-
1
-
-
35648976118
-
The diploid genome sequence of an individual human
-
Levy S, Sutton G, Ng PC, Feuk L, Halpern AL, et al. (2007) The diploid genome sequence of an individual human. Plos Biology 5: 2113-2144.
-
(2007)
Plos Biology
, vol.5
, pp. 2113-2144
-
-
Levy, S.1
Sutton, G.2
Ng, P.C.3
Feuk, L.4
Halpern, A.L.5
-
2
-
-
33144468540
-
Jointly analyzing gene expression and copy number data in breast cancer using data reduction models
-
Berger JA, Hautaniemi S, Mitra SK, Astola J, (2006) Jointly analyzing gene expression and copy number data in breast cancer using data reduction models. Ieee-Acm Transactions on Computational Biology and Bioinformatiocs 3: 2-16.
-
(2006)
Ieee-Acm Transactions on Computational Biology and Bioinformatiocs
, vol.3
, pp. 2-16
-
-
Berger, J.A.1
Hautaniemi, S.2
Mitra, S.K.3
Astola, J.4
-
3
-
-
41349122898
-
Integrative analysis reveals the direct and indirect interactions between DNA copy number aberrations and gene expression changes
-
Lee H, Kong SW, Park PJ, (2008) Integrative analysis reveals the direct and indirect interactions between DNA copy number aberrations and gene expression changes. Bioinformatics 24: 889-896.
-
(2008)
Bioinformatics
, vol.24
, pp. 889-896
-
-
Lee, H.1
Kong, S.W.2
Park, P.J.3
-
4
-
-
80055104148
-
Detection of large-scale variation in the human genome
-
Iafrate AJ, Feuk T, Van Puymbroeck L, Rivera MN, Listewnik ML, et al. (2004) Detection of large-scale variation in the human genome. Journal of Molecular Diagnostics 6: G29.
-
(2004)
Journal of Molecular Diagnostics
, vol.6
-
-
Iafrate, A.J.1
Feuk, T.2
van Puymbroeck, L.3
Rivera, M.N.4
Listewnik, M.L.5
-
5
-
-
33846978695
-
Relative impact of nucleotide and copy number variation on gene expression phenotypes
-
Stranger BE, Forrest MS, Dunning M, Ingle CE, Beazley C, et al. (2007) Relative impact of nucleotide and copy number variation on gene expression phenotypes. Science 315: 848-853.
-
(2007)
Science
, vol.315
, pp. 848-853
-
-
Stranger, B.E.1
Forrest, M.S.2
Dunning, M.3
Ingle, C.E.4
Beazley, C.5
-
6
-
-
3543105225
-
Circular binary segmentation for the analysis of array-based DNA copy number data
-
Olshen AB, Venkatraman ES, Lucito R, Wigler M, (2004) Circular binary segmentation for the analysis of array-based DNA copy number data. Biostatistics 5: 557-572.
-
(2004)
Biostatistics
, vol.5
, pp. 557-572
-
-
Olshen, A.B.1
Venkatraman, E.S.2
Lucito, R.3
Wigler, M.4
-
7
-
-
20444435572
-
SW-ARRAY: a dynamic programming solution for the identification of copy-number changes in genomic DNA using array comparative genome hybridization data
-
Price TS, Regan R, Mott R, Hedman A, Honey B, et al. (2005) SW-ARRAY: a dynamic programming solution for the identification of copy-number changes in genomic DNA using array comparative genome hybridization data. Nucleic Acids Research 33: 3455-3464.
-
(2005)
Nucleic Acids Research
, vol.33
, pp. 3455-3464
-
-
Price, T.S.1
Regan, R.2
Mott, R.3
Hedman, A.4
Honey, B.5
-
8
-
-
33746513094
-
Linkage disequilibrium and heritability of copy-number polymorphisms within duplicated regions of the human genome
-
Locke DP, Sharp AJ, McCarroll SA, McGrath SD, Newman TL, et al. (2006) Linkage disequilibrium and heritability of copy-number polymorphisms within duplicated regions of the human genome. American Journal of Human Genetics 79: 275-290.
-
(2006)
American Journal of Human Genetics
, vol.79
, pp. 275-290
-
-
Locke, D.P.1
Sharp, A.J.2
McCarroll, S.A.3
McGrath, S.D.4
Newman, T.L.5
-
9
-
-
33846006596
-
A comprehensive analysis of common copy-number variations in the human genome
-
Wong KK, deLeeuw RJ, Dosanjh NS, Kimm LR, Cheng Z, et al. (2007) A comprehensive analysis of common copy-number variations in the human genome. American Journal of Human Genetics 80: 91-104.
