Eskin, E. (2010). Variance com- ponent model to account for sample structure in genome-wide association studies. Nat. Genet. 42: 348-354.
-
(2010)
Nat. Genet.
, vol.42
, pp. 348-354
-
-
Kang, H.M.1
Sul, J.H.2
Service, S.K.3
Zaitlen, N.A.4
Kong, S.Y.5
Freimer, N.B.6
Sabatti, C.7
Eskin, E.8
-
35
-
-
45149105926
-
Efficient control of population structure in model organism association mapping
-
Kang, H.M., Zaitlen, N.A., Wade, C.M., Kirby, A., Heckerman, D., Daly, M.J., and Eskin, E. (2008). Efficient control of population structure in model organism association mapping. Genetics 178: 1709-1723.
-
(2008)
Genetics
, vol.178
, pp. 1709-1723
-
-
Kang, H.M.1
Zaitlen, N.A.2
Wade, C.M.3
Kirby, A.4
Heckerman, D.5
Daly, M.J.6
Eskin, E.7
-
36
-
-
78349254248
-
Fine mapping in 94 inbred mouse strains using a high-density haplotype resource
-
Kirby, A., et al. (2010). Fine mapping in 94 inbred mouse strains using a high-density haplotype resource. Genetics 185: 1081-1095.
-
(2010)
Genetics
, vol.185
, pp. 1081-1095
-
-
Kirby, A.1
-
37
-
-
84886773353
-
Natural variation in the ATPS1 isoform of ATP sulfurylase contributes to the control of sulfate levels in Arabidopsis
-
Koprivova, A., Giovannetti, M., Baraniecka, P., Lee, B.-R., Grondin, C., Loudet, O., and Kopriva, S. (2013). Natural variation in the ATPS1 isoform of ATP sulfurylase contributes to the control of sulfate levels in Arabidopsis. Plant Physiol. 163: 1133-1141.
-
(2013)
Plant Physiol
, vol.163
, pp. 1133-1141
-
-
Koprivova, A.1
Giovannetti, M.2
Baraniecka, P.3
Lee, B.-R.4
Grondin, C.5
Loudet, O.6
Kopriva, S.7
-
38
-
-
84865696774
-
A mixed-model approach for genome-wide association studies of correlated traits in structured populations
-
Korte, A., Vilhjálmsson, B.J., Segura, V., Platt, A., Long, Q., and Nordborg, M. (2012). A mixed-model approach for genome-wide association studies of correlated traits in structured populations. Nat. Genet. 44: 1066-1071.
-
(2012)
Nat. Genet.
, vol.44
, pp. 1066-1071
-
-
Korte, A.1
Vilhjálmsson, B.J.2
Segura, V.3
Platt, A.4
Long, Q.5
Nordborg, M.6
-
39
-
-
79952624115
-
Characterization of root cells of anl2 mutant in Arabidopsis thaliana
-
Kubo, H., and Hayashi, K. (2011). Characterization of root cells of anl2 mutant in Arabidopsis thaliana. Plant Sci. 180: 679-685.
-
(2011)
Plant Sci
, vol.180
, pp. 679-685
-
-
Kubo, H.1
Hayashi, K.2
-
40
-
-
84922808438
-
The 3,000 rice genomes project: New opportunities and challenges for future rice research
-
Li, J.-Y., Wang, J., and Zeigler, R.S. (2014). The 3,000 rice genomes project: new opportunities and challenges for future rice research. Gigascience 3: 8.
-
(2014)
Gigascience
, vol.3
, pp. 8
-
-
Li, J.-Y.1
Wang, J.2
Zeigler, R.S.3
-
41
-
-
84905250926
-
Multiple FLC haplotypes de-fined by independent cis-regulatory variation underpin life history diversity in Arabidopsis thaliana
-
Li, P., Filiault, D., Box, M.S., Kerdaffrec, E., van Oosterhout, C., Wilczek, A.M., Schmitt, J., McMullan, M., Bergelson, J., Nordborg, M., and Dean, C. (2014). Multiple FLC haplotypes de-fined by independent cis-regulatory variation underpin life history diversity in Arabidopsis thaliana. Genes Dev. 28: 1635-1640.
