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Volume 12, Issue 11: November 2002 [Index by Author]  [Cover Caption] 

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Other Issues:
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  ERRATUM
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ARTICLES:

Arne Müller, Robert M. MacCallum, and Michael J.E. Sternberg
Structural Characterization of the Human Proteome
Genome Res. 2002 12: 1625-1641. [Abstract] [Full Text] [Supplemental Research Data]  

LETTERS:

Henrik Kaessmann, Sebastian Zöllner, Anton Nekrutenko, and Wen-Hsiung Li
Signatures of Domain Shuffling in the Human Genome
Genome Res. 2002 12: 1642-1650. [Abstract] [Full Text]  

Yuxin Fan, Elena Linardopoulou, Cynthia Friedman, Eleanor Williams, and Barbara 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. 2002 12: 1651-1662. [Abstract] [Full Text] [Supplemental Research Data]  

Yuxin Fan, Tera Newman, Elena Linardopoulou, and Barbara J. Trask
Gene Content and Function of the Ancestral Chromosome Fusion Site in Human Chromosome 2q13-2q14.1 and Paralogous Regions
Genome Res. 2002 12: 1663-1672. [Abstract] [Full Text]  

Hera Der-Sarkissian, Gilles Vergnaud, Yves-Marie Borde, Gilles Thomas, and José-Arturo Londoño-Vallejo
Segmental Polymorphisms in the Proterminal Regions of a Subset of Human Chromosomes
Genome Res. 2002 12: 1673-1678. [Abstract] [Full Text]  

Zhongming Zhao and Eric Boerwinkle
Neighboring-Nucleotide Effects on Single Nucleotide Polymorphisms: A Study of 2.6 Million Polymorphisms Across the Human Genome
Genome Res. 2002 12: 1679-1686. [Abstract] [Full Text]  

Neema Jamshidi, Sharon J. Wiback, and Bernhard Ø. Palsson
In Silico Model-Driven Assessment of the Effects of Single Nucleotide Polymorphisms (SNPs) on Human Red Blood Cell Metabolism
Genome Res. 2002 12: 1687-1692. [Abstract] [Full Text]  

Laura A. Cox, Shifra Birnbaum, and John L. VandeBerg
Identification of Candidate Genes Regulating HDL Cholesterol Using a Chromosomal Region Expression Array
Genome Res. 2002 12: 1693-1702. Published in Advance October 15, 2002, 10.1101/gr.333502 [Abstract] [Full Text]  

Alvaro Mateos, Joaquín Dopazo, Ronald Jansen, Yuhai Tu, Mark Gerstein, and Gustavo Stolovitzky
Systematic Learning of Gene Functional Classes From DNA Array Expression Data by Using Multilayer Perceptrons
Genome Res. 2002 12: 1703-1715. [Abstract] [Full Text]  

Yi-Hong Zhou, Jessica B. Zheng, Xun Gu, Grady F. Saunders, and W.-K. Alfred Yung
Novel PAX6 Binding Sites in the Human Genome and the Role of Repetitive Elements in the Evolution of Gene Regulation
Genome Res. 2002 12: 1716-1722. [Abstract] [Full Text]  

Priya Sudarsanam, Yitzhak Pilpel, and George M. Church
Genome-wide Co-occurrence of Promoter Elements Reveals a cis-Regulatory Cassette of rRNA Transcription Motifs in Saccharomyces cerevisiae
Genome Res. 2002 12: 1723-1731. [Abstract] [Full Text]  

Martijn E.T. Dollé and Jan Vijg
Genome Dynamics in Aging Mice
Genome Res. 2002 12: 1732-1738. [Abstract] [Full Text]  

Ria Holzerlandt, Christine Orengo, Paul Kellam, and M. Mar Albà
Identification of New Herpesvirus Gene Homologs in the Human Genome
Genome Res. 2002 12: 1739-1748. Published in Advance October 15, 2002, 10.1101/gr.334302 [Abstract] [Full Text]  

METHODS:

