Published in J Biol on June 18, 2002
A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci U S A (2004) 44.81
Genetic analysis of genome-wide variation in human gene expression. Nature (2004) 27.28
A high-resolution map of active promoters in the human genome. Nature (2005) 24.35
WebGestalt: an integrated system for exploring gene sets in various biological contexts. Nucleic Acids Res (2005) 12.88
Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome Res (2005) 8.38
An abundance of bidirectional promoters in the human genome. Genome Res (2004) 5.90
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The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes. Genome Res (2003) 4.21
A survey of ovary-, testis-, and soma-biased gene expression in Drosophila melanogaster adults. Genome Biol (2004) 3.21
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Chromosome-wide gene-specific targeting of the Drosophila dosage compensation complex. Genes Dev (2006) 2.73
Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res (2004) 2.52
Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae. Genome Biol (2006) 2.43
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Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage. Plant Physiol (2005) 2.28
Senescence-specific gene expression fingerprints reveal cell-type-dependent physical clustering of up-regulated chromosomal loci. Proc Natl Acad Sci U S A (2003) 2.18
Spatial patterns of transcriptional activity in the chromosome of Escherichia coli. Genome Biol (2004) 2.15
CTCF genomic binding sites in Drosophila and the organisation of the bithorax complex. PLoS Genet (2007) 2.12
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Comparative genomics of Drosophila and human core promoters. Genome Biol (2006) 1.99
Systematic expression profiling of the mouse transcriptome using RIKEN cDNA microarrays. Genome Res (2003) 1.98
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Principles of genome evolution in the Drosophila melanogaster species group. PLoS Biol (2007) 1.89
Gene regulation and large-scale chromatin organization in the nucleus. Chromosome Res (2006) 1.87
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A microarray analysis of the rice transcriptome and its comparison to Arabidopsis. Genome Res (2005) 1.71
Human gene organization driven by the coordination of replication and transcription. Genome Res (2007) 1.71
The regulatory content of intergenic DNA shapes genome architecture. Genome Biol (2004) 1.70
Hairy transcriptional repression targets and cofactor recruitment in Drosophila. PLoS Biol (2004) 1.63
Dynamic reprogramming of chromatin accessibility during Drosophila embryo development. Genome Biol (2011) 1.61
Spurious spatial periodicity of co-expression in microarray data due to printing design. Nucleic Acids Res (2003) 1.61
An endogenous suppressor of hairy-wing insulator separates regulatory domains in Drosophila. Proc Natl Acad Sci U S A (2003) 1.56
Genome-scale analysis of positional clustering of mouse testis-specific genes. BMC Genomics (2005) 1.54
A test of insulator interactions in Drosophila. EMBO J (2003) 1.53
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Chromosomal clustering of genes controlled by the aire transcription factor. Proc Natl Acad Sci U S A (2005) 1.49
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Identifying compartment-specific non-HLA targets after renal transplantation by integrating transcriptome and "antibodyome" measures. Proc Natl Acad Sci U S A (2009) 1.47
Histone modifications: combinatorial complexity or cumulative simplicity? Proc Natl Acad Sci U S A (2005) 1.45
Global chromatin domain organization of the Drosophila genome. PLoS Genet (2008) 1.45
Physiological and stem cell compartmentalization within the Drosophila midgut. Elife (2013) 1.43
Identification of Drosophila mitotic genes by combining co-expression analysis and RNA interference. PLoS Genet (2008) 1.41
Motif composition, conservation and condition-specificity of single and alternative transcription start sites in the Drosophila genome. Genome Biol (2009) 1.36
Nuclear genes that encode mitochondrial proteins for DNA and RNA metabolism are clustered in the Arabidopsis genome. Plant Cell (2003) 1.32
Identification of genomic sites that bind the Drosophila suppressor of Hairy-wing insulator protein. Mol Cell Biol (2006) 1.31
Genomic mapping of Suppressor of Hairy-wing binding sites in Drosophila. Genome Biol (2007) 1.29
