![[Feedback]](/icons/banner/feedbackACT.gif){kind=icon}
![[For Subscribers]](/icons/banner/subscriberACT.gif){kind=icon}
![[Archive]](/icons/banner/archiveACT.gif){kind=icon}
![[Search]](/icons/banner/searchACT.gif){kind=icon}
![[Contents]](/icons/banner/tocACT.gif){kind=icon}
|
|
|
|
|
||
Published online before print
May 8, 2001, 10.1101/gr.GR-1871R
Vol. 11, Issue 6, 1005-1017, June 2001
LETTER
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
|
|
 |
|
  S. Kirsch, C. Munch, Z. Jiang, Z. Cheng, L. Chen, C. Batz, E. E. Eichler, and W. Schempp Evolutionary dynamics of segmental duplications from human Y-chromosomal euchromatin/heterochromatin transition regions Genome Res., July 1, 2008; 18(7): 1030 - 1042. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. S. Lee, M. Gutierrez-Arcelus, G. H. Perry, E. J. Vallender, W. E. Johnson, G. M. Miller, J. O. Korbel, and C. Lee Analysis of copy number variation in the rhesus macaque genome identifies candidate loci for evolutionary and human disease studies Hum. Mol. Genet., April 15, 2008; 17(8): 1127 - 1136. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 E. Frittoli, A. Palamidessi, A. Pizzigoni, L. Lanzetti, M. Garre, F. Troglio, A. Troilo, M. Fukuda, P. P. Di Fiore, G. Scita, et al. The Primate-specific Protein TBC1D3 Is Required for Optimal Macropinocytosis in a Novel ARF6-dependent Pathway Mol. Biol. Cell, April 1, 2008; 19(4): 1304 - 1316. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. S. Johnson, W. Li, D. B. Gordon, A. Bhattacharjee, B. Curry, J. Ghosh, L. Brizuela, J. S. Carroll, M. Brown, P. Flicek, et al. Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets Genome Res., March 1, 2008; 18(3): 393 - 403. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Gordon, S. Yang, M. Tran-Gyamfi, D. Baggott, M. Christensen, A. Hamilton, R. Crooijmans, M. Groenen, S. Lucas, I. Ovcharenko, et al. Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions Genome Res., November 1, 2007; 17(11): 1603 - 1613. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Wang, M. Li, D. Hadley, R. Liu, J. Glessner, S. F.A. Grant, H. Hakonarson, and M. Bucan PennCNV: An integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data Genome Res., November 1, 2007; 17(11): 1665 - 1674. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. W. Hahn, J. P. Demuth, and S.-G. Han Accelerated Rate of Gene Gain and Loss in Primates Genetics, November 1, 2007; 177(3): 1941 - 1949. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. E. Madsen, P. Villesen, and C. Wiuf A periodic pattern of SNPs in the human genome Genome Res., October 1, 2007; 17(10): 1414 - 1419. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A.-S. Fiston-Lavier, D. Anxolabehere, and H. Quesneville A model of segmental duplication formation in Drosophila melanogaster Genome Res., October 1, 2007; 17(10): 1458 - 1470. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 Rhesus Macaque Genome Sequencing and Analysis Cons, R. A. Gibbs, J. Rogers, M. G. Katze, R. Bumgarner, G. M. Weinstock, E. R. Mardis, K. A. Remington, R. L. Strausberg, J. C. Venter, et al. Evolutionary and Biomedical Insights from the Rhesus Macaque Genome Science, April 13, 2007; 316(5822): 222 - 234. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. A. Harris, J. Rogers, and A. Milosavljevic Human-Specific Changes of Genome Structure Detected by Genomic Triangulation Science, April 13, 2007; 316(5822): 235 - 237. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Flores, L. Morales, C. Gonzaga-Jauregui, R. Dominguez-Vidana, C. Zepeda, O. Yanez, M. Gutierrez, T. Lemus, D. Valle, Ma. C. Avila, et al. Inaugural Article: Recurrent DNA inversion rearrangements in the human genome PNAS, April 10, 2007; 104(15): 6099 - 6106. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. J. Thomas, H. Trumbower, A. D. Kern, B. L. Rhead, R. M. Kuhn, D. Haussler, and W. J. Kent Variation resources at UC Santa Cruz Nucleic Acids Res., January 12, 2007; 35(suppl_1): D716 - D720. