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METHODS

LAGAN and Multi-LAGAN: Efficient Tools for Large-Scale Multiple Alignment of Genomic DNA

  • First Published March 12, 2003
METHODS

Computationally Identifying Novel NF-κB-Regulated Immune Genes in the Human Genome

  • First Published March 12, 2003
LETTER

Genome Duplication, a Trait Shared by 22,000 Species of Ray-Finned Fish

  • First Published March 1, 2003
ARTICLE

Arabidopsis Chromosome 2 Using a Genomic DNA Amplicon Microarray" > Gene Expression Analyses of Arabidopsis Chromosome 2 Using a Genomic DNA Amplicon Microarray

  • First Published March 1, 2003
ARTICLE

Large-Scale Variation Among Human and Great Ape Genomes Determined by Array Comparative Genomic Hybridization

  • First Published March 1, 2003
METHODS

The Development of a Highly Informative Mouse Simple Sequence Length Polymorphism (SSLP) Marker Set and Construction of a Mouse Family Tree Using Parsimony Analysis

  • First Published March 1, 2003
METHODS

A Classification-Based Machine Learning Approach for the Analysis of Genome-Wide Expression Data

  • First Published March 1, 2003
LETTER

A Global Search Reveals Epistatic Interaction Between QTL for Early Growth in the Chicken

  • First Published March 1, 2003
LETTER

Analysis of Primate Genomic Variation Reveals a Repeat-Driven Expansion of the Human Genome

  • First Published March 1, 2003
RESOURCE

Large-Scale Discovery of Induced Point Mutations With High-Throughput TILLING

  • First Published March 1, 2003
LETTER

15,000 Unique Zebrafish EST Clusters and Their Future Use in Microarray for Profiling Gene Expression Patterns During Embryogenesis

  • First Published March 1, 2003
LETTER

Gene Discovery in the Apicomplexa as Revealed by EST Sequencing and Assembly of a Comparative Gene Database

  • First Published March 1, 2003
METHODS

A Highly Efficient Recombineering-Based Method for Generating Conditional Knockout Mutations

  • First Published March 1, 2003
LETTER

Comparative Analysis of Superintegrons: Engineering Extensive Genetic Diversity in the Vibrionaceae

  • First Published March 1, 2003
LETTER

The Phylogenetic Extent of Metabolic Enzymes and Pathways

  • First Published March 1, 2003
METHODS

Genotyping on a Thermal Gradient DNA Chip

  • First Published March 1, 2003
LETTER

Schizosaccharomyces pombe Essential Genes: A Pilot Study" > Schizosaccharomyces pombe Essential Genes: A Pilot Study

  • First Published March 1, 2003
ARTICLE

Genomic DNA Insertions and Deletions Occur Frequently Between Humans and Nonhuman Primates

  • First Published February 12, 2003
LETTER

Segmental Duplications in Euchromatic Regions of Human Chromosome 5: A Source of Evolutionary Instability and Transcriptional Innovation

  • First Published February 12, 2003
METHODS

Large-Scale Identification of Single-Feature Polymorphisms in Complex Genomes

  • First Published February 12, 2003
LETTER

Large-Scale Analysis of the Meningococcus Genome by Gene Disruption: Resistance to Complement-Mediated Lysis

  • First Published February 12, 2003
METHODS

SLAM: Cross-Species Gene Finding and Alignment with a Generalized Pair Hidden Markov Model

  • First Published February 12, 2003
LETTER

The Genetic Core of the Universal Ancestor

  • First Published February 12, 2003
LETTER

Saccharomyces cerevisiae Metabolic Network" > Genome-Scale Reconstruction of the Saccharomyces cerevisiae Metabolic Network

  • First Published February 1, 2003
METHODS

A Complexity Reduction Algorithm for Analysis and Annotation of Large Genomic Sequences

  • First Published February 1, 2003
ARTICLE

Arabidopsis Genome" > A Recent Polyploidy Superimposed on Older Large-Scale Duplications in the Arabidopsis Genome

  • First Published February 1, 2003
METHODS

Polymorphism Ratio Sequencing: A New Approach for Single Nucleotide Polymorphism Discovery and Genotyping

  • First Published February 1, 2003
METHODS

Whole Genome Analysis of Genetic Alterations in Small DNA Samples Using Hyperbranched Strand Displacement Amplification and Array–CGH

  • First Published February 1, 2003
METHODS

Identification and Functional Analysis of Human Transcriptional Promoters

  • First Published February 1, 2003
LETTER

Comparative Genome Analysis of the Primary Sex-Determining Locus in Salmonid Fishes