-
(2014)
Genes Dev
, vol.28
, pp. 1635-1640
-
-
Li, P.1
Filiault, D.2
Box, M.S.3
Kerdaffrec, E.4
Van Oosterhout, C.5
Wilczek, A.M.6
Schmitt, J.7
McMullan, M.8
Bergelson, J.9
Nordborg, M.10
Dean, C.11
-
42
-
-
84926340190
-
Phenotypic evolution through variation in splicing of the noncoding RNA COOLAIR
-
Li, P., Tao, Z., and Dean, C. (2015). Phenotypic evolution through variation in splicing of the noncoding RNA COOLAIR. Genes Dev. 29: 696-701.
-
(2015)
Genes Dev
, vol.29
, pp. 696-701
-
-
Li, P.1
Tao, Z.2
Dean, C.3
-
43
-
-
71149120793
-
Meta-analysis of genome-wide association studies with overlapping subjects
-
Lin, D.Y., and Sullivan, P.F. (2009). Meta-analysis of genome-wide association studies with overlapping subjects. Am. J. Hum. Genet. 85: 862-872.
-
(2009)
Am. J. Hum. Genet
, vol.85
, pp. 862-872
-
-
Lin, D.Y.1
Sullivan, P.F.2
-
44
-
-
84908689021
-
Genomic analyses provide insights into the his- tory of tomato breeding
-
Lin, T., et al. (2014). Genomic analyses provide insights into the his- tory of tomato breeding. Nat. Genet. 46: 1220-1226.
-
(2014)
Nat. Genet.
, vol.46
, pp. 1220-1226
-
-
Lin, T.1
-
45
-
-
84930657240
-
-
Lippert, C., Casale, F.P., Rakitsch, B., and Stegle, O. (2014). LIMIX: genetic analysis of multiple traits. bioRxiv, 10.1101/003905.
-
(2014)
LIMIX: Genetic analysis of multiple traits
-
-
Lippert, C.1
Casale, F.P.2
Rakitsch, B.3
Stegle, O.4
-
46
-
-
80053372166
-
FaST linear mixed models for genome-wide association studies
-
Lippert, C., Listgarten, J., Liu, Y., Kadie, C.M., Davidson, R.I., and Heckerman, D. (2011). FaST linear mixed models for genome-wide association studies. Nat. Methods 8: 833-835.
-
(2011)
Nat. Methods
, vol.8
, pp. 833-835
-
-
Lippert, C.1
Listgarten, J.2
Liu, Y.3
Kadie, C.M.4
Davidson, R.I.5
Heckerman, D.6
-
47
-
-
84871910383
-
Genome-wide analysis uncovers regulation of long intergenic noncoding RNAs in Arabidopsis
-
Liu, J., Jung, C., Xu, J., Wang, H., Deng, S., Bernad, L., Arenas- Huertero, C., and Chua, N.H. (2012). Genome-wide analysis uncovers regulation of long intergenic noncoding RNAs in Arabidopsis. Plant Cell 24: 4333-4345.
-
(2012)
Plant Cell
, vol.24
, pp. 4333-4345
-
-
Liu, J.1
Jung, C.2
Xu, J.3
Wang, H.4
Deng, S.5
Bernad, L.6
Arenas- Huertero, C.7
Chua, N.H.8
-
48
-
-
84905460096
-
Induced and natural variation of promoter length modulates the photoperiodic response of FLOWERING LOCUS T
-
Liu, L., Adrian, J., Pankin, A., Hu, J., Dong, X., von Korff, M., and Turck, F. (2014). Induced and natural variation of promoter length modulates the photoperiodic response of FLOWERING LOCUS T. Nat. Commun. 5: 4558.
-
(2014)
Nat. Commun.
, vol.5
, pp. 4558
-
-
Liu, L.1
Adrian, J.2
Pankin, A.3
Hu, J.4
Dong, X.5
Von Korff, M.6
Turck, F.7
-
49
-
-
84946096325
-
Genome-wide association study of 29 morpho- logical traits in Aegilops tauschii
-
Liu, Y., Wang, L., Mao, S., Liu, K., Lu, Y., Wang, J., Wei, Y., and Zheng, Y. (2015). Genome-wide association study of 29 morpho- logical traits in Aegilops tauschii. Sci. Rep. 5: 15562.
