-
1
-
-
0032713910
-
Unusual haplotype structure at the proximal breakpoint of In(2L)t in a natural population of Drosophila melanogaster
-
Andolfatto, P., J. D. Wall, and M. Kreitman, 1999 Unusual haplotype structure at the proximal breakpoint of In(2L)t in a natural population of Drosophila melanogaster. Genetics 153: 1297-1311
-
(1999)
Genetics
, vol.153
, pp. 1297-1311
-
-
Andolfatto, P.1
Wall, J.D.2
Kreitman, M.3
-
2
-
-
84878449439
-
RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling
-
Arnold, B., R. B. Corbett-Detig, D. Hartl, and K. Bomblies, 2013 RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling. Mol. Ecol. 22: 3179-3190
-
(2013)
Mol. Ecol
, vol.22
, pp. 3179-3190
-
-
Arnold, B.1
Corbett-detig, R.B.2
Hartl, D.3
Bomblies, K.4
-
3
-
-
61349113311
-
Systems genetics of complex traits in Drosophila melanogaster
-
Ayroles, J. F., M. A. Carbone, E. A. Stone, K. W. Jordan, R. F. Lyman et al., 2009 Systems genetics of complex traits in Drosophila melanogaster. Nat. Genet. 41: 299-307
-
(2009)
Nat. Genet
, vol.41
, pp. 299-307
-
-
Ayroles, J.F.1
Carbone, M.A.2
Stone, E.A.3
Jordan, K.W.4
Lyman, R.F.5
-
4
-
-
3242760033
-
Non-African populations of Drosophila melanogaster have a unique origin
-
Baudry, E., B. Viginier, and M. Veuille, 2004 Non-African populations of Drosophila melanogaster have a unique origin. Mol. Biol. Evol. 21: 1482-1491
-
(2004)
Mol. Biol. Evol
, vol.21
, pp. 1482-1491
-
-
Baudry, E.1
Viginier, B.2
Veuille, M.3
-
5
-
-
0027374393
-
African and North American populations of Drosophila melanogaster are very different at the DNA level
-
Begun, D. J., and C. F. Aquadro, 1993 African and North American populations of Drosophila melanogaster are very different at the DNA level. Nature 365: 548-550
-
(1993)
Nature
, vol.365
, pp. 548-550
-
-
Begun, D.J.1
Aquadro, C.F.2
-
7
-
-
84897455911
-
Genetic basis of metabolome variation in yeast
-
e1004142
-
Breunig, J. S., S. R. Hackett, J. D. Rabinowitz, and L. Kruglyak, 2014 Genetic basis of metabolome variation in yeast. PLoS Genet. 10: e1004142.
-
(2014)
PLoS Genet
, vol.10
-
-
Breunig, J.S.1
Hackett, S.R.2
Rabinowitz, J.D.3
Kruglyak, L.4
-
8
-
-
84871391027
-
Mutation spectrum of Drosophila CNVs revealed by breakpoint sequencing
-
Cardoso-Moreira, M., J. R. Arguello, and A. G. Clark, 2012 Mutation spectrum of Drosophila CNVs revealed by breakpoint sequencing. Genome Biol. 13: R119.
-
(2012)
Genome Biol
, vol.13
, pp. R119
-
-
Cardoso-moreira, M.1
Arguello, J.R.2
Clark, A.G.3
-
9
-
-
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
-
Cingolani, P., A. Platts, L. L. Wang, M. Coon, T. Nguyen et al., 2012 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 (Austin) 6: 80-92
-
(2012)
Fly (Austin)
, vol.6
, pp. 80-92
-
-
Cingolani, P.1
Platts, A.2
Wang, L.L.3
Coon, M.4
Nguyen, T.5
-
10
-
-
84872022907
-
Population genomics of inversion polymorphisms in Drosophila melanogaster
-
e1003056
-
Corbett-Detig, R. B., and D. L. Hartl, 2012 Population genomics of inversion polymorphisms in Drosophila melanogaster. PLoS Genet. 8: e1003056.