  • First Published February 1, 2003
LETTER

Drosophila Centromere" > Sequence Analysis of a Functional Drosophila Centromere

  • First Published February 1, 2003
LETTER

Saccharomyces cerevisiae Genome" > Systematic Discovery of New Genes in the Saccharomyces cerevisiae Genome

  • First Published February 1, 2003
LETTER

Escherichia coli Reveals Positional Patterns of Transcript Degradation" > Global RNA Half-Life Analysis in Escherichia coli Reveals Positional Patterns of Transcript Degradation

  • First Published January 14, 2003
ARTICLE

Linkage Disequilibrium and Haplotype Diversity in the Genes of the Renin–Angiotensin System: Findings From the Family Blood Pressure Program

  • First Published January 14, 2003
LETTER

Escherichia coli " > A Microarray-Based Antibiotic Screen Identifies a Regulatory Role for Supercoiling in the Osmotic Stress Response of Escherichia coli

  • First Published January 14, 2003
ARTICLE

Evolutionary Implications of Microbial Genome Tetranucleotide Frequency Biases

  • First Published January 14, 2003
LETTER

Complex Events in the Evolution of the Human Pseudoautosomal Region 2 (PAR2)

  • First Published January 14, 2003
ARTICLE

Genomic Sequence and Transcriptional Profile of the Boundary Between Pericentromeric Satellites and Genes on Human Chromosome Arm 10p

  • First Published January 14, 2003
LETTER

The Evolution of DNA Regulatory Regions for Proteo-Gamma Bacteria by Interspecies Comparisons

  • First Published January 13, 2003
RESOURCE

In Silico Prediction of Scaffold/Matrix Attachment Regions in Large Genomic Sequences

  • First Published January 13, 2003
ARTICLE

Combining Mouse Congenic Strains and Microarray Gene Expression Analyses to Study a Complex Trait: The NOD Model of Type 1 Diabetes

  • First Published January 13, 2003
LETTER

Neocentromeres in 15q24-26 Map to Duplicons Which Flanked an Ancestral Centromere in 15q25

  • First Published January 1, 2003
LETTER

Reconciling Gene Expression Data With Known Genome-Scale Regulatory Network Structures

  • First Published January 1, 2003
REVIEW

Cross-Species Sequence Comparisons: A Review of Methods and Available Resources

  • First Published January 1, 2003
ARTICLE

The Human Transcriptome Map Reveals Extremes in Gene Density, Intron Length, GC Content, and Repeat Pattern for Domains of Highly and Weakly Expressed Genes

  • First Published January 1, 2003
LETTER

Correlations Between Gene Expression and Gene Conservation in Fission Yeast

  • First Published January 1, 2003
Methods

A Strategy for Constructing Large Protein Interaction Maps Using the Yeast Two-Hybrid System:Regulated Expression Arrays and Two-Phase Mating

  • First Published January 1, 2003
METHODS

Whole-Genome Sequence Assembly for Mammalian Genomes: Arachne 2

  • First Published January 1, 2003
LETTER

Gdf6 Gene" > A General Approach for Identifying Distant Regulatory Elements Applied to the Gdf6 Gene

  • First Published January 1, 2003
LETTER

Functionality of System Components: Conservation of Protein Function in Protein Feature Space

  • First Published January 1, 2003
LETTER

Distinguishing Regulatory DNA From Neutral Sites

  • First Published January 1, 2003
LETTER

Gene Length and Proximity to Neighbors Affect Genome-Wide Expression Levels

  • First Published January 1, 2003
LETTER

Strategies and Tools for Whole-Genome Alignments

  • First Published January 1, 2003
ARTICLE

Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian Evolution

  • First Published January 1, 2003
Methods

Locating Sequence on FPC Maps and Selecting a Minimal Tiling Path

  • First Published January 1, 2003
METHODS

Comparative Gene Prediction in Human and Mouse

  • First Published January 1, 2003
METHODS

Multiple Cross and Inbred Strain Haplotype Mapping of Complex-Trait Candidate Genes

  • First Published January 1, 2003
Methods

Microfabricated Fountain Pens for High-Density DNA Arrays

  • First Published January 1, 2003
Methods

Efficient Target-Selected Mutagenesis in Zebrafish

  • First Published January 1, 2003
LETTER

Investigations Into the Analysis and Modeling of the TNFα-Mediated NF-κB-Signaling Pathway

  • First Published January 1, 2003
RESOURCE

Analysis and Functional Annotation of an Expressed Sequence Tag Collection for Tropical Crop Sugarcane