-
(2015)
Sci. Rep.
, vol.5
, pp. 15562
-
-
Liu, Y.1
Wang, L.2
Mao, S.3
Liu, K.4
Lu, Y.5
Wang, J.6
Wei, Y.7
Zheng, Y.8
-
50
-
-
84931068745
-
Genome- wide detection of intervals of genetic heterogeneity associated with complex traits
-
Llinares-López, F., Grimm, D.G., Bodenham, D.A., Gieraths, U., Sugiyama, M., Rowan, B., and Borgwardt, K. (2015). Genome- wide detection of intervals of genetic heterogeneity associated with complex traits. Bioinformatics 31: i240-i249.
-
(2015)
Bioinformatics
, vol.31
, pp. i240-i249
-
-
Llinares-López, F.1
Grimm, D.G.2
Bodenham, D.A.3
Gieraths, U.4
Sugiyama, M.5
Rowan, B.6
Borgwardt, K.7
-
51
-
-
84881026985
-
Massive genomic variation and strong selec- tion in Arabidopsis thaliana lines from Sweden
-
Long, Q., et al. (2013). Massive genomic variation and strong selec- tion in Arabidopsis thaliana lines from Sweden. Nat. Genet. 45: 884-890.
-
(2013)
Nat. Genet.
, vol.45
, pp. 884-890
-
-
Long, Q.1
-
52
-
-
84863012360
-
The Drosophila melanogaster genetic reference panel
-
Mackay, T.F., et al. (2012). The Drosophila melanogaster genetic reference panel. Nature 482: 173-178.
-
(2012)
Nature
, vol.482
, pp. 173-178
-
-
Mackay, T.F.1
-
53
-
-
84983351580
-
Genomic profiles of diversification and genotype-phenotype association in island nem- atode lineages
-
McGaughran, A., Rödelsperger, C., Grimm, D.G., Meyer, J.M., Moreno, E., Morgan, K., Leaver, M., Serobyan, V., Rakitsch, B., Borgwardt, K.M., and Sommer, R.J. (2016). Genomic profiles of diversification and genotype-phenotype association in island nem- atode lineages. Mol. Biol. Evol. 33: 2257-2272.
-
(2016)
Mol. Biol. Evol.
, vol.33
, pp. 2257-2272
-
-
McGaughran, A.1
Rödelsperger, C.2
Grimm, D.G.3
Meyer, J.M.4
Moreno, E.5
Morgan, K.6
Leaver, M.7
Serobyan, V.8
Rakitsch, B.9
Borgwardt, K.M.10
Sommer, R.J.11
-
54
-
-
84973338712
-
The Ensembl variant effect predictor
-
McLaren, W., Gil, L., Hunt, S.E., Riat, H.S., Ritchie, G.R., Thormann, A., Flicek, P., and Cunningham, F. (2016). The Ensembl variant effect predictor. Genome Biol. 17: 122.
-
(2016)
Genome Biol
, vol.17
, pp. 122
-
-
McLaren, W.1
Gil, L.2
Hunt, S.E.3
Riat, H.S.4
Ritchie, G.R.5
Thormann, A.6
Flicek, P.7
Cunningham, F.8
-
55
-
-
77955405475
-
Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor
-
McLaren, W., Pritchard, B., Rios, D., Chen, Y., Flicek, P., and Cunningham, F. (2010). Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor. Bio-informatics 26: 2069-2070.
-
(2010)
Bio-Informatics
, vol.26
, pp. 2069-2070
-
-
McLaren, W.1
Pritchard, B.2
Rios, D.3
Chen, Y.4
Flicek, P.5
Cunningham, F.6
-
56
-
-
84891372805
-
Genome-wide association study using cellular traits identifies a new regulator of root development in Arabidopsis
-
Meijón, M., Satbhai, S.B., Tsuchimatsu, T., and Busch, W. (2014). Genome-wide association study using cellular traits identifies a new regulator of root development in Arabidopsis. Nat. Genet. 46: 77-81.