-
(2012)
PLoS Genet
, vol.8
-
-
Corbett-detig, R.B.1
Hartl, D.L.2
-
11
-
-
84866127755
-
Sequence-based detection and breakpoint assembly of polymorphic inversions
-
Corbett-Detig, R. B., C. Cardeno, and C. H. Langley, 2012 Sequence-based detection and breakpoint assembly of polymorphic inversions. Genetics 192: 131-137
-
(2012)
Genetics
, vol.192
, pp. 131-137
-
-
Corbett-detig, R.B.1
Cardeno, C.2
Langley, C.H.3
-
12
-
-
84878461117
-
Special features of RAD sequencing data: implications for genotyping
-
Davey, J. W., T. Cezard, P. Fuentes-Utrilla, C. Eland, K. Gharbi et al., 2013 Special features of RAD sequencing data: implications for genotyping. Mol. Ecol. 22: 3151-3164
-
(2013)
Mol. Ecol
, vol.22
, pp. 3151-3164
-
-
Davey, J.W.1
Cezard, T.2
Fuentes-utrilla, P.3
Eland, C.4
Gharbi, K.5
-
13
-
-
0017056814
-
New results on the genetic characteristics of the Far East race of Drosophila melanogaster
-
David, J., C. Bocquet, and E. Pla, 1976 New results on the genetic characteristics of the Far East race of Drosophila melanogaster. Genet. Res. 28: 253-260
-
(1976)
Genet. Res
, vol.28
, pp. 253-260
-
-
David, J.1
Bocquet, C.2
Pla, E.3
-
14
-
-
79955483667
-
A framework for variation discovery and genotyping using nextgeneration DNA sequencing data
-
DePristo, M. A., E. Banks, R. Poplin, K. V. Garimella, J. R. Maguire et al., 2011 A framework for variation discovery and genotyping using nextgeneration DNA sequencing data. Nat. Genet. 43: 491-498
-
(2011)
Nat. Genet
, vol.43
, pp. 491-498
-
-
DePristo, M.A.1
Banks, E.2
Poplin, R.3
Garimella, K.V.4
Maguire, J.R.5
-
15
-
-
78651313713
-
Molecular population genetics and selection in the glycolytic pathway
-
Eanes, W. F., 2011 Molecular population genetics and selection in the glycolytic pathway. J. Exp. Biol. 214: 165-171
-
(2011)
J. Exp. Biol
, vol.214
, pp. 165-171
-
-
Eanes, W.F.1
-
16
-
-
84888636432
-
Monophyly of Wolbachia pipientis genomes within Drosophila melanogaster: geographic structuring, titre variation and host effects across five populations
-
Early, A. M., and A. G. Clark, 2013 Monophyly of Wolbachia pipientis genomes within Drosophila melanogaster: geographic structuring, titre variation and host effects across five populations. Mol. Ecol. 22: 5765-5778
-
(2013)
Mol. Ecol
, vol.22
, pp. 5765-5778
-
-
Early, A.M.1
Clark, A.G.2
-
17
-
-
84880173092
-
Estimation of population allele frequencies from next-generation sequencing data: pool-vs. individual-based genotyping
-
Gautier, M., J. Foucaud, K. Gharbi, T. Cézard, M. Galan et al., 2013 Estimation of population allele frequencies from next-generation sequencing data: pool-vs. individual-based genotyping. Mol. Ecol. 22: 3766-3779
-
(2013)
Mol. Ecol
, vol.22
, pp. 3766-3779
-
-
Gautier, M.1
Foucaud, J.2
Gharbi, K.3
Cézard, T.4
Galan, M.5
-
18
-
-
84901640509
-
Genetic regulation of mouse liver metabolite levels
-
Ghazalpour, A., B. J. Bennett, D. Shih, N. Che, L. Orozco et al., 2014 Genetic regulation of mouse liver metabolite levels. Mol. Syst. Biol. 10: 730
-
(2014)
Mol. Syst. Biol
, vol.10
, pp. 730
-
-
Ghazalpour, A.1