-
(2007)
American Journal of Human Genetics
, vol.80
, pp. 91-104
-
-
Wong, K.K.1
deLeeuw, R.J.2
Dosanjh, N.S.3
Kimm, L.R.4
Cheng, Z.5
-
10
-
-
3242808027
-
Large-scale copy number polymorphism in the human genome
-
Wigler M, Sebat J, Lakshmi B, Troge J, Alexander J, et al. (2004) Large-scale copy number polymorphism in the human genome. Science 305: 525-528.
-
(2004)
Science
, vol.305
, pp. 525-528
-
-
Wigler, M.1
Sebat, J.2
Lakshmi, B.3
Troge, J.4
Alexander, J.5
-
11
-
-
41149140876
-
The fine-scale and complex architecture of human copy-number variation
-
Perry GH, Ben-Dor A, Tsalenko A, Sampas N, Rodriguez-Revenga L, et al. (2008) The fine-scale and complex architecture of human copy-number variation. American Journal of Human Genetics 82: 685-695.
-
(2008)
American Journal of Human Genetics
, vol.82
, pp. 685-695
-
-
Perry, G.H.1
Ben-Dor, A.2
Tsalenko, A.3
Sampas, N.4
Rodriguez-Revenga, L.5
-
12
-
-
35948984173
-
PennCNV: An integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data
-
Wang K, Li MY, Hadley D, Liu R, Glessner J, et al. (2007) PennCNV: An integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data. Genome Research 17: 1665-1674.
-
(2007)
Genome Research
, vol.17
, pp. 1665-1674
-
-
Wang, K.1
Li, M.Y.2
Hadley, D.3
Liu, R.4
Glessner, J.5
-
13
-
-
70349556543
-
Personalized copy number and segmental duplication maps using next-generation sequencing
-
Alkan C, Kidd JM, Marques-Bonet T, Aksay G, Antonacci F, et al. (2009) Personalized copy number and segmental duplication maps using next-generation sequencing. Nature Genetics 41: 1061-U1029.
-
(2009)
Nature Genetics
, vol.41
-
-
Alkan, C.1
Kidd, J.M.2
Marques-Bonet, T.3
Aksay, G.4
Antonacci, F.5
-
14
-
-
77954205450
-
Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery
-
Hormozdiari F, Hajirasouliha I, Dao P, Hach F, Yorukoglu D, et al. (2010) Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery. Bioinformatics 26: i350-i357.
-
(2010)
Bioinformatics
, vol.26
, pp. 350-357
-
-
Hormozdiari, F.1
Hajirasouliha, I.2
Dao, P.3
Hach, F.4
Yorukoglu, D.5
-
15
-
-
64849083125
-
CNV-seq, a new method to detect copy number variation using high-throughput sequencing
-
Xie C, Tammi MT, (2009) CNV-seq, a new method to detect copy number variation using high-throughput sequencing. Bmc Bioinformatics 10.
-
(2009)
Bmc Bioinformatics
, vol.10
-
-
Xie, C.1
Tammi, M.T.2
-
16
-
-
84975742565
-
A map of human genome variation from population-scale sequencing
-
Durbin RM, Altshuler DL, Abecasis GR, Bentley DR, Chakravarti A, et al. (2010) A map of human genome variation from population-scale sequencing. Nature 467: 1061-1073.
-
(2010)
Nature
, vol.467
, pp. 1061-1073
-
-
Durbin, R.M.1
Altshuler, D.L.2
Abecasis, G.R.3
Bentley, D.R.4
Chakravarti, A.5
-
17
-
-
34548725570
-
Robust smooth segmentation approach for array CGH data analysis
-
Huang J, Gusnanto A, O'Sullivan K, Staaf J, Borg A, et al. (2007) Robust smooth segmentation approach for array CGH data analysis. Bioinformatics 23: 2463-2469.
-
(2007)
Bioinformatics
, vol.23
, pp. 2463-2469
-
-
Huang, J.1
Gusnanto, A.2
O'Sullivan, K.3
Staaf, J.4
Borg, A.5
-
18
-
-
49549085311
-
A fast and flexible method for the segmentation of aCGH data
-
Ben-Yaacov E, Eldar YC, (2008) A fast and flexible method for the segmentation of aCGH data. Bioinformatics 24: I139-I145.
-
(2008)
Bioinformatics
, vol.24
, pp. 139-145
-
-
Ben-Yaacov, E.1
Eldar, Y.C.2
-
19
-
-
38849183559
-
Sparse representation and Bayesian detection of genome copy number alterations from microarray data
-
Pique-Regi R, Monso-Varona J, Ortega A, Seeger RC, Triche TJ, et al. (2008) Sparse representation and Bayesian detection of genome copy number alterations from microarray data. Bioinformatics 24: 309-318.