-
(2014)
Nat. Genet.
, vol.46
, pp. 81
-
-
Meijón, M.1
Satbhai, S.B.2
Tsuchimatsu, T.3
Busch, W.4
-
57
-
-
84873268756
-
Among- and within-population variation in flowering time of Iberian Arabidopsis thaliana estimated in field and glasshouse conditions
-
Méndez-Vigo, B., Gomaa, N.H., Alonso-Blanco, C., and Picó, F.X. (2013). Among- and within-population variation in flowering time of Iberian Arabidopsis thaliana estimated in field and glasshouse conditions. New Phytol. 197: 1332-1343.
-
(2013)
New Phytol
, vol.197
, pp. 1332-1343
-
-
Méndez-Vigo, B.1
Gomaa, N.H.2
Alonso-Blanco, C.3
Picó, F.X.4
-
58
-
-
84955201328
-
Environmental and genetic interactions reveal FLOWERING LOCUS C as a modulator of the natural variation for the plasticity of flowering in Arabidopsis
-
Méndez-Vigo, B., Savic, M., Ausín, I., Ramiro, M., Martín, B., Picó, F.X., and Alonso-Blanco, C. (2016). Environmental and genetic interactions reveal FLOWERING LOCUS C as a modulator of the natural variation for the plasticity of flowering in Arabidopsis. Plant Cell Environ. 39: 282-294.
-
(2016)
Plant Cell Environ
, vol.39
, pp. 282-294
-
-
Méndez-Vigo, B.1
Savic, M.2
Ausín, I.3
Ramiro, M.4
Martín, B.5
Picó, F.X.6
Alonso-Blanco, C.7
-
59
-
-
0033133554
-
FLOWERING LOCUS C encodes a novel MADS domain protein that acts as a repressor of flowering
-
Michaels, S.D., and Amasino, R.M. (1999). FLOWERING LOCUS C encodes a novel MADS domain protein that acts as a repressor of flowering. Plant Cell 11: 949-956.
-
(1999)
Plant Cell
, vol.11
, pp. 949-956
-
-
Michaels, S.D.1
Amasino, R.M.2
-
60
-
-
0035027844
-
Loss of FLOWERING LOCUS C activity eliminates the late-flowering phenotype of FRIGIDA and autonomous pathway mutations but not responsiveness to ver-nalization
-
Michaels, S.D., and Amasino, R.M. (2001). Loss of FLOWERING LOCUS C activity eliminates the late-flowering phenotype of FRIGIDA and autonomous pathway mutations but not responsiveness to ver-nalization. Plant Cell 13: 935-941.
-
(2001)
Plant Cell
, vol.13
, pp. 935-941
-
-
Michaels, S.D.1
Amasino, R.M.2
-
61
-
-
33644603686
-
Quantitative trait loci for thermotolerance phenotypes in Drosophila melanogaster
-
Morgan, T.J., and Mackay, T.F.C. (2006). Quantitative trait loci for thermotolerance phenotypes in Drosophila melanogaster. Heredity (Edinb.) 96: 232-242.
-
(2006)
Heredity (Edinb.)
, vol.96
, pp. 232-242
-
-
Morgan, T.J.1
Mackay, T.F.C.2
-
62
-
-
57649121742
-
Next-generation genetics in plants
-
Nordborg, M., and Weigel, D. (2008). Next-generation genetics in plants. Nature 456: 720-723.
-
(2008)
Nature
, vol.456
, pp. 720-723
-
-
Nordborg, M.1
Weigel, D.2
-
63
-
-
84968649781
-
Detection and interpretation of shared genetic influences on 42 human traits
-
Pickrell, J.K., Berisa, T., Liu, J.Z., Ségurel, L., Tung, J.Y., and Hinds, D.A. (2016). Detection and interpretation of shared genetic influences on 42 human traits. Nat. Genet. 48: 709-717.
-
(2016)
Nat. Genet.