Emile F. Nuwaysir, Wei Huang, Thomas J. Albert, Jaz Singh, Kate Nuwaysir, Alan Pitas, Todd Richmond, Tom Gorski, James P. Berg, Jeff Ballin, Mark McCormick, Jason Norton, Tim Pollock, Terry Sumwalt, Lawrence Butcher, DeAnn Porter, Michael Molla, Christine Hall, Fred Blattner, Michael R. Sussman, Rodney L. Wallace, Franco Cerrina, and Roland D. Green
Gene Expression Analysis Using Oligonucleotide Arrays Produced by Maskless Photolithography
Genome Res. 2002 12: 1749-1755. [Abstract] [Full Text]  

John J. Dunn, Sean R. McCorkle, Laura A. Praissman, Geoffrey Hind, Daniel van der Lelie, Wadie F. Bahou, Dmitri V. Gnatenko, and Maureen K. Krause
Genomic Signature Tags (GSTs): A System for Profiling Genomic DNA
Genome Res. 2002 12: 1756-1765. [Abstract] [Full Text]  

Joanna L. Mountain, Alec Knight, Matthew Jobin, Christopher Gignoux, Adam Miller, Alice A. Lin, and Peter A. Underhill
SNPSTRs: Empirically Derived, Rapidly Typed, Autosomal Haplotypes for Inference of Population History and Mutational Processes
Genome Res. 2002 12: 1766-1772. [Abstract] [Full Text] [Supplemental Research Data]  

Manabu Nakayama, Reiko Kikuno, and Osamu Ohara
Protein-Protein Interactions Between Large Proteins: Two-Hybrid Screening Using a Functionally Classified Library Composed of Long cDNAs
Genome Res. 2002 12: 1773-1784. Published in Advance October 15, 2002, 10.1101/gr.406902 [Abstract] [Full Text] [Supplemental Research Data]  

Ilya G. Serebriiskii, Olga Mitina, Elena N. Pugacheva, Elizaveta Benevolenskaya, Elena Kotova, Garabet G. Toby, Vladimir Khazak, William G. Kaelin, Jonathan Chernoff, and Erica A. Golemis
Detection of Peptides, Proteins, and Drugs That Selectively Interact With Protein Targets
Genome Res. 2002 12: 1785-1791. [Abstract] [Full Text] [Supplemental Research Data]  

Klaas Vandepoele, Yvan Saeys, Cedric Simillion, Jeroen Raes, and Yves Van de Peer
The Automatic Detection of Homologous Regions (ADHoRe) and Its Application to Microcolinearity Between Arabidopsis and Rice
Genome Res. 2002 12: 1792-1801. [Abstract] [Full Text]  

ERRATUM:

Erratum for vol. 12, p. 1015
Genome Res. 2002 12: 1802. [Full Text]  

To see an article, click its [Full Text] link. To review many abstracts, check the boxes to the left of the titles you want, and click the 'Get All Checked Abstract(s)' button. To see one abstract at a time, click its [Abstract] link.

Cover Caption:

Cover

The art of biotechnology-DNA "expressionism": This image demonstrates the inherent flexibility of high-density oligonucleotide arrays produced by the maskless procedure described in the paper by Nuwaysir et al. To produce this image, van Gogh's The Starry Night was digitized and converted to a four-level gray-scale image. A distinct 18mer oligonucleotide probe corresponding to perfect match sequence---or one, two, or three mismatches---was assigned to each of the four gray-scale values. Virtual masks were then designed using this information and an array was synthesized using the NimbleGen MAS technology. After synthesis, the array was hybridized with a single biotinylated oligonucleotide target corresponding to the perfect match sequence, stained with streptavidin-cy3, and the resulting hybridization data converted back to a color image. Like Impressionism, genomics (e.g., whole-genome gene expression data, i.e., "expressionism") asks the observer to absorb the entire molecular scene rather than focusing on one detail. Thus, like Impressionist art, genomics offers a radical change in the manner in which experimental biology is approached. (Vincent Van Gogh, The Starry Night, 1889, was used with permission of The Museum of Modern Art/licensed by Scala/Art Resource, NY. [For details, see Nuwaysir et al., pp. 1749-1755.])


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