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RESOURCE

Integration of the Rat Recombination and EST Maps in the Rat Genomic Sequence and Comparative Mapping Analysis With the Mouse Genome

  • First Published April 1, 2004
RESOURCE

High-Throughput Gene Discovery in the Rat

  • First Published April 1, 2004
RESOURCE

Applications of a Rat Multiple Tissue Gene Expression Data Set

  • First Published April 1, 2004
RESOURCE

BAC Resources for the Rat Genome Project

  • First Published April 1, 2004
RESOURCE

Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome

  • First Published April 1, 2004
RESOURCE

High-Density Rat Radiation Hybrid Maps Containing Over 24,000 SSLPs, Genes, and ESTs Provide a Direct Link to the Rat Genome Sequence

  • First Published April 1, 2004
RESOURCE

Aligning Multiple Genomic Sequences With the Threaded Blockset Aligner

  • First Published April 1, 2004
RESOURCE

Visualization of Multiple Genome Annotations and Alignments With the K-BROWSER

  • First Published April 1, 2004
Methods

MAVID: Constrained Ancestral Alignment of Multiple Sequences

  • First Published April 1, 2004
Methods

Accurate Identification of Novel Human Genes Through Simultaneous Gene Prediction in Human, Mouse, and Rat

  • First Published April 1, 2004
LETTER

Genomic Analysis of the Nuclear Receptor Family: New Insights Into Structure, Regulation, and Evolution From the Rat Genome

  • First Published April 1, 2004
LETTER

A Genomic Analysis of Rat Proteases and Protease Inhibitors

  • First Published April 1, 2004
Methods

Dynamic Building of a BAC Clone Tiling Path for the Rat Genome Sequencing Project

  • First Published April 1, 2004
LETTER

Evolution and Comparative Genomics of Odorant- and Pheromone-Associated Genes in Rodents

  • First Published April 1, 2004
LETTER

Identification of Candidate Disease Genes by EST Alignments, Synteny, and Expression and Verification of Ensembl Genes on Rat Chromosome 1q43-54

  • First Published April 1, 2004
LETTER

Species Specificity in Rodent Pheromone Receptor Repertoires

  • First Published April 1, 2004
Methods

Regulatory Potential Scores From Genome-Wide Three-Way Alignments of Human, Mouse, and Rat

  • First Published April 1, 2004
Methods

Integrative Genomics: In Silico Coupling of Rat Physiology and Complex Traits With Mouse and Human Data

  • First Published April 1, 2004
LETTER

Comparative Analysis of the α-Like Globin Clusters in Mouse, Rat, and Human Chromosomes Indicates a Mechanism Underlying Breaks in Conserved Synteny

  • First Published April 1, 2004
Methods

Pash: Efficient Genome-Scale Sequence Anchoring by Positional Hashing

  • First Published April 1, 2004
Methods

Identification of Rat Genes by TWINSCAN Gene Prediction, RT–PCR, and Direct Sequencing

  • First Published April 1, 2004
Methods

Automated Whole-Genome Multiple Alignment of Rat, Mouse, and Human

  • First Published April 1, 2004
LETTER

The Genomic Sequence and Comparative Analysis of the Rat Major Histocompatibility Complex

  • First Published April 1, 2004
LETTER

Comparative Analysis of Amino Acid Repeats in Rodents and Humans

  • First Published April 1, 2004
LETTER

Insertions and Deletions Are Male Biased Too: A Whole-Genome Analysis in Rodents

  • First Published April 1, 2004
LETTER

Identification of Evolutionary Hotspots in the Rodent Genomes

  • First Published April 1, 2004
LETTER

Occurrence and Consequences of Coding Sequence Insertions and Deletions in Mammalian Genomes

  • First Published April 1, 2004
ARTICLE

Patterns of Insertions and Their Covariation With Substitutions in the Rat, Mouse, and Human Genomes

  • First Published April 1, 2004
LETTER

Characterization of Evolutionary Rates and Constraints in Three Mammalian Genomes

  • First Published April 1, 2004
ARTICLE

Comparative Recombination Rates in the Rat, Mouse, and Human Genomes

  • First Published April 1, 2004
ARTICLE

Recent Segmental Duplications in the Working Draft Assembly of the Brown Norway Rat

  • First Published April 1, 2004
ARTICLE

Reconstructing the Genomic Architecture of Ancestral Mammals: Lessons From Human, Mouse, and Rat Genomes

  • First Published April 1, 2004
RESOURCE

zPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles

  • First Published March 1, 2004
Methods

Eukaryotic Regulatory Element Conservation Analysis and Identification Using Comparative Genomics

  • First Published March 1, 2004
LETTER

Control of Yeast Filamentous-Form Growth by Modules in an Integrated Molecular Network