, vol.48
, pp. 709-717
-
-
Pickrell, J.K.1
Berisa, T.2
Liu, J.Z.3
Ségurel, L.4
Tung, J.Y.5
Hinds, D.A.6
-
64
-
-
84872027608
-
Natural variation at the FRD3 MATE trans-porter locus reveals cross-talk between Fe homeostasis and Zn tolerance in Arabidopsis thaliana
-
Pineau, C., Loubet, S., Lefoulon, C., Chalies, C., Fizames, C., Lacombe, B., Ferrand, M., Loudet, O., Berthomieu, P., and Richard, O. (2012). Natural variation at the FRD3 MATE trans-porter locus reveals cross-talk between Fe homeostasis and Zn tolerance in Arabidopsis thaliana. PLoS Genet. 8: e1003120.
-
(2012)
Plos Genet
, vol.8
, pp. 3120
-
-
Pineau, C.1
Loubet, S.2
Lefoulon, C.3
Chalies, C.4
Fizames, C.5
Lacombe, B.6
Ferrand, M.7
Loudet, O.8
Berthomieu, P.9
Richard, O.10
-
65
-
-
33746512512
-
Principal components analysis corrects for stratification in genome-wide association studies
-
Price, A.L., Patterson, N.J., Plenge, R.M., Weinblatt, M.E., Shadick, N.A., and Reich, D. (2006). Principal components analysis corrects for stratification in genome-wide association studies. Nat. Genet. 38: 904-909.
-
(2006)
Nat. Genet.
, vol.38
, pp. 904-909
-
-
Price, A.L.1
Patterson, N.J.2
Plenge, R.M.3
Weinblatt, M.E.4
Shadick, N.A.5
Reich, D.6
-
66
-
-
34548292504
-
PLINK: A tool set for whole-genome association and population-based linkage analyses
-
Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M.A.R., Bender, D., Maller, J., Sklar, P., de Bakker, P.I.W., Daly, M.J., and Sham, P.C. (2007). PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 81: 559-575.
-
(2007)
Am. J. Hum. Genet
, vol.81
, pp. 559-575
-
-
Purcell, S.1
Neale, B.2
Todd-Brown, K.3
Thomas, L.4
Ferreira, M.A.R.5
Bender, D.6
Maller, J.7
Sklar, P.8
De Bakker, P.I.W.9
Daly, M.J.10
Sham, P.C.11
-
67
-
-
84872542418
-
A Lasso multi-marker mixed model for association mapping with population structure correction
-
Rakitsch, B., Lippert, C., Stegle, O., and Borgwardt, K. (2013). A Lasso multi-marker mixed model for association mapping with population structure correction. Bioinformatics 29: 206-214.
-
(2013)
Bioinformatics
, vol.29
, pp. 206-214
-
-
Rakitsch, B.1
Lippert, C.2
Stegle, O.3
Borgwardt, K.4
-
68
-
-
84958780924
-
Natural variation involving deletion alleles of FRIGIDA modulate temperature- sensitive flowering responses in Arabidopsis thaliana
-
Sanchez-Bermejo, E., and Balasubramanian, S. (2016). Natural variation involving deletion alleles of FRIGIDA modulate temperature- sensitive flowering responses in Arabidopsis thaliana. Plant Cell Environ. 39: 1353-1365.
-
(2016)
Plant Cell Environ
, vol.39
, pp. 1353-1365
-
-
Sanchez-Bermejo, E.1
Balasubramanian, S.2
-
69
-
-
84874991260
-
Patterns of population epigenomic diversity
-
Schmitz, R.J., Schultz, M.D., Urich, M.A., Nery, J.R., Pelizzola, M., Libiger, O., Alix, A., McCosh, R.B., Chen, H., Schork, N.J., and Ecker, J.R. (2013). Patterns of population epigenomic diversity. Nature 495: 193-198.
-
(2013)
Nature
, vol.495
, pp. 193-198
-
-
Schmitz, R.J.1
Schultz, M.D.2
Urich, M.A.3
Nery, J.R.4
Pelizzola, M.5
Libiger, O.6
Alix, A.7
McCosh, R.B.8
Chen, H.9
Schork, N.J.10
Ecker, J.R.11
-
70
-
-
70649114601
-
Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arabidopsis thaliana
-
Schwartz, C., Balasubramanian, S., Warthmann, N., Michael, T.P., Lempe, J., Sureshkumar, S., Kobayashi, Y., Maloof, J.N., Borevitz, J.O., Chory, J., and Weigel, D. (2009). Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arabidopsis thaliana. Genetics 183: 723-732.