Bennett, B.J.2
Shih, D.3
Che, N.4
Orozco, L.5
-
19
-
-
0347065347
-
Demography and natural selection have shaped genetic variation in Drosophila melanogaster: a multi-locus approach
-
Glinka, S., L. Ometto, S. Mousset, W. Stephan, and D. De Lorenzo, 2003 Demography and natural selection have shaped genetic variation in Drosophila melanogaster: a multi-locus approach. Genetics 165: 1269-1278
-
(2003)
Genetics
, vol.165
, pp. 1269-1278
-
-
Glinka, S.1
Ometto, L.2
Mousset, S.3
Stephan, W.4
De Lorenzo, D.5
-
20
-
-
77956624150
-
A hierarchical Bayesian model for a novel sparse partial diallel crossing design
-
Greenberg, A. J., S. R. Hackett, L. G. Harshman, and A. G. Clark, 2010 A hierarchical Bayesian model for a novel sparse partial diallel crossing design. Genetics 185: 361-373
-
(2010)
Genetics
, vol.185
, pp. 361-373
-
-
Greenberg, A.J.1
Hackett, S.R.2
Harshman, L.G.3
Clark, A.G.4
-
21
-
-
84858833881
-
Environmental and genetic perturbations reveal different networks of metabolic regulation
-
Greenberg, A. J., S. R. Hackett, L. G. Harshman, and A. G. Clark, 2011 Environmental and genetic perturbations reveal different networks of metabolic regulation. Mol. Syst. Biol. 7: 563
-
(2011)
Mol. Syst. Biol
, vol.7
, pp. 563
-
-
Greenberg, A.J.1
Hackett, S.R.2
Harshman, L.G.3
Clark, A.G.4
-
22
-
-
22344444998
-
Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations
-
Haddrill, P. R., K. R. Thornton, B. Charlesworth, and P. Andolfatto, 2005 Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations. Genome Res. 15: 790-799
-
(2005)
Genome Res
, vol.15
, pp. 790-799
-
-
Haddrill, P.R.1
Thornton, K.R.2
Charlesworth, B.3
Andolfatto, P.4
-
23
-
-
84871958299
-
A secondgeneration assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence
-
Hu, T. T., M. B. Eisen, K. R. Thornton, and P. Andolfatto, 2013 A secondgeneration assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence. Genome Res. 23: 89-98
-
(2013)
Genome Res
, vol.23
, pp. 89-98
-
-
Hu, T.T.1
Eisen, M.B.2
Thornton, K.R.3
Andolfatto, P.4
-
24
-
-
84904258306
-
Natural variation in genome architecture among 205 Drosophila melanogaster Genetic Reference Panel lines
-
Huang, W., A. Massouras, Y. Inoue, J. Peiffer, M. Ràmia et al., 2014 Natural variation in genome architecture among 205 Drosophila melanogaster Genetic Reference Panel lines. Genome Res. 24: 1193-1208
-
(2014)
Genome Res
, vol.24
, pp. 1193-1208
-
-
Huang, W.1
Massouras, A.2
Inoue, Y.3
Peiffer, J.4
Ràmia, M.5
-
25
-
-
77951961924
-
Systems genetics analysis of body weight and energy metabolism traits in Drosophila melanogaster
-
Jumbo-Lucioni, P., J. F. Ayroles, M. M. Chambers, K. W. Jordan, J. Leips et al., 2010 Systems genetics analysis of body weight and energy metabolism traits in Drosophila melanogaster. BMC Genomics 11: 297
-
(2010)
BMC Genomics
, vol.11
, pp. 297
-
-
Jumbo-lucioni, P.1
Ayroles, J.F.2
Chambers, M.M.3
Jordan, K.W.4
Leips, J.5
-
26
-
-
0036226603
-
BLAT-the BLAST-like alignment tool
-
Kent, W. J., 2002 BLAT-the BLAST-like alignment tool. Genome Res. 12: 656-664
-
(2002)
Genome Res
, vol.12
