Table of Contents

ARTICLES

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Interchromosomal segmental duplications of the pericentromeric region on the human Y chromosome
- Stefan Kirsch,
- Birgit Weiß,
- Tracie L. Miner,
- Robert H. Waterston,
- Royden A. Clark,
- Evan E. Eichler,
- Claudia Münch,
- Werner Schempp,
- and Gudrun Rappold
Genome Res. February 2005 15: 195-204; Published in Advance January 14, 2005, doi:10.1101/gr.3302705
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Genome-wide regulatory complexity in yeast promoters: Separation of functionally conserved and neutral sequence
- Chen-Shan Chin,
- Jeffrey H. Chuang,
- and Hao Li
Genome Res. February 2005 15: 205-213; Published in Advance January 14, 2005, doi:10.1101/gr.3243305

LETTERS

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Gene conversion and evolution of Xq28 duplicons involved in recurring inversions causing severe hemophilia A
- Richard D. Bagnall,
- Karen L. Ayres,
- Peter M. Green,
- and Francesco Giannelli
Genome Res. February 2005 15: 214-223; doi:10.1101/gr.2946205
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A comparison of the human and chimpanzee olfactory receptor gene repertoires
- Yoav Gilad,
- Orna Man,
- and Gustavo Glusman
Genome Res. February 2005 15: 224-230; doi:10.1101/gr.2846405
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Divergent V1R repertoires in five species: Amplification in rodents, decimation in primates, and a surprisingly small repertoire in dogs
- Janet M. Young,
- Marijo Kambere,
- Barbara J. Trask,
- and Robert P. Lane
Genome Res. February 2005 15: 231-240; Published in Advance January 14, 2005, doi:10.1101/gr.3339905
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A high-resolution multistrain haplotype analysis of laboratory mouse genome reveals three distinctive genetic variation patterns
- Jinghui Zhang,
- Kent W. Hunter,
- Michael Gandolph,
- William L. Rowe,
- Richard P. Finney,
- Jenny M. Kelley,
- Michael Edmonson,
- and Kenneth H. Buetow
Genome Res. February 2005 15: 241-249; doi:10.1101/gr.2901705
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New genes with roles in the C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones
- Anita G. Fernandez,
- Kristin C. Gunsalus,
- Jerry Huang,
- Ling-Shiang Chuang,
- Nancy Ying,
- Hsiao-lan Liang,
- Caroline Tang,
- Aaron J. Schetter,
- Charles Zegar,
- Jean-François Rual,
- David E. Hill,
- Valerie Reinke,
- Marc Vidal,
- and Fabio Piano
Genome Res. February 2005 15: 250-259; doi:10.1101/gr.3194805
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Selection-driven transcriptome polymorphism in Escherichia coli/Shigella species
- Tony Le Gall,
- Pierre Darlu,
- Patricia Escobar-Páramo,
- Bertrand Picard,
- and Erick Denamur
Genome Res. February 2005 15: 260-268; doi:10.1101/gr.2405905