  • First Published March 1, 2004
Methods

Arabidopsis Genome Annotation" > Whole Genome Sequence Comparisons and “Full-Length” cDNA Sequences: A Combined Approach to Evaluate and Improve Arabidopsis Genome Annotation

  • First Published March 1, 2004
Methods

Parallel Genotyping of Over 10,000 SNPs Using a One-Primer Assay on a High-Density Oligonucleotide Array

  • First Published March 1, 2004
LETTER

Quantifying Modularity in the Evolution of Biomolecular Systems

  • First Published March 1, 2004
Methods

Tracking the Evolution of the SARS Coronavirus Using High-Throughput, High-Density Resequencing Arrays

  • First Published March 1, 2004
LETTER

Gene Conversion and the Evolution of Protocadherin Gene Cluster Diversity

  • First Published March 1, 2004
ARTICLE

Comparative Analysis of Protein Domain Organization

  • First Published March 1, 2004
ARTICLE

Novel RNAs Identified From an In-Depth Analysis of the Transcriptome of Human Chromosomes 21 and 22

  • First Published March 1, 2004
Methods

The Multiassembly Problem: Reconstructing Multiple Transcript Isoforms From EST Fragment Mixtures

  • First Published February 12, 2004
RESOURCE

Numerous Novel Annotations of the Human Genome Sequence Supported by a 5′-End–Enriched cDNA Collection

  • First Published February 12, 2004
Methods

Correct Estimation of Preferential Chromosome Pairing in Autotetraploids

  • First Published February 12, 2004
RESOURCE

Development and Application of a Salmonid EST Database and cDNA Microarray: Data Mining and Interspecific Hybridization Characteristics

  • First Published February 12, 2004
LETTER

SIM2 Interval are Frequently Functional" > Noncoding Sequences Conserved in a Limited Number of Mammals in the SIM2 Interval are Frequently Functional

  • First Published February 12, 2004
ERRATUM

Correction for Volume 13, p. 1787

  • First Published February 2, 2004
ERRATUM

Correction for Volume 13, p. 2717

  • First Published February 2, 2004
LETTER

Mammalian Overlapping Genes: The Comparative Perspective

  • First Published February 2, 2004
Methods

High-Resolution Analysis of DNA Copy Number Using Oligonucleotide Microarrays

  • First Published February 2, 2004
Methods

Digital Detection of Genetic Mutations Using SPC-Sequencing

  • First Published February 2, 2004
LETTER

A Comprehensive Analysis of Allelic Methylation Status of CpG Islands on Human Chromosome 21q

  • First Published February 2, 2004
LETTER

Evolutionary Strata on the Mouse X Chromosome Correspond to Strata on the Human X Chromosome

  • First Published February 2, 2004
LETTER

Drosophila" > Patterns of Evolutionary Constraints in Intronic and Intergenic DNA of Drosophila

  • First Published February 2, 2004
ARTICLE

Strongyloides stercoralis and Caenorhabditis elegans" > Comparative Genomics of Gene Expression in the Parasitic and Free-Living Nematodes Strongyloides stercoralis and Caenorhabditis elegans

  • First Published February 2, 2004
ARTICLE

Escherichia coli" > A Motif Co-Occurrence Approach for Genome-Wide Prediction of Transcription-Factor-Binding Sites in Escherichia coli

  • First Published February 2, 2004
RESOURCE

A BAC- and BIBAC-Based Physical Map of the Soybean Genome

  • First Published January 12, 2004
RESOURCE

Analysis of Multiple Genomic Sequence Alignments: A Web Resource, Online Tools, and Lessons Learned From Analysis of Mammalian SCL Loci

  • First Published January 12, 2004
LETTER

Expression Profiling and Comparative Genomics Identify a Conserved Regulatory Region Controlling Midline Expression in the Zebrafish Embryo

  • First Published January 12, 2004
Methods

Flux Coupling Analysis of Genome-Scale Metabolic Network Reconstructions

  • First Published January 12, 2004
LETTER

Closing the Gaps on Human Chromosome 19 Revealed Genes With a High Density of Repetitive Tandemly Arrayed Elements

  • First Published January 12, 2004
ERRATUM

Correction for Volume 13, p. 2485

  • First Published January 5, 2004
RESOURCE

A Whole-Genome Mouse BAC Microarray With 1-Mb Resolution for Analysis of DNA Copy Number Changes by Array Comparative Genomic Hybridization

  • First Published January 5, 2004
Methods

A Cross-Genomic Approach for Systematic Mapping of Phenotypic Traits to Genes

  • First Published January 5, 2004
Methods

Analysis of Sequence Variations in Several Human Genes Using Phosphoramidite Bond DNA Fragmentation and Chip-Based MALDI-TOF