, pp. 656-664
-
-
Kent, W.J.1
-
27
-
-
84863868317
-
Genetic dissection of a model complex trait using the Drosophila Synthetic Population Resource
-
King, E. G., C. M. Merkes, C. L. McNeil, S. R. Hoofer, S. Sen et al., 2012 Genetic dissection of a model complex trait using the Drosophila Synthetic Population Resource. Genome Res. 22: 1558-1566
-
(2012)
Genome Res
, vol.22
, pp. 1558-1566
-
-
King, E.G.1
Merkes, C.M.2
McNeil, C.L.3
Hoofer, S.R.4
Sen, S.5
-
28
-
-
79958190542
-
Circumventing heterozygosity: sequencing the amplified genome of a single haploid Drosophila melanogaster embryo
-
Langley, C. H., M. Crepeau, C. Cardeno, R. Corbett-Detig, and K. Stevens, 2011 Circumventing heterozygosity: sequencing the amplified genome of a single haploid Drosophila melanogaster embryo. Genetics 188: 239-246
-
(2011)
Genetics
, vol.188
, pp. 239-246
-
-
Langley, C.H.1
Crepeau, M.2
Cardeno, C.3
Corbett-detig, R.4
Stevens, K.5
-
29
-
-
84866081815
-
Genomic variation in natural populations of Drosophila melanogaster
-
Langley, C. H., K. Stevens, C. Cardeno, Y. C. G. Lee, D. R. Schrider et al., 2012 Genomic variation in natural populations of Drosophila melanogaster. Genetics 192: 533-598
-
(2012)
Genetics
, vol.192
, pp. 533-598
-
-
Langley, C.H.1
Stevens, K.2
Cardeno, C.3
Lee, Y.C.G.4
Schrider, D.R.5
-
30
-
-
79959478938
-
Approximate Bayesian analysis of Drosophila melanogaster polymorphism data reveals a recent colonization of Southeast Asia
-
Laurent, S. J. Y., A. Werzner, L. Excoffier, and W. Stephan, 2011 Approximate Bayesian analysis of Drosophila melanogaster polymorphism data reveals a recent colonization of Southeast Asia. Mol. Biol. Evol. 28: 2041-2051
-
(2011)
Mol. Biol. Evol
, vol.28
, pp. 2041-2051
-
-
Laurent, S.J.Y.1
Werzner, A.2
Excoffier, L.3
Stephan, W.4
-
31
-
-
84905015204
-
A small system-high-resolution study of metabolic adaptation in the central metabolic pathway to temperate climates in Drosophila melanogaster
-
Lavington, E., R. Cogni, C. Kuczynski, S. Koury, E. L. Behrman et al., 2014 A small system-high-resolution study of metabolic adaptation in the central metabolic pathway to temperate climates in Drosophila melanogaster. Mol. Biol. Evol. 31: 2032-2041
-
(2014)
Mol. Biol. Evol
, vol.31
, pp. 2032-2041
-
-
Lavington, E.1
Cogni, R.2
Kuczynski, C.3
Koury, S.4
Behrman, E.L.5
-
32
-
-
84897133117
-
MOSAIK: a hash-based algorithm for accurate next-generation sequencing short-read mapping
-
e90581
-
Lee, W.-P., M. P. Stromberg, A. Ward, C. Stewart, E. P. Garrison et al., 2014 MOSAIK: a hash-based algorithm for accurate next-generation sequencing short-read mapping. PLoS One 9: e90581.
-
(2014)
PLoS One
, vol.9
-
-
Lee, W.-P.1
Stromberg, M.P.2
Ward, A.3
Stewart, C.4
Garrison, E.P.5
-
33
-
-
0000399844
-
Inversion polymorphism in Drosophila melanogaster
-
edited by C. B. Krimbas, and J. R. Powell. CRC Press, Boca Raton, FL
-
Lemeunier, F., and S. Aulard, 1992 Inversion polymorphism in Drosophila melanogaster, pp. 339-406 in Drosophila Inversion Polymorphism, edited by C. B. Krimbas, and J. R. Powell. CRC Press, Boca Raton, FL.