Methods

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Highly multiplexed molecular inversion probe genotyping: Over 10,000 targeted SNPs genotyped in a single tube assay
- Paul Hardenbol,
- Fuli Yu,
- John Belmont,
- Jennifer MacKenzie,
- Carsten Bruckner,
- Tiffany Brundage,
- Andrew Boudreau,
- Steve Chow,
- Jim Eberle,
- Ayca Erbilgin,
- Mat Falkowski,
- Ron Fitzgerald,
- Sy Ghose,
- Oleg Iartchouk,
- Maneesh Jain,
- George Karlin-Neumann,
- Xiuhua Lu,
- Xin Miao,
- Bridget Moore,
- Martin Moorhead,
- Eugeni Namsaraev,
- Shiran Pasternak,
- Eunice Prakash,
- Karen Tran,
- Zhiyong Wang,
- Hywel B. Jones,
- Ronald W. Davis,
- Thomas D. Willis,
- and Richard A. Gibbs
Genome Res. February 2005 15: 269-275; doi:10.1101/gr.3185605
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A genotyping system capable of simultaneously analyzing >1000 single nucleotide polymorphisms in a haploid genome
- Hui-Yun Wang,
- Minjie Luo,
- Irina V. Tereshchenko,
- Danielle M. Frikker,
- Xiangfeng Cui,
- James Y. Li,
- Guohong Hu,
- Yi Chu,
- Marco A. Azaro,
- Yong Lin,
- Li Shen,
- Qifeng Yang,
- Manousos E. Kambouris,
- Richeng Gao,
- Weichung Shih,
- and Honghua Li
Genome Res. February 2005 15: 276-283; doi:10.1101/gr.2885205
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Simultaneous genotyping, gene-expression measurement, and detection of allele-specific expression with oligonucleotide arrays
- James Ronald,
- Joshua M. Akey,
- Jacqueline Whittle,
- Erin N. Smith,
- Gael Yvert,
- and Leonid Kruglyak
Genome Res. February 2005 15: 284-291; doi:10.1101/gr.2850605
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Pooled genomic indexing of rhesus macaque
- Aleksandar Milosavljevic,
- Ronald A. Harris,
- Erica J. Sodergren,
- Andrew R. Jackson,
- Ken J. Kalafus,
- Anne Hodgson,
- Andrew Cree,
- Weilie Dai,
- Miklos Csuros,
- Baoli Zhu,
- Pieter J. de Jong,
- George M. Weinstock,
- and Richard A. Gibbs
Genome Res. February 2005 15: 292-301; doi:10.1101/gr.3162505
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Mapping segmental and sequence variations among laboratory mice using BAC array CGH
- Antoine M. Snijders,
- Norma J. Nowak,
- Bing Huey,
- Jane Fridlyand,
- Sindy Law,
- Jeffrey Conroy,
- Taku Tokuyasu,
- Kubilay Demir,
- Readman Chiu,
- Jian-Hua Mao,
- Ajay N. Jain,
- Steven J.M. Jones,
- Allan Balmain,
- Daniel Pinkel,
- and Donna G. Albertson
Genome Res. February 2005 15: 302-311; doi:10.1101/gr.2902505
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Making connections between novel transcription factors and their DNA motifs
- Kai Tan,
- Lee Ann McCue,
- and Gary D. Stormo
Genome Res. February 2005 15: 312-320; Published in Advance January 14, 2005, doi:10.1101/gr.3069205
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Genome-wide identification of Pseudomonas aeruginosa exported proteins using a consensus computational strategy combined with a laboratory-based PhoA fusion screen
- Shawn Lewenza,
- Jennifer L. Gardy,
- Fiona S.L. Brinkman,
- and Robert E.W. Hancock
Genome Res. February 2005 15: 321-329; doi:10.1101/gr.3257305

RESOURCE

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ProbCons: Probabilistic consistency-based multiple sequence alignment
- Chuong B. Do,
- Mahathi S.P. Mahabhashyam,
- Michael Brudno,
- and Serafim Batzoglou
Genome Res. February 2005 15: 330-340; doi:10.1101/gr.2821705

ARTICLES

Interchromosomal segmental duplications of the pericentromeric region on the human Y chromosome

Genome-wide regulatory complexity in yeast promoters: Separation of functionally conserved and neutral sequence

LETTERS

Gene conversion and evolution of Xq28 duplicons involved in recurring inversions causing severe hemophilia A

A comparison of the human and chimpanzee olfactory receptor gene repertoires

Divergent V1R repertoires in five species: Amplification in rodents, decimation in primates, and a surprisingly small repertoire in dogs

A high-resolution multistrain haplotype analysis of laboratory mouse genome reveals three distinctive genetic variation patterns

New genes with roles in the C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones

Selection-driven transcriptome polymorphism in Escherichia coli/Shigella species

Methods

Highly multiplexed molecular inversion probe genotyping: Over 10,000 targeted SNPs genotyped in a single tube assay

A genotyping system capable of simultaneously analyzing >1000 single nucleotide polymorphisms in a haploid genome

Simultaneous genotyping, gene-expression measurement, and detection of allele-specific expression with oligonucleotide arrays

Pooled genomic indexing of rhesus macaque

Mapping segmental and sequence variations among laboratory mice using BAC array CGH

Making connections between novel transcription factors and their DNA motifs

Genome-wide identification of Pseudomonas aeruginosa exported proteins using a consensus computational strategy combined with a laboratory-based PhoA fusion screen

RESOURCE

ProbCons: Probabilistic consistency-based multiple sequence alignment

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