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Ma, L. Zhang, B. B. Suh, B. J. Raney, R. C. Burhans, W. J. Kent, M. Blanchette, D. Haussler, and W. Miller Reconstructing contiguous regions of an ancestral genome Genome Res., December 1, 2006; 16(12): 1557 - 1565. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. E. Johnson, NISC Comparative Sequencing Program, Z. Cheng, V. A. Morrison, S. Scherer, M. Ventura, R. A. Gibbs, E. D. Green, and E. E. Eichler Eukaryotic Transposable Elements and Genome Evolution Special Feature: Recurrent duplication-driven transposition of DNA during hominoid evolution PNAS, November 21, 2006; 103(47): 17626 - 17631. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 V.A. Westbrook, P.D. Schoppee, G.R. Vanage, K.L. Klotz, A.B. Diekman, C.J. Flickinger, M.A. Coppola, and J.C. Herr Hominoid-specific SPANXA/D genes demonstrate differential expression in individuals and protein localization to a distinct nuclear envelope domain during spermatid morphogenesis Mol. Hum. Reprod., November 1, 2006; 12(11): 703 - 716. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 V. Shoja and L. Zhang A Roadmap of Tandemly Arrayed Genes in the Genomes of Human, Mouse, and Rat Mol. Biol. Evol., November 1, 2006; 23(11): 2134 - 2141. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
W. E. Johnson, W. Li, C. A. Meyer, R. Gottardo, J. S. Carroll, M. Brown, and X. S. Liu Model-based analysis of tiling-arrays for ChIP-chip PNAS, August 15, 2006; 103(33): 12457 - 12462. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Huntley, D. M. Baggott, A. T. Hamilton, M. Tran-Gyamfi, S. Yang, J. Kim, L. Gordon, E. Branscomb, and L. Stubbs A comprehensive catalog of human KRAB-associated zinc finger genes: Insights into the evolutionary history of a large family of transcriptional repressors Genome Res., May 1, 2006; 16(5): 669 - 677. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. T. Hamilton, S. Huntley, M. Tran-Gyamfi, D. M. Baggott, L. Gordon, and L. Stubbs Evolutionary expansion and divergence in the ZNF91 subfamily of primate-specific zinc finger genes Genome Res., May 1, 2006; 16(5): 584 - 594. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
X. She, G. Liu, M. Ventura, S. Zhao, D. Misceo, R. Roberto, M. F. Cardone, M. Rocchi, NISC Comparative Sequencing Program, E. D. Green, et al. A preliminary comparative analysis of primate segmental duplications shows elevated substitution rates and a great-ape expansion of intrachromosomal duplications Genome Res., May 1, 2006; 16(5): 576 - 583. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D Lugtenberg, A P M de Brouwer, T Kleefstra, A R Oudakker, S G M Frints, C T R M Schrander-Stumpel, J P Fryns, L R Jensen, J Chelly, C Moraine, et al. Chromosomal copy number changes in patients with non-syndromic X linked mental retardation detected by array CGH J. Med. Genet., April 1, 2006; 43(4): 362 - 370. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. S. Hinrichs, D. Karolchik, R. Baertsch, G. P. Barber, G. Bejerano, H. Clawson, M. Diekhans, T. S. Furey, R. A. Harte, F. Hsu, et al. The UCSC Genome Browser Database: update 2006 Nucleic Acids Res., January 1, 2006; 34(suppl_1): D590 - D598. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E. Bowers, M. A. Arias, R. Asher, J. A. Avise, R. T. Ball, G. A. Brewer, R. W. Buss, A. H. Chen, T. M. Edwards, J. C. Estill, et al. Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses PNAS, September 13, 2005; 102(37): 13206 - 13211. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Rowen, E. Williams, G. Glusman, E. Linardopoulou, C. Friedman, M. E. Ahearn, J. Seto, C. Boysen, S. Qin, K. Wang, et al. Interchromosomal Segmental Duplications Explain the Unusual Structure of PRSS3, the Gene for an Inhibitor-Resistant Trypsinogen Mol. Biol. Evol., August 1, 2005; 22(8): 1712 - 1720. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E. Horvath, C. L. Gulden, R. U. Vallente, M. Y. Eichler, M. Ventura, J. D. McPherson, T. A. Graves, R. K. Wilson, S. Schwartz, M. Rocchi, et al. Punctuated duplication seeding events during the evolution of human chromosome 2p11 Genome Res., July 1, 2005; 15(7): 914 - 927. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. C. Ferreri, D. M. Liscinsky, J. A. Mack, M. D. B. Eldridge, and R. J. O'Neill Retention of Latent Centromeres in the Mammalian Genome J. Hered., May 1, 2005; 96(3): 217 - 224. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. A. Fraser, J. C. Huang, R. Pukkila-Worley, J. A. Alspaugh, T. G. Mitchell, and J. Heitman Chromosomal Translocation and Segmental Duplication in Cryptococcus neoformans Eukaryot. Cell, February 1, 2005; 4(2): 401 - 406. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Kirsch, B. Weiss, T. L. Miner, R. H. Waterston, R. A. Clark, E. E. Eichler, C. Munch, W. Schempp, and G. Rappold Interchromosomal segmental duplications of the pericentromeric region on the human Y chromosome Genome Res., February 1, 2005; 15(2): 195 - 204. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Misceo, M. F. Cardone, L. Carbone, P. D'Addabbo, P. J. de Jong, M. Rocchi, and N. Archidiacono Evolutionary History of Chromosome 20 Mol. Biol. Evol., February 1, 2005; 22(2): 360 - 366. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Zhang, H. H. S. Lu, W.-y. Chung, J. Yang, and W.-H. Li Patterns of Segmental Duplication in the Human Genome Mol. Biol. Evol., January 1, 2005; 22(1): 135 - 141. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Stankiewicz, C. J. Shaw, M. Withers, K. Inoue, and J. R. Lupski Serial segmental duplications during primate evolution result in complex human genome architecture Genome Res., November 1, 2004; 14(11): 2209 - 2220. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Khaitovich, B. Muetzel, X. She, M. Lachmann, I. Hellmann, J. Dietzsch, S. Steigele, H.-H. Do, G. Weiss, W. Enard, et al. Regional Patterns of Gene Expression in Human and Chimpanzee Brains Genome Res., August 1, 2004; 14(8): 1462 - 1473. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. C. Chen, J. Saarela, R. A. Clark, T. Miettinen, A. Chi, E. E. Eichler, L. Peltonen, and A. Palotie Segmental Duplications Flank the Multiple Sclerosis Locus on Chromosome 17q Genome Res., August 1, 2004; 14(8): 1483 - 1492. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 Y. Fu, A.-P. Hsia, L. Guo, and P. S. Schnable Types and Frequencies of Sequencing Errors in Methyl-Filtered and High C0t Maize Genome Survey Sequences Plant Physiology, August 1, 2004; 135(4): 2040 - 2045. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. A. Bailey, D. M. Church, M. Ventura, M. Rocchi, and E. E. Eichler Analysis of Segmental Duplications and Genome Assembly in the Mouse Genome Res., May 1, 2004; 14(5): 789 - 801. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Tuzun, J. A. Bailey, and E. E. Eichler Recent Segmental Duplications in the Working Draft Assembly of the Brown Norway Rat Genome Res., April 1, 2004; 14(4): 493 - 506. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. J. Shaw and J. R. Lupski Implications of human genome architecture for rearrangement-based disorders: the genomic basis of disease Hum. Mol. Genet., April 1, 2004; 13(90001): R57 - 64. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D P Locke, R Segraves, R D Nicholls, S Schwartz, D Pinkel, D G Albertson, and E E Eichler BAC microarray analysis of 15q11-q13 rearrangements and the impact of segmental duplications J. Med. Genet., March 1, 2004; 41(3): 175 - 182. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Jurka, O. Kohany, A. Pavlicek, V. V. Kapitonov, and M. V. Jurka Duplication, coclustering, and selection of human Alu retrotransposons PNAS, February 3, 2004; 101(5): 1268 - 1272. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Riethman, A. Ambrosini, C. Castaneda, J. Finklestein, X.-L. Hu, U. Mudunuri, S. Paul, and J. Wei Mapping and Initial Analysis of Human Subtelomeric Sequence Assemblies Genome Res., January 1, 2004; 14(1): 18 - 28. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. V. Roschke, G. Tonon, K. S. Gehlhaus, N. McTyre, K. J. Bussey, S. Lababidi, D. A. Scudiero, J. N. Weinstein, and I. R. Kirsch Karyotypic Complexity of the NCI-60 Drug-Screening Panel Cancer Res., December 15, 2003; 63(24): 8634 - 8647. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A.-M. Laurent, M. Li, S. Sherman, G. Roizes, and J. Buard Recombination across the centromere of disjoined and non-disjoined chromosome 21 Hum. Mol. Genet., September 1, 2003; 12(17): 2229 - 2239. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Ventura, J. M. Mudge, V. Palumbo, S. Burn, E. Blennow, M. Pierluigi, R. Giorda, O. Zuffardi, N. Archidiacono, M. S. Jackson, et al. Neocentromeres in 15q24-26 Map to Duplicons Which Flanked an Ancestral Centromere in 15q25 Genome Res., September 1, 2003; 13(9): 2059 - 2068. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E. Horvath, C. L. Gulden, J. A. Bailey, C. Yohn, J. D. Mcpherson, A. Prescott, B. A. Roe, P. J de Jong, M. Ventura, D. Misceo, et al. Using a Pericentromeric Interspersed Repeat to Recapitulate the Phylogeny and Expansion of Human Centromeric Segmental Duplications Mol. Biol. Evol., September 1, 2003; 20(9): 1463 - 1479. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. C.-C. Shih and W.-H. Li GS-Aligner: A Novel Tool for Aligning Genomic Sequences Using Bit-Level Operations Mol. Biol. Evol., August 1, 2003; 20(8): 1299 - 1309. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Ejima and L. Yang Trans mobilization of genomic DNA as a mechanism for retrotransposon-mediated exon shuffling Hum. Mol. Genet., June 1, 2003; 12(11): 1321 - 1328. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. Newman and B. J. Trask Complex Evolution of 7E Olfactory Receptor Genes in Segmental Duplications Genome Res., May 1, 2003; 13(5): 781 - 793. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Courseaux, F. Richard, J. Grosgeorge, C. Ortola, A. Viale, C. Turc-Carel, B. Dutrillaux, P. Gaudray, and J.-L. Nahon Segmental Duplications in Euchromatic Regions of Human Chromosome 5: A Source of Evolutionary Instability and Transcriptional Innovation Genome Res., March 1, 2003; 13(3): 369 - 381. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Guy, T. Hearn, M. Crosier, J. Mudge, L. Viggiano, D. Koczan, H.-J. Thiesen, J. A. Bailey, J. E. Horvath, E. E. Eichler, et al. Genomic Sequence and Transcriptional Profile of the Boundary Between Pericentromeric Satellites and Genes on Human Chromosome Arm 10p Genome Res., February 1, 2003; 13(2): 159 - 172. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. W. Thomas, M. G. Schueler, T. J. Summers, R. W. Blakesley, J. C. McDowell, P. J. Thomas, J. R. Idol, V. V.B. Maduro, S.-Q. Lee-Lin, J. W. Touchman, et al. Pericentromeric Duplications in the Laboratory Mouse Genome Res., January 1, 2003; 13(1): 55 - 63. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Hurles, J. Bailey, and E. Eichler Are 100,000 "SNPs" Useless? Science, November 22, 2002; 298(5598): 1509a - 1509. [Full Text] [PDF]
|
|
|
|
|
|
E. C. Rouchka, W. Gish, and D. J. States Comparison of whole genome assemblies of the human genome Nucleic Acids Res., November 15, 2002; 30(22): 5004 - 5014. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Fan, E. Linardopoulou, C. Friedman, E. Williams, and B. J. Trask Genomic Structure and Evolution of the Ancestral Chromosome Fusion Site in 2q13-2q14.1 and Paralogous Regions on Other Human Chromosomes Genome Res., November 1, 2002; 12(11): 1651 - 1662. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Der-Sarkissian, G. Vergnaud, Y.-M. Borde, G. Thomas, and J.-A. Londono-Vallejo Segmental Polymorphisms in the Proterminal Regions of a Subset of Human Chromosomes Genome Res., November 1, 2002; 12(11): 1673 - 1678. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Katsanis, K. C. Worley, G. Gonzalez, S. J. Ansley, and J. R. Lupski |
1 kb in length).
Duplications (90%-98%;