-
(1992)
Drosophila Inversion Polymorphism
, pp. 339-406
-
-
Lemeunier, F.1
Aulard, S.2
-
34
-
-
33750491918
-
Inferring the demographic history and rate of adaptive substitution in Drosophila
-
Li, H., and W. Stephan, 2006 Inferring the demographic history and rate of adaptive substitution in Drosophila. PLoS Genet. 2: e166.
-
(2006)
PLoS Genet
, vol.2
, pp. e166
-
-
Li, H.1
Stephan, W.2
-
35
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li, H., and R. Durbin, 2009 Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25: 1754-1760
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
36
-
-
84863012360
-
The Drosophila melanogaster Genetic Reference Panel
-
Mackay, T. F. C., S. Richards, E. A. Stone, A. Barbadilla, J. F. Ayroles et al., 2012 The Drosophila melanogaster Genetic Reference Panel. Nature 482: 173-178
-
(2012)
Nature
, vol.482
, pp. 173-178
-
-
Mackay, T.F.C.1
Richards, S.2
Stone, E.A.3
Barbadilla, A.4
Ayroles, J.F.5
-
37
-
-
84870693546
-
Genomic variation and its impact on gene expression in Drosophila melanogaster
-
e1003055
-
Massouras, A., S. M. Waszak, M. Albarca-Aguilera, K. Hens, W. Holcombe et al., 2012 Genomic variation and its impact on gene expression in Drosophila melanogaster. PLoS Genet. 8: e1003055.
-
(2012)
PLoS Genet
, vol.8
-
-
Massouras, A.1
Waszak, S.M.2
Albarca-aguilera, M.3
Hens, K.4
Holcombe, W.5
-
38
-
-
23344450687
-
The structure and population genetics of the breakpoints associated with the cosmopolitan chromosomal inversion In(3R)Payne in Drosophila melanogaster
-
Matzkin, L. M., T. J. S. Merritt, C.-T. Zhu, and W. F. Eanes, 2005 The structure and population genetics of the breakpoints associated with the cosmopolitan chromosomal inversion In(3R)Payne in Drosophila melanogaster. Genetics 170: 1143-1152
-
(2005)
Genetics
, vol.170
, pp. 1143-1152
-
-
Matzkin, L.M.1
Merritt, T.J.S.2
Zhu, C.-T.3
Eanes, W.F.4
-
39
-
-
77956295988
-
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data
-
McKenna, A., M. Hanna, E. Banks, A. Sivachenko, K. Cibulskis et al., 2010 The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 20: 1297-1303
-
(2010)
Genome Res
, vol.20
, pp. 1297-1303
-
-
McKenna, A.1
Hanna, M.2
Banks, E.3
Sivachenko, A.4
Cibulskis, K.5
-
40
-
-
0036811711
-
A genealogical interpretation of linkage disequilibrium
-
McVean, G. A. T., 2002 A genealogical interpretation of linkage disequilibrium. Genetics 162: 987-991
-
(2002)
Genetics
, vol.162
, pp. 987-991
-
-
McVean, G.A.T.1
-
41
-
-
24744465216
-
Inferring the effects of demography and selection on Drosophila melanogaster populations from a chromosome-wide scan of DNA variation
-
Ometto, L., S. Glinka, D. De Lorenzo, and W. Stephan, 2005 Inferring the effects of demography and selection on Drosophila melanogaster populations from a chromosome-wide scan of DNA variation. Mol. Biol. Evol. 22: 2119-2130
-
(2005)
Mol. Biol. Evol
, vol.22
, pp. 2119-2130
-
-
Ometto, L.1
Glinka, S.2
De Lorenzo, D.3
Stephan, W.4
-
42
-
-
84861691274
-
Double digest RADseq: an inexpensive method for de novo SNP discovery and genotyping in model and non-model species
-
e37135
-
Peterson, B. K., J. N. Weber, E. H. Kay, H. S. Fisher, and H. E. Hoekstra, 2012 Double digest RADseq: an inexpensive method for de novo SNP discovery and genotyping in model and non-model species. PLoS One 7: e37135.