-
(2009)
Genetics
, vol.183
, pp. 723-732
-
-
Schwartz, C.1
Balasubramanian, S.2
Warthmann, N.3
Michael, T.P.4
Lempe, J.5
Sureshkumar, S.6
Kobayashi, Y.7
Maloof, J.N.8
Borevitz, J.O.9
Chory, J.10
Weigel, D.11
-
71
-
-
0000120766
-
Estimating the dimension of a model
-
Schwarz, G.E. (1978). Estimating the dimension of a model. Ann. Stat. 6: 461-464.
-
(1978)
Ann. Stat
, vol.6
, pp. 461-464
-
-
Schwarz, G.E.1
-
72
-
-
34249885875
-
A genome-wide association study of type 2 diabetes in Finns detects multiple susceptibility variants
-
Scott, L.J., et al. (2007). A genome-wide association study of type 2 diabetes in Finns detects multiple susceptibility variants. Science 316: 1341-1345.
-
(2007)
Science
, vol.316
, pp. 1341-1345
-
-
Scott, L.J.1
-
73
-
-
85016089760
-
AraPheno: A public database for Arabi- dopsis thaliana phenotypes
-
pii: gkw986
-
Seren, Ü., Grimm, D., Fitz, J., Weigel, D., Nordborg, M., Borgwardt, K., and Korte, A. (2016). AraPheno: a public database for Arabi- dopsis thaliana phenotypes. Nucleic Acids Res. pii: gkw986.
-
(2016)
Nucleic Acids Res
-
-
Seren, Ü.1
Grimm, D.2
Fitz, J.3
Weigel, D.4
Nordborg, M.5
Borgwardt, K.6
Korte, A.7
-
74
-
-
84873036273
-
GWAPP: A web application for genome-wide association mapping in Arabidopsis
-
Seren, Ü., Vilhjálmsson, B.J., Horton, M.W., Meng, D., Forai, P., Huang, Y.S., Long, Q., Segura, V., and Nordborg, M. (2012). GWAPP: a web application for genome-wide association mapping in Arabidopsis. Plant Cell 24: 4793-4805.
-
(2012)
Plant Cell
, vol.24
, pp. 4793-4805
-
-
Seren, Ü.1
Vilhjálmsson, B.J.2
Horton, M.W.3
Meng, D.4
Forai, P.5
Huang, Y.S.6
Long, Q.7
Segura, V.8
Nordborg, M.9
-
75
-
-
84995694788
-
Genetic architecture of nonadditive in-heritance in Arabidopsis thaliana hybrids
-
Seymour, D.K., Chae, E., Grimm, D.G., Martín Pizarro, C., Habring- Müller, A., Vasseur, F., Rakitsch, B., Borgwardt, K.M., Koenig, D., and Weigel, D. (2016). Genetic architecture of nonadditive in-heritance in Arabidopsis thaliana hybrids. Proc. Natl. Acad. Sci. USA 113: E7317-E7326.
-
(2016)
Proc. Natl. Acad. Sci. USA
, vol.113
, pp. E7317-E7326
-
-
Seymour, D.K.1
Chae, E.2
Grimm, D.G.3
Martín Pizarro, C.4
Habring- Müller, A.5
Vasseur, F.6
Rakitsch, B.7
Borgwardt, K.M.8
Koenig, D.9
Weigel, D.10
-
76
-
-
0000898845
-
An analysis of variance test for normality (Complete samples)
-
Shapiro, S.S., and Wilk, M.B. (1965). An analysis of variance test for normality (complete samples). Biometrika 52: 591-611.
