Table of Contents

ARTICLE

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Distribution and intensity of constraint in mammalian genomic sequence
- Gregory M. Cooper,
- Eric A. Stone,
- George Asimenos,
- Eric D. Green,
- Serafim Batzoglou,
- and Arend Sidow
Genome Res. July 2005 15: 901-913; Published in Advance June 17, 2005, doi:10.1101/gr.3577405

LETTERS

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Punctuated duplication seeding events during the evolution of human chromosome 2p11
- Julie E. Horvath,
- Cassandra L. Gulden,
- Rhea U. Vallente,
- Marla Y. Eichler,
- Mario Ventura,
- John D. McPherson,
- Tina A. Graves,
- Richard K. Wilson,
- Stuart Schwartz,
- Mariano Rocchi,
- and Evan E. Eichler
Genome Res. July 2005 15: 914-927; Published in Advance June 17, 2005, doi:10.1101/gr.3916405
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Genomic deletion of a long-range bone enhancer misregulates sclerostin in Van Buchem disease
- Gabriela G. Loots,
- Michaela Kneissel,
- Hansjoerg Keller,
- Myma Baptist,
- Jessie Chang,
- Nicole M. Collette,
- Dmitriy Ovcharenko,
- Ingrid Plajzer-Frick,
- and Edward M. Rubin
Genome Res. July 2005 15: 928-935; Published in Advance June 17, 2005, doi:10.1101/gr.3437105
OPEN ACCESS ARTICLE
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Identification of a missense mutation in the bovine ABCG2 gene with a major effect on the QTL on chromosome 6 affecting milk yield and composition in Holstein cattle
- Miri Cohen-Zinder,
- Eyal Seroussi,
- Denis M. Larkin,
- Juan J. Loor,
- Annelie Everts-van der Wind,
- Jun-Heon Lee,
- James K. Drackley,
- Mark R. Band,
- A.G. Hernandez,
- Moshe Shani,
- Harris A. Lewin,
- Joel I. Weller,
- and Micha Ron
Genome Res. July 2005 15: 936-944; doi:10.1101/gr.3806705
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Assessing the limits of genomic data integration for predicting protein networks
- Long J. Lu,
- Yu Xia,
- Alberto Paccanaro,
- Haiyuan Yu,
- and Mark Gerstein
Genome Res. July 2005 15: 945-953; doi:10.1101/gr.3610305
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The net of life: Reconstructing the microbial phylogenetic network
- Victor Kunin,
- Leon Goldovsky,
- Nikos Darzentas,
- and Christos A. Ouzounis
Genome Res. July 2005 15: 954-959; Published in Advance June 17, 2005, doi:10.1101/gr.3666505

Methods

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On the probability that a novel variant is a disease-causing mutation
- Adele A. Mitchell,
- Aravinda Chakravarti,
- and David J. Cutler
Genome Res. July 2005 15: 960-966; Published in Advance June 17, 2005, doi:10.1101/gr.3761405
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Mutation scanning by meltMADGE: Validations using BRCA1 and LDLR, and demonstration of the potential to identify severe, moderate, silent, rare, and paucimorphic mutations in the general population
- Khalid K. Alharbi,
- Mohammed A. Aldahmesh,
- Emmanuel Spanakis,
- Lema Haddad,
- Roslyn A. Whittall,
- Xiao-he Chen,
- Hamid Rassoulian,
- Matt J. Smith,
- Julie Sillibourne,
- Nicola J. Ball,
- Nikki J. Graham,
- Patricia J. Briggs,
- Iain A. Simpson,
- David I.W. Phillips,
- Deborah A. Lawlor,
- Shu Ye,
- Stephen E. Humphries,
- Cyrus Cooper,
- George Davey Smith,
- Shah Ebrahim,
- Diana M. Eccles,
- and Ian N.M. Day
Genome Res. July 2005 15: 967-977; doi:10.1101/gr.3313405
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Physicochemical constraint violation by missense substitutions mediates impairment of protein function and disease severity
- Eric A. Stone and
- Arend Sidow
Genome Res. July 2005 15: 978-986; Published in Advance June 17, 2005, doi:10.1101/gr.3804205
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Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays
- Philipp Kapranov,
- Jorg Drenkow,
- Jill Cheng,
- Jeffrey Long,
- Gregg Helt,
- Sujit Dike,
- and Thomas R. Gingeras
Genome Res. July 2005 15: 987-997; doi:10.1101/gr.3455305
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Orthologous repeats and mammalian phylogenetic inference
- Ali Bashir,
- Chun Ye,
- Alkes L. Price,
- and Vineet Bafna
Genome Res. July 2005 15: 998-1006; doi:10.1101/gr.3493405

RESOURCES

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An atlas of human gene expression from massively parallel signature sequencing (MPSS)
- C. Victor Jongeneel,
- Mauro Delorenzi,
- Christian Iseli,
- Daixing Zhou,
- Christian D. Haudenschild,
- Irina Khrebtukova,
- Dmitry Kuznetsov,
- Brian J. Stevenson,
- Robert L. Strausberg,
- Andrew J.G. Simpson,
- and Thomas J. Vasicek
Genome Res. July 2005 15: 1007-1014; doi:10.1101/gr.4041005
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The MicrobesOnline Web site for comparative genomics
- Eric J. Alm,
- Katherine H. Huang,
- Morgan N. Price,
- Richard P. Koche,
- Keith Keller,
- Inna L. Dubchak,
- and Adam P. Arkin
Genome Res. July 2005 15: 1015-1022; doi:10.1101/gr.3844805
OPEN ACCESS ARTICLE

ARTICLE

Distribution and intensity of constraint in mammalian genomic sequence

LETTERS

Punctuated duplication seeding events during the evolution of human chromosome 2p11

Genomic deletion of a long-range bone enhancer misregulates sclerostin in Van Buchem disease

Identification of a missense mutation in the bovine ABCG2 gene with a major effect on the QTL on chromosome 6 affecting milk yield and composition in Holstein cattle

Assessing the limits of genomic data integration for predicting protein networks

The net of life: Reconstructing the microbial phylogenetic network

Methods

On the probability that a novel variant is a disease-causing mutation

Mutation scanning by meltMADGE: Validations using BRCA1 and LDLR, and demonstration of the potential to identify severe, moderate, silent, rare, and paucimorphic mutations in the general population

Physicochemical constraint violation by missense substitutions mediates impairment of protein function and disease severity

Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays

Orthologous repeats and mammalian phylogenetic inference

RESOURCES

An atlas of human gene expression from massively parallel signature sequencing (MPSS)

The MicrobesOnline Web site for comparative genomics

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