Comparative sequence and x-inactivation analyses of a domain of escape in human xp11.2 and the conserved segment in mouse. Genome Res (2004) 1.29
Identification of coexpressed gene clusters in a comparative analysis of transcriptome and proteome in mouse tissues. Proc Natl Acad Sci U S A (2005) 1.28
Genomic organization of gypsy chromatin insulators in Drosophila melanogaster. Genetics (2006) 1.28
Genomic analysis of Drosophila chromosome underreplication reveals a link between replication control and transcriptional territories. Proc Natl Acad Sci U S A (2005) 1.24
Generic features of tertiary chromatin structure as detected in natural chromosomes. Mol Cell Biol (2004) 1.19
Regulated chromatin domain comprising cluster of co-expressed genes in Drosophila melanogaster. Nucleic Acids Res (2005) 1.18
Local coexpression domains of two to four genes in the genome of Arabidopsis. Plant Physiol (2005) 1.18
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Molecular processes during fat cell development revealed by gene expression profiling and functional annotation. Genome Biol (2005) 1.16
Transcriptional regulation of the SCL locus: identification of an enhancer that targets the primitive erythroid lineage in vivo. Mol Cell Biol (2005) 1.16
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Coexpression of linked genes in Mammalian genomes is generally disadvantageous. Mol Biol Evol (2008) 1.12
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The role of insulator elements in large-scale chromatin structure in interphase. Semin Cell Dev Biol (2007) 1.11
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Whole-genome expression plasticity across tropical and temperate Drosophila melanogaster populations from Eastern Australia. Mol Biol Evol (2010) 1.10
A 3,000-loci transcription map of chromosome 3B unravels the structural and functional features of gene islands in hexaploid wheat. Plant Physiol (2011) 1.10
Genome organization and gene expression shape the transposable element distribution in the Drosophila melanogaster euchromatin. PLoS Genet (2007) 1.09
Comparison of diverse developmental transcriptomes reveals that coexpression of gene neighbors is not evolutionarily conserved. Genome Res (2009) 1.08
A comparative analysis of divergently-paired genes (DPGs) among Drosophila and vertebrate genomes. BMC Evol Biol (2009) 1.08
Support for multiple classes of local expression clusters in Drosophila melanogaster, but no evidence for gene order conservation. Genome Biol (2011) 1.07
Coordinated expression domains in mammalian genomes. PLoS One (2010) 1.05
Searching for bidirectional promoters in Arabidopsis thaliana. BMC Bioinformatics (2009) 1.05
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The carboxylesterase gene family from Arabidopsis thaliana. J Mol Evol (2003) 1.05
Comparison of the oxidative phosphorylation (OXPHOS) nuclear genes in the genomes of Drosophila melanogaster, Drosophila pseudoobscura and Anopheles gambiae. Genome Biol (2005) 1.05
A non-random walk through the genome. Genome Biol (2005) 1.04
Studies of the role of the Drosophila scs and scs' insulators in defining boundaries of a chromosome puff. Mol Cell Biol (2004) 1.03
Gene networks in Drosophila melanogaster: integrating experimental data to predict gene function. Genome Biol (2009) 1.03
Comparative analysis of function and interaction of transcription factors in nematodes: extensive conservation of orthology coupled to rapid sequence evolution. BMC Genomics (2008) 1.02
Relationship between gene co-expression and sharing of transcription factor binding sites in Drosophila melanogaster. Bioinformatics (2009) 1.02
Calculating the statistical significance of physical clusters of co-regulated genes in the genome: the role of chromatin in domain-wide gene regulation. Nucleic Acids Res (2004) 1.02
Genome-wide profiling of forum domains in Drosophila melanogaster. Nucleic Acids Res (2011) 1.02
CREB binding and activity in brain: regional specificity and induction by electroconvulsive seizure. Biol Psychiatry (2007) 1.01
Transcriptome coexpression map of human embryonic stem cells. BMC Genomics (2006) 1.01
Positional clustering of differentially expressed genes on human chromosomes 20, 21 and 22. Genome Biol (2003) 1.00
Spotting effect in microarray experiments. BMC Bioinformatics (2004) 0.99
REEF: searching REgionally Enriched Features in genomes. BMC Bioinformatics (2006) 0.98
DNA double-strand breaks coupled with PARP1 and HNRNPA2B1 binding sites flank coordinately expressed domains in human chromosomes. PLoS Genet (2013) 0.98