-
(1965)
Biometrika
, vol.52
, pp. 591-611
-
-
Shapiro, S.S.1
Wilk, M.B.2
-
77
-
-
0042424602
-
Statistical significance for genomewide studies
-
Storey, J.D., and Tibshirani, R. (2003). Statistical significance for genomewide studies. Proc. Natl. Acad. Sci. USA 100: 9440-9445.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
78
-
-
0003713709
-
-
Oxford, UK: Princeton University Press
-
Stouffer, S.A., Suchman, E.A., Devinney, L.C., Star, S.A., and Williams, R.M., Jr. (1949). The American Soldier: Adjustment during Army Life. Studies in Social Psychology in World War II, Vol. 1. (Oxford, UK: Princeton University Press).
-
(1949)
The American Soldier: Adjustment during Army Life. Studies in Social Psychology in World War II
, pp. 1
-
-
Stouffer, S.A.1
Suchman, E.A.2
Devinney, L.C.3
Star, S.A.4
Williams, R.M.5
-
79
-
-
84945543585
-
Multi-task feature selection on multiple networks via maximum flows. In Proceedings of the 2014 SIAM International Conference on Data Mining
-
Sugiyama, M., Azencott, C., Grimm, D., Kawahara, Y., and Borgwardt, K. (2014). Multi-task feature selection on multiple networks via maximum flows. In Proceedings of the 2014 SIAM International Conference on Data Mining. (Society for Industrial and Applied Mathematics), pp. 199-207.
-
(2014)
(Society for Industrial and Applied Mathematics)
, pp. 199-207
-
-
Sugiyama, M.1
Azencott, C.2
Grimm, D.3
Kawahara, Y.4
Borgwardt, K.5
-
80
-
-
84926519781
-
Further improvements to linear mixed models for genome-wide association studies
-
Widmer, C., Lippert, C., Weissbrod, O., Fusi, N., Kadie, C., Davidson, R., Listgarten, J., and Heckerman, D. (2014). Further improvements to linear mixed models for genome-wide association studies. Sci. Rep. 4: 6874.
-
(2014)
Sci. Rep.
, vol.4
, pp. 6874
-
-
Widmer, C.1
Lippert, C.2
Weissbrod, O.3
Fusi, N.4
Kadie, C.5
Davidson, R.6
Listgarten, J.7
Heckerman, D.8
-
81
-
-
84922371409
-
The Ensembl REST API: Ensembl data for any language
-
Yates, A., Beal, K., Keenan, S., McLaren, W., Pignatelli, M., Ritchie, G.R., Ruffier, M., Taylor, K., Vullo, A., and Flicek, P. (2014). The Ensembl REST API: ensembl data for any language. Bioinformatics 31: 143-145.
-
(2014)
Bioinformatics
, vol.31
, pp. 143-145
-
-
Yates, A.1
Beal, K.2
Keenan, S.3
McLaren, W.4
Pignatelli, M.5
Ritchie, G.R.6
Ruffier, M.7
Taylor, K.8
Vullo, A.9
Flicek, P.10
-
82
-
-
77958596172
-
P-value based analysis for shared controls design in genome-wide association studies
-
Zaykin, D.V., and Kozbur, D.O. (2010). P-value based analysis for shared controls design in genome-wide association studies. Genet. Epidemiol. 34: 725-738.
-
(2010)
Genet.
, vol.34
, pp. 725-738
-
-
Zaykin, D.V.1
Kozbur, D.O.2
-
83
-
-
33846466407
-
An Arabidopsis example of association mapping in structured samples
-
Zhao, K., Aranzana, M.J., Kim, S., Lister, C., Shindo, C., Tang, C., Toomajian, C., Zheng, H., Dean, C., Marjoram, P., and Nordborg, M. (2007). An Arabidopsis example of association mapping in structured samples. PLoS Genet. 3: e4.
-
(2007)
Plos Genet
, vol.3
, pp. 4
-
-
Zhao, K.1
Aranzana, M.J.2
Kim, S.3
Lister, C.4
Shindo, C.5
Tang, C.6
Toomajian, C.7
Zheng, H.8
Dean, C.9
Marjoram, P.10
Nordborg, M.11
-
84
-
-
80053388300
-
Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa
-
Zhao, K., et al. (2011). Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa. Nat. Commun. 2: 467.
-
(2011)
Nat. Commun
, vol.2
, pp. 467
-
-
Zhao, K.1
|