-
(2012)
PLoS One
, vol.7
-
-
Peterson, B.K.1
Weber, J.N.2
Kay, E.H.3
Fisher, H.S.4
Hoekstra, H.E.5
-
43
-
-
84872014607
-
Population genomics of sub-Saharan Drosophila melanogaster: African diversity and non-African admixture
-
e1003080
-
Pool, J. E., R. B. Corbett-Detig, R. P. Sugino, K. A. Stevens, C. M. Cardeno et al., 2012 Population genomics of sub-Saharan Drosophila melanogaster: African diversity and non-African admixture. PLoS Genet. 8: e1003080.
-
(2012)
PLoS Genet
, vol.8
-
-
Pool, J.E.1
Corbett-detig, R.B.2
Sugino, R.P.3
Stevens, K.A.4
Cardeno, C.M.5
-
44
-
-
84866440781
-
DELLY: structural variant discovery by integrated paired-end and split-read analysis
-
Rausch, T., T. Zichner, A. Schlattl, A. M. Stütz, V. Benes et al., 2012 DELLY: structural variant discovery by integrated paired-end and split-read analysis. Bioinformatics 28: i333-i339.
-
(2012)
Bioinformatics
, vol.28
, pp. i333-i339
-
-
Rausch, T.1
Zichner, T.2
Schlattl, A.3
Stütz, A.M.4
Benes, V.5
-
45
-
-
84883141759
-
Heritability and inter-population differences in lipid profiles of Drosophila melanogaster
-
e72726
-
Scheitz, C. J. F., Y. Guo, A. M. Early, L. G. Harshman, and A. G. Clark, 2013 Heritability and inter-population differences in lipid profiles of Drosophila melanogaster. PLoS ONE 8: e72726.
-
(2013)
PLoS ONE
, vol.8
-
-
Scheitz, C.J.F.1
Guo, Y.2
Early, A.M.3
Harshman, L.G.4
Clark, A.G.5
-
46
-
-
33644783680
-
Highly structured Asian Drosophila melanogaster populations: a new tool for hitchhiking mapping?
-
Schlötterer, C., H. Neumeier, C. Sousa, and V. Nolte, 2006 Highly structured Asian Drosophila melanogaster populations: a new tool for hitchhiking mapping? Genetics 172: 287-292
-
(2006)
Genetics
, vol.172
, pp. 287-292
-
-
Schlötterer, C.1
Neumeier, H.2
Sousa, C.3
Nolte, V.4
-
47
-
-
33644763127
-
Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster
-
Thornton, K., and P. Andolfatto, 2006 Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster. Genetics 172: 1607-1619
-
(2006)
Genetics
, vol.172
, pp. 1607-1619
-
-
Thornton, K.1
Andolfatto, P.2
-
48
-
-
84924558271
-
Correlated variation and population differentiation in satellite DNA abundance among lines of Drosophila melanogaster
-
Wei, K. H.-C., J. K. Grenier, D. A. Barbash, and A. G. Clark, 2014 Correlated variation and population differentiation in satellite DNA abundance among lines of Drosophila melanogaster. Proc. Natl. Acad. Sci. USA 111: 18793-18798
-
(2014)
Proc. Natl. Acad. Sci. USA
, vol.111
, pp. 18793-18798
-
-
Wei, K.H.-C.1
Grenier, J.K.2
Barbash, D.A.3
Clark, A.G.4
-
49
-
-
0028255864
-
Isolation and analysis of the breakpoint sequences of chromosome inversion In(3L)Payne in Drosophila melanogaster
-
Wesley, C. S., and W. F. Eanes, 1994 Isolation and analysis of the breakpoint sequences of chromosome inversion In(3L)Payne in Drosophila melanogaster. Proc. Natl. Acad. Sci. USA 91: 3132-3136
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 3132-3136
-
-
Wesley, C.S.1
Eanes, W.F.2
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