NISC Comparative Sequencing Data

Supplemental Publication Data

  Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Datasets. (supplemental data) Citation: Arjun B. Prasad, Marc W. Allard, NISC Comparative Sequencing Program, Eric D. Green. Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Datasets. Molecular Biology and Evolution, 25(9):1795-808, 2008.

  Margulies, et al. 2006. Differences Between Pair-Wise and Multi-Sequence Alignment Methods Affect Vertebrate Genome Comparisons. (supplemental data) Citation: Elliott H. Margulies, Christina W. Chen, and Eric D. Green. Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons. Trends in Genetics, 22(4):187-93, 2006.

  Cooper, et al. 2005. Distribution and Intensity of Constraint in Mammalian Genomic Sequence. (supplemental data)
Citation: Gregory M. Cooper, Eric A. Stone, George Asimenos, NISC Comparative Sequencing Program, Eric D. Green, Serafim Batzoglou, Arend Sidow. Distribution and intensity of constraint in mammalian genomic sequence. Genome Research, 15(7):901-13, 2005.

  Margulies, et al. 2005. An Initial Strategy for the Systematic Identification of Functional Elements in the Human Genome by Low-Redundancy Comparative Sequencing. (supplemental data)
Citation: Elliott H. Margulies, Jade P. Vinson, NISC Comparative Sequencing Program, Webb Miller, David B. Jaffe, Kerstin Lindblad-Toh, Jean L. Chang, Eric D. Green, Eric S. Lander, James C. Mullikin, and Michele Clamp. An Initial Strategy for the Systematic Identification of Functional Elements in the Human Genome by Low-Redundancy Comparative Sequencing. PNAS, 102(13):4795-4800, 2005.

  Margulies, et al. 2005. Comparative Sequencing Provides Insights about the Structure and Conservation of Marsupial and Monotreme Genomes. (supplemental data)
Citation: Elliott H. Margulies, NISC Comparative Sequencing Program, Valerie V.B. Maduro, Pamela J. Thomas, Jeffery P. Tomkins, Chris T. Amemiya, Meizhong Luo, and Eric D. Green. Comparative Sequencing Provides Insights about the Structure and Conservation of Marsupial and Monotreme Genomes. PNAS, 102(9):3354-3359, 2005.

  Blakesley et al. 2004. An Intermediate Grade of Finished Genomic Sequence Suitable for Comparative Analyses. (supplemental data)
Citation: Robert W. Blakesley, Nancy F. Hansen, James C. Mullikin, Pamela J. Thomas, Jennifer C. McDowell, Baishali Maskeri, Alice C. Young, Beatrice Benjamin, Shelise Y. Brooks, Bradley I. Coleman, Jyoti Gupta, Shi-Ling Ho, Eric M. Karlins, Quino L. Maduro, Sirintorn Stantitrop, Cyrus Tsurgeon, Jennifer L. Vogt, Michelle A. Walker, Catherine A. Masiello, Xiaobin Guan, NISC Comparative Sequencing Program, Gerard G. Bouffard, and Eric D. Green. An Intermediate Grade of Finished Genomic Sequence Suitable for Comparative Analyses. Genome Research, 14(11):2235-44, 2004.

  Angata et al. 2004. Large-scale sequencing of the CD33-related Siglec gene cluster in five mammalian species reveals rapid evolution by multiple mechanisms. (supplemental data)
Citation: Takashi Angata, Elliott H. Margulies, Eric D. Green, and Ajit Varki. Large-scale sequencing of the CD33-related Siglec gene cluster in five mammalian species reveals rapid evolution by multiple mechanisms. PNAS, 101(36):13251-13256, 2004.

  Hwang, et al. 2004. Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution. (supplemental data | alignment data )
Citation: Dick G. Hwang and Phil Green. Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution. PNAS, 101(39):13994-4001, 2004.

  Margulies, et al. 2003. Identification and Characterization of Multi-Species Conserved Sequences. (supplemental data)
Citation: Elliott H. Margulies, Mathieu Blanchette, NISC Comparative Sequencing Program, David Haussler, and Eric D. Green. Identification and Characterization of Multi-Species Conserved Sequences. Genome Res. 2003;13 2507-2518.

  Thomas, et al. 2003. Comparative analyses of multi-species sequences from targeted genomic regions. (supplemental data | alignment data )
Citation: Thomas, J.W., J.W. Touchman, R.W. Blakesley, G.G. Bouffard, S.M. Beckstrom-Sternberg, E.H. Margulies, M. Blanchette, A.C. Siepel, P.J. Thomas, J.C. McDowell, B. Maskeri, N.F. Hansen, M.S. Schwartz, R.J. Weber, W.J. Kent, D. Karolchik, T.C. Bruen, R. Bevan, D.J. Cutler, S. Schwartz, L. Elnitski, J.R. Idol, A.B. Prasad, S.-Q. Lee-Lin, V.V.B. Maduro, T.J. Summers, M.E. Portnoy, N.L. Dietrich, N. Akhter, K. Ayele, B. Benjamin, K. Cariaga, C.P. Brinkley, S.Y. Brooks, S. Granite, X. Guan, J. Gupta, P. Haghihi, S.-L. Ho, M.C. Huang, E. Karlins, P.L. Laric, R. Legaspi, M.J. Lim, Q.L. Maduro, C.A. Masiello, S.D. Mastrian, J.C. McCloskey, R. Pearson, S. Stantripop, E.E. Tiongson, J.T. Tran, C. Tsurgeon, J.L. Vogt, M.A. Walker, K.D. Wetherby, L.S. Wiggins, A.C. Young, L.-H. Zhang, K. Osoegawa, B. Zhu, B. Zhao, C.L. Shu, P.J. De Jong, C.E. Lawrence, A.F. Smit, A. Chakravarti, D. Haussler, P. Green, W. Miller & E. D. Green. Comparative analyses of multi-species sequences from targeted genomic regions. Nature, 424:788-793, 2003.

  Thomas, et al. 2003. Comparative sequence analysis of a single-gene conserved segment in mouse and human. (supplemental data)
Citation: Thomas, James W., NISC Comparative Sequencing Program and Eric D. Green. Comparative sequence analysis of a single-gene conserved segment in mouse and human. Mammalian Genome, 14(10), 2003.

  Thomas, et al. 2003. Pericentromeric Duplications in the Laboratory Mouse. ( supplemental data )
Citation: Thomas, James W., Mary G. Schueler, Tyrone J. Summers, Robert W. Blakesley, Jennifer C. McDowell, Pamela J. Thomas, Jacquelyn R. Idol, Valerie V.B. Maduro, Shih-Queen Lee-Lin, Jeffrey W. Touchman, Gerard G. Bouffard, Stephen M. Beckstrom-Sternberg, NISC Comparative Sequencing Program, and Eric D. Green. Pericentromeric Duplications in the Laboratory Mouse. Genome Research, 13(1):55-63, 2003.

  Green, et al. 2003. Transcription-associated mutational asymmetry in mammalian evolution. (supplemental data )
Citation: Green, Phil, Brent Ewing, Webb Miller, Pamela J. Thomas, NISC Comparative Sequencing Program, and Eric D. Green. Transcription-associated mutational asymmetry in mammalian evolution. Nature Genetics, 10:1038, 2003.