-
(2008)
Bioinformatics
, vol.24
, pp. 309-318
-
-
Pique-Regi, R.1
Monso-Varona, J.2
Ortega, A.3
Seeger, R.C.4
Triche, T.J.5
-
20
-
-
33751329250
-
Global variation in copy number in the human genome
-
Redon R, Ishikawa S, Fitch KR, Feuk L, Perry GH, et al. (2006) Global variation in copy number in the human genome. Nature 444: 444-454.
-
(2006)
Nature
, vol.444
, pp. 444-454
-
-
Redon, R.1
Ishikawa, S.2
Fitch, K.R.3
Feuk, L.4
Perry, G.H.5
-
21
-
-
62549089718
-
A flexible rank-based framework for detecting copy number aberrations from array data
-
LaFramboise T, Winckler W, Thomas RK, (2009) A flexible rank-based framework for detecting copy number aberrations from array data. Bioinformatics 25: 722-728.
-
(2009)
Bioinformatics
, vol.25
, pp. 722-728
-
-
LaFramboise, T.1
Winckler, W.2
Thomas, R.K.3
-
22
-
-
34347339520
-
Methods and strategies for analyzing copy number variation using DNA microarrays
-
Carter NP, (2007) Methods and strategies for analyzing copy number variation using DNA microarrays. Nat Genet 39: S16-21.
-
(2007)
Nat Genet
, vol.39
, pp. 16-21
-
-
Carter, N.P.1
-
23
-
-
77951719393
-
Discovery of common Asian copy number variants using integrated high-resolution array CGH and massively parallel DNA sequencing
-
Park H, Kim JI, Ju YS, Gokcumen O, Mills RE, et al. (2010) Discovery of common Asian copy number variants using integrated high-resolution array CGH and massively parallel DNA sequencing. Nature Genetics 42: 400-U461.
-
(2010)
Nature Genetics
, vol.42
-
-
Park, H.1
Kim, J.I.2
Ju, Y.S.3
Gokcumen, O.4
Mills, R.E.5
-
24
-
-
77950461601
-
Origins and functional impact of copy number variation in the human genome
-
Conrad DF, Pinto D, Redon R, Feuk L, Gokcumen O, et al. (2010) Origins and functional impact of copy number variation in the human genome. Nature 464: 704-712.
-
(2010)
Nature
, vol.464
, pp. 704-712
-
-
Conrad, D.F.1
Pinto, D.2
Redon, R.3
Feuk, L.4
Gokcumen, O.5
-
25
-
-
65549107341
-
Joint estimation of copy number variation and reference intensities on multiple DNA arrays using GADA
-
Pique-Regi R, Ortega A, Asgharzadeh S, (2009) Joint estimation of copy number variation and reference intensities on multiple DNA arrays using GADA. Bioinformatics 25: 1223-1230.
-
(2009)
Bioinformatics
, vol.25
, pp. 1223-1230
-
-
Pique-Regi, R.1
Ortega, A.2
Asgharzadeh, S.3
-
26
-
-
70449358724
-
Detection of recurrent copy number alterations in the genome: taking among-subject heterogeneity seriously
-
Rueda OM, Diaz-Uriarte R, (2009) Detection of recurrent copy number alterations in the genome: taking among-subject heterogeneity seriously. Bmc Bioinformatics 10: 308.
-
(2009)
Bmc Bioinformatics
, vol.10
, pp. 308
-
-
Rueda, O.M.1
Diaz-Uriarte, R.2
-
27
-
-
77955883799
-
Detecting simultaneous changepoints in multiple sequences
-
Zhang NR, Siegmund DO, Ji HL, Li JZ, (2010) Detecting simultaneous changepoints in multiple sequences. Biometrika 97: 631-645.
-
(2010)
Biometrika
, vol.97
, pp. 631-645
-
-
Zhang, N.R.1
Siegmund, D.O.2
Ji, H.L.3
Li, J.Z.4
-
28
-
-
77949501694
-
CMDS: a population-based method for identifying recurrent DNA copy number aberrations in cancer from high-resolution data
-
Zhang QY, Ding L, Larson DE, Koboldt DC, McLellan MD, et al. (2010) CMDS: a population-based method for identifying recurrent DNA copy number aberrations in cancer from high-resolution data. Bioinformatics 26: 464-469.
-
(2010)
Bioinformatics
, vol.26
, pp. 464-469
-
-
Zhang, Q.Y.1
Ding, L.2
Larson, D.E.3
Koboldt, D.C.4
McLellan, M.D.5
-
29
-
-
62549158266
-
Computational methods for identification of recurrent copy number alteration patterns by array CGH
-
Shah SP, (2008) Computational methods for identification of recurrent copy number alteration patterns by array CGH. Cytogenetic and Genome Research 123: 343-351.
-
(2008)
Cytogenetic and Genome Research
, vol.123
, pp. 343-351
-
-
Shah, S.P.1
-
30
-
-
80055103494
-
Joint segmentation of many aCGH profiles using fast group LARS
-
Bleakley K, Vert J-P, (2009) Joint segmentation of many aCGH profiles using fast group LARS. HAL- CCSD.