  • First Published January 5, 2004
Methods

Hierarchical Scaffolding With Bambus

  • First Published January 5, 2004
Methods

Computational Gene Prediction Using Multiple Sources of Evidence

  • First Published January 5, 2004
RESOURCE

EnsMart: A Generic System for Fast and Flexible Access to Biological Data

  • First Published January 5, 2004
Methods

High-Throughput MALDI-TOF Discovery of Genomic Sequence Polymorphisms

  • First Published January 5, 2004
LETTER

Identification of Antibiotic Stress-Inducible Promoters: A Systematic Approach to Novel Pathway-Specific Reporter Assays for Antibacterial Drug Discovery

  • First Published January 5, 2004
LETTER

Elevated Rates of Protein Secretion, Evolution, and Disease Among Tissue-Specific Genes

  • First Published January 5, 2004
LETTER

Ordered Partitioning Reveals Extended Splice-Site Consensus Information

  • First Published January 5, 2004
LETTER

An Abundance of Bidirectional Promoters in the Human Genome

  • First Published January 5, 2004
LETTER

Coelomata and Not Ecdysozoa: Evidence From Genome-Wide Phylogenetic Analysis

  • First Published January 5, 2004
LETTER

Mapping and Initial Analysis of Human Subtelomeric Sequence Assemblies

  • First Published January 5, 2004
LETTER

HoxA Cluster Sequence Reveals Surprising Trends in Ray-Finned Fish Genomic Evolution" > Bichir HoxA Cluster Sequence Reveals Surprising Trends in Ray-Finned Fish Genomic Evolution

  • First Published January 5, 2004
ARTICLE

Hox Clusters and Genome Evolution in Ray-Fin Fish" > Developmental Roles of Pufferfish Hox Clusters and Genome Evolution in Ray-Fin Fish

  • First Published January 5, 2004
LETTER

Multiple Variable First Exons: A Mechanism for Cell- and Tissue-Specific Gene Regulation

  • First Published December 12, 2003
LETTER

Buchnera, Endosymbiotic Bacteria of Aphids" > Mutational and Selective Pressures on Codon and Amino Acid Usage in Buchnera, Endosymbiotic Bacteria of Aphids

  • First Published December 12, 2003
Methods

Fluorescent Detection and Isolation of DNA Variants Using Stabilized RecA-Coated Oligonucleotides

  • First Published December 12, 2003
RESOURCE

CONREAL: Conserved Regulatory Elements Anchored Alignment Algorithm for Identification of Transcription Factor Binding Sites by Phylogenetic Footprinting

  • First Published December 12, 2003
LETTER

Whole-Genome Discovery of Transcription Factor Binding Sites by Network-Level Conservation

  • First Published December 12, 2003
LETTER

Recombination Has Little Effect on the Rate of Sequence Divergence in Pseudoautosomal Boundary 1 Among Humans and Great Apes

  • First Published December 12, 2003
RESOURCE

1-Mb Resolution Array-Based Comparative Genomic Hybridization Using a BAC Clone Set Optimized for Cancer Gene Analysis

  • First Published December 12, 2003
RESOURCE

Generation, Annotation, Evolutionary Analysis, and Database Integration of 20,000 Unique Sea Urchin EST Clusters

  • First Published December 1, 2003
RESOURCE

A BAC-Based Physical Map of the Chicken Genome

  • First Published December 1, 2003
ERRATUM

Correction for Volume 13, p. 1944

  • First Published December 1, 2003
ERRATUM

Correction for Volume 13, p. 2265

  • First Published December 1, 2003
Methods

Toward a Functional Annotation of the Human Genome Using Artificial Transcription Factors

  • First Published December 1, 2003
Methods

Clone-Based Systematic Haplotyping (CSH): A Procedure for Physical Haplotyping of Whole Genomes

  • First Published December 1, 2003
LETTER

Hierarchy of Sequence-Dependent Features Associated With Prokaryotic Translation

  • First Published December 1, 2003
LETTER

Sequence Information for the Splicing of Human Pre-mRNA Identified by Support Vector Machine Classification

  • First Published December 1, 2003
LETTER

Genes and Transposons Are Differentially Methylated in Plants, but Not in Mammals

  • First Published December 1, 2003
LETTER

Caenorhabditis elegans" > Molecular Correlates of Genes Exhibiting RNAi Phenotypes in Caenorhabditis elegans

  • First Published December 1, 2003
LETTER

The Clustered Olfactory Receptor Gene Family 262: Genomic Organization, Promotor Elements, and Interacting Transcription Factors

  • First Published December 1, 2003
LETTER

Analysis of the Gene-Dense Major Histocompatibility Complex Class III Region and Its Comparison to Mouse

  • First Published December 1, 2003
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