Table of Contents

Structural Characterization of the Human Proteome

• Arne Müller,
• Robert M. MacCallum,
• and Michael J.E. Sternberg

Signatures of Domain Shuffling in the Human Genome

• Henrik Kaessmann,
• Sebastian Zöllner,
• Anton Nekrutenko,
• and Wen-Hsiung Li

Genomic Structure and Evolution of the Ancestral Chromosome Fusion Site in 2q13–2q14.1 and Paralogous Regions on Other Human Chromosomes

• Yuxin Fan,
• Elena Linardopoulou,
• Cynthia Friedman,
• Eleanor Williams,
• and Barbara J. Trask

Gene Content and Function of the Ancestral Chromosome Fusion Site in Human Chromosome 2q13–2q14.1 and Paralogous Regions

• Yuxin Fan,
• Tera Newman,
• Elena Linardopoulou,
• and Barbara J. Trask

Segmental Polymorphisms in the Proterminal Regions of a Subset of Human Chromosomes

• Hera Der-Sarkissian,
• Gilles Vergnaud,
• Yves-Marie Borde,
• Gilles Thomas,
• and José-Arturo Londoño-Vallejo

Neighboring-Nucleotide Effects on Single Nucleotide Polymorphisms: A Study of 2.6 Million Polymorphisms Across the Human Genome

• Zhongming Zhao
• and Eric Boerwinkle

In Silico Model-Driven Assessment of the Effects of Single Nucleotide Polymorphisms (SNPs) on Human Red Blood Cell Metabolism

• Neema Jamshidi,
• Sharon J. Wiback,
• and Bernhard Ø. Palsson

Identification of Candidate Genes Regulating HDL Cholesterol Using a Chromosomal Region Expression Array

• Laura A. Cox,
• Shifra Birnbaum,
• and John L. VandeBerg

Systematic Learning of Gene Functional Classes From DNA Array Expression Data by Using Multilayer Perceptrons

• Alvaro Mateos,
• Joaquı́n Dopazo,
• Ronald Jansen,
• Yuhai Tu,
• Mark Gerstein,
• and Gustavo Stolovitzky

Novel PAX6 Binding Sites in the Human Genome and the Role of Repetitive Elements in the Evolution of Gene Regulation

• Yi-Hong Zhou,
• Jessica B. Zheng,
• Xun Gu,
• Grady F. Saunders,
• and W.-K. Alfred Yung

Genome-wide Co-occurrence of Promoter Elements Reveals a cis-Regulatory Cassette of rRNA Transcription Motifs in Saccharomyces cerevisiae

• Priya Sudarsanam,
• Yitzhak Pilpel,
• and George M. Church

Genome Dynamics in Aging Mice

• Martijn E.T. Dollé
• and Jan Vijg

Identification of New Herpesvirus Gene Homologs in the Human Genome

• Ria Holzerlandt,
• Christine Orengo,
• Paul Kellam,
• and M. Mar Albà

Gene Expression Analysis Using Oligonucleotide Arrays Produced by Maskless Photolithography

• 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

Genomic Signature Tags (GSTs): A System for Profiling Genomic DNA

• 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

SNPSTRs: Empirically Derived, Rapidly Typed, Autosomal Haplotypes for Inference of Population History and Mutational Processes

• Joanna L. Mountain,
• Alec Knight,
• Matthew Jobin,
• Christopher Gignoux,
• Adam Miller,
• Alice A. Lin,
• and Peter A. Underhill

Protein–Protein Interactions Between Large Proteins: Two-Hybrid Screening Using a Functionally Classified Library Composed of Long cDNAs

• Manabu Nakayama,
• Reiko Kikuno,
• and Osamu Ohara

Detection of Peptides, Proteins, and Drugs That Selectively Interact With Protein Targets

• 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

The Automatic Detection of Homologous Regions (ADHoRe) and Its Application to Microcolinearity Between Arabidopsis and Rice

• Klaas Vandepoele,
• Yvan Saeys,
• Cedric Simillion,
• Jeroen Raes,
• and Yves Van de Peer

Erratum for vol. 12, p. 1015