-
(2009)
HAL - CCSD
-
-
Bleakley, K.1
Vert, J.-P.2
-
31
-
-
33748276243
-
STAC: A method for testing the significance of DNA copy number aberrations across multiple array-CGH experiments
-
Diskin SJ, Eck T, Greshock J, Mosse YP, Naylor T, et al. (2006) STAC: A method for testing the significance of DNA copy number aberrations across multiple array-CGH experiments. Genome Research 16: 1149-1158.
-
(2006)
Genome Research
, vol.16
, pp. 1149-1158
-
-
Diskin, S.J.1
Eck, T.2
Greshock, J.3
Mosse, Y.P.4
Naylor, T.5
-
32
-
-
27944455289
-
A comparison study: applying segmentation to array CGH data for downstream analyses
-
Willenbrock H, Fridlyand J, (2005) A comparison study: applying segmentation to array CGH data for downstream analyses. Bioinformatics 21: 4084-4091.
-
(2005)
Bioinformatics
, vol.21
, pp. 4084-4091
-
-
Willenbrock, H.1
Fridlyand, J.2
-
33
-
-
27544483495
-
Comparative analysis of algorithms for identifying amplifications and deletions in array CGH data
-
Lai WR, Johnson MD, Kucherlapati R, Park PJ, (2005) Comparative analysis of algorithms for identifying amplifications and deletions in array CGH data. Bioinformatics 21: 3763-3770.
-
(2005)
Bioinformatics
, vol.21
, pp. 3763-3770
-
-
Lai, W.R.1
Johnson, M.D.2
Kucherlapati, R.3
Park, P.J.4
-
34
-
-
34248660286
-
A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array
-
Yu TW, Ye H, Sun W, Li KC, Chen ZG, et al. (2007) A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array. Bmc Bioinformatics 8.
-
(2007)
Bmc Bioinformatics
, vol.8
-
-
Yu, T.W.1
Ye, H.2
Sun, W.3
Li, K.C.4
Chen, Z.G.5
-
35
-
-
37249032736
-
Spatial smoothing and hot spot detection for CGH data using the fused lasso
-
Tibshirani R, Wang P, (2008) Spatial smoothing and hot spot detection for CGH data using the fused lasso. Biostatistics 9: 18-29.
-
(2008)
Biostatistics
, vol.9
, pp. 18-29
-
-
Tibshirani, R.1
Wang, P.2
-
36
-
-
25444531432
-
A statistical approach for array CGH data analysis
-
Picard F, Robin S, Lavielle M, Vaisse C, Daudin JJ, (2005) A statistical approach for array CGH data analysis. Bmc Bioinformatics 6.
-
(2005)
Bmc Bioinformatics
, vol.6
-
-
Picard, F.1
Robin, S.2
Lavielle, M.3
Vaisse, C.4
Daudin, J.J.5
-
37
-
-
16344367718
-
Quantile smoothing of array CGH data
-
Eilers PHC, de Menezes RX, (2005) Quantile smoothing of array CGH data. Bioinformatics 21: 1146-1153.
-
(2005)
Bioinformatics
, vol.21
, pp. 1146-1153
-
-
Eilers, P.H.C.1
de Menezes, R.X.2
-
38
-
-
12344259648
-
Analysis of array CGH data: from signal ratio to gain and loss of DNA regions
-
Hupe P, Stransky N, Thiery JP, Radvanyi F, Barillot E, (2004) Analysis of array CGH data: from signal ratio to gain and loss of DNA regions. Bioinformatics 20: 3413-3422.
-
(2004)
Bioinformatics
, vol.20
, pp. 3413-3422
-
-
Hupe, P.1
Stransky, N.2
Thiery, J.P.3
Radvanyi, F.4
Barillot, E.5
-
39
-
-
33646163019
-
BioHMM: a heterogeneous hidden Markov model for segmenting array CGH data
-
Marioni JC, Thorne NP, Tavare S, (2006) BioHMM: a heterogeneous hidden Markov model for segmenting array CGH data. Bioinformatics 22: 1144-1146.
-
(2006)
Bioinformatics
, vol.22
, pp. 1144-1146
-
-
Marioni, J.C.1
Thorne, N.P.2
Tavare, S.3
-
40
-
-
69249232047
-
A highly annotated whole-genome sequence of a Korean individual
-
Kim JI, Ju YS, Park H, Kim S, Lee S, et al. (2009) A highly annotated whole-genome sequence of a Korean individual. Nature 460: 1011-U1096.
-
(2009)
Nature
, vol.460
-
-
Kim, J.I.1
Ju, Y.S.2
Park, H.3
Kim, S.4
Lee, S.5
|