  • First Published January 1, 2003
LETTER

The Secreted Protein Discovery Initiative (SPDI), a Large-Scale Effort to Identify Novel Human Secreted and Transmembrane Proteins: A Bioinformatics Assessment

  • First Published January 1, 2003
RESOURCE

Transcript Mapping and Genome Annotation of Ascidian mtDNA Using EST Data

  • First Published January 1, 2003
Methods

A New Method for Rapidly Generating Gene-Targeting Vectors by Engineering BACs Through Homologous Recombination in Bacteria

  • First Published January 1, 2003
LETTER

Representational Oligonucleotide Microarray Analysis: A High-Resolution Method to Detect Genome Copy Number Variation

  • First Published January 1, 2003
ARTICLE

Halobacterium salinarum" > Signal Processing and Flagellar Motor Switching During Phototaxis of Halobacterium salinarum

  • First Published January 1, 2003
LETTER

Characterizing Embryonic Gene Expression Patterns in the Mouse Using Nonredundant Sequence-Based Selection

  • First Published January 1, 2003
LETTER

Nucleotide Frequency Variation Across Human Genes

  • First Published January 1, 2003
LETTER

Mystery of Intron Gain

  • First Published January 1, 2003
LETTER

Transcriptional Response of Lymphoblastoid Cells to Ionizing Radiation

  • First Published January 1, 2003
LETTER

Saccharomyces cerevisiae" > Bioinformatics Analysis of Experimentally Determined Protein Complexes in the Yeast Saccharomyces cerevisiae

  • First Published January 1, 2003
LETTER

The Signature of Selection Mediated by Expression on Human Genes

  • First Published January 1, 2003
Methods

Annotating Large Genomes With Exact Word Matches

  • First Published January 1, 2003
Methods

Parameter Estimation in Biochemical Pathways: A Comparison of Global Optimization Methods

  • First Published January 1, 2003
RESOURCE

Fugu ESTs: New Resources for Transcription Analysis and Genome Annotation" > Fugu ESTs: New Resources for Transcription Analysis and Genome Annotation

  • First Published January 1, 2003
LETTER

Leveraging the Mouse Genome for Gene Prediction in Human: From Whole-Genome Shotgun Reads to a Global Synteny Map

  • First Published January 1, 2003
Methods

Adenoviral Vectors Expressing siRNAs for Discovery and Validation of Gene Function

  • First Published January 1, 2003
METHODS

Human–Mouse Alignments with BLASTZ

  • First Published December 30, 2002
RESOURCE

The Comprehensive Mouse Radiation Hybrid Map Densely Cross-Referenced to the Recombination Map: A Tool to Support the Sequence Assemblies

  • First Published December 30, 2002
LETTER

Pericentromeric Duplications in the Laboratory Mouse

  • First Published December 30, 2002
ARTICLE

Reevaluating Human Gene Annotation: A Second-Generation Analysis of Chromosome 22

  • First Published December 30, 2002
METHODS

The Phusion Assembler

  • First Published December 30, 2002
METHODS

AVID: A Global Alignment Program

  • First Published December 30, 2002
ARTICLE

Genome Rearrangements in Mammalian Evolution: Lessons From Human and Mouse Genomes

  • First Published December 30, 2002
METHODS

Rapid Mapping of Zebrafish Mutations With SNPs and Oligonucleotide Microarrays

  • First Published December 1, 2002
METHODS

A Scalable High-Throughput Chemical Synthesizer

  • First Published December 1, 2002
LETTER

Domain Regulation of Imprinting Cluster in Kip2/Lit1 Subdomain on Mouse Chromosome 7F4/F5: Large-Scale DNA Methylation Analysis Reveals That DMR-Lit1 Is a Putative Imprinting Control Region

  • First Published December 1, 2002
LETTER

Interrogating a High-Density SNP Map for Signatures of Natural Selection

  • First Published December 1, 2002
METHODS

Generalized Gap Model for Bacterial Artificial Chromosome Clone Fingerprint Mapping and Shotgun Sequencing

  • First Published December 1, 2002
LETTER

Gene Expression Profiling of Embryo-Derived Stem Cells Reveals Candidate Genes Associated With Pluripotency and Lineage Specificity

  • First Published December 1, 2002
LETTER

Large Functional Range of Steady-State Levels of Nuclear and Mitochondrial Transcripts Coding for the Subunits of the Human Mitochondrial OXPHOS System

  • First Published December 1, 2002
METHODS

A Strategy to Retrieve the Whole Set of Protein Modules in Microbial Proteomes

  • First Published December 1, 2002
LETTER

Extreme Pathway Lengths and Reaction Participation in Genome-Scale Metabolic Networks

  • First Published December 1, 2002
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