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Segmental aneuploidy and the genetic gross structure of the Drosophila genome. Genetics (1972) 22.68
The human transcriptome map: clustering of highly expressed genes in chromosomal domains. Science (2001) 12.35
A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression. Nat Genet (2000) 9.47
Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet (2002) 6.89
The effect of chromosomal position on the expression of the Drosophila xanthine dehydrogenase gene. Cell (1983) 6.67
Genome-wide analysis of the Drosophila immune response by using oligonucleotide microarrays. Proc Natl Acad Sci U S A (2001) 5.45
Insulators and boundaries: versatile regulatory elements in the eukaryotic genome. Science (2001) 5.37
Visualization of chromosomal domains with boundary element-associated factor BEAF-32. Cell (1995) 3.87
Specificity of gene regulation. Cell (2002) 2.23
Genes and loops in 320,000 base-pairs of the Drosophila melanogaster chromosome. J Mol Biol (1986) 1.72
Electron micrograph maps of divisions 51 through 60 of thin sectioned polytene 2R chromosome of Drosophila melanogaster. Hereditas (1991) 1.38
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proc Natl Acad Sci U S A (2002) 20.48
Computational identification of Drosophila microRNA genes. Genome Biol (2003) 9.86
Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster. Science (2002) 9.43
Systematic determination of patterns of gene expression during Drosophila embryogenesis. Genome Biol (2002) 8.89
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Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome. Proc Natl Acad Sci U S A (2002) 8.56
The BDGP gene disruption project: single transposon insertions associated with 40% of Drosophila genes. Genetics (2004) 8.40
Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence. Genome Biol (2002) 8.07
The Drosophila gene collection: identification of putative full-length cDNAs for 70% of D. melanogaster genes. Genome Res (2002) 6.61
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Pervasive regulation of Drosophila Notch target genes by GY-box-, Brd-box-, and K-box-class microRNAs. Genes Dev (2005) 5.78
Computational analysis of core promoters in the Drosophila genome. Genome Biol (2002) 5.60
Heterochromatic sequences in a Drosophila whole-genome shotgun assembly. Genome Biol (2002) 5.09
A GAL4-driver line resource for Drosophila neurobiology. Cell Rep (2012) 4.67
The Toll and Imd pathways are the major regulators of the immune response in Drosophila. EMBO J (2002) 4.63
Refinement of tools for targeted gene expression in Drosophila. Genetics (2010) 4.53
Targeted mutagenesis by homologous recombination in D. melanogaster. Genes Dev (2002) 4.21
A visual motion detection circuit suggested by Drosophila connectomics. Nature (2013) 3.94
A Drosophila full-length cDNA resource. Genome Biol (2002) 3.67
Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura. Genome Biol (2004) 3.36
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Assessing the impact of comparative genomic sequence data on the functional annotation of the Drosophila genome. Genome Biol (2002) 3.09
ARGONAUTE1 is required for efficient RNA interference in Drosophila embryos. Proc Natl Acad Sci U S A (2002) 3.09
Drosophila melanogaster MNK/Chk2 and p53 regulate multiple DNA repair and apoptotic pathways following DNA damage. Mol Cell Biol (2004) 2.75
Drosophila microRNAs exhibit diverse spatial expression patterns during embryonic development. Proc Natl Acad Sci U S A (2005) 2.62
A directional tuning map of Drosophila elementary motion detectors. Nature (2013) 2.53
Large-scale trends in the evolution of gene structures within 11 animal genomes. PLoS Comput Biol (2006) 2.42
Identification of putative noncoding polyadenylated transcripts in Drosophila melanogaster. Proc Natl Acad Sci U S A (2005) 2.30
A subset of dopamine neurons signals reward for odour memory in Drosophila. Nature (2012) 2.20
Using translational enhancers to increase transgene expression in Drosophila. Proc Natl Acad Sci U S A (2012) 1.98
Drosophila matrix metalloproteinases are required for tissue remodeling, but not embryonic development. Dev Cell (2003) 1.88
Quantitative analysis of bristle number in Drosophila mutants identifies genes involved in neural development. Curr Biol (2003) 1.76
Complementary miRNA pairs suggest a regulatory role for miRNA:miRNA duplexes. RNA (2004) 1.63
A resource for manipulating gene expression and analyzing cis-regulatory modules in the Drosophila CNS. Cell Rep (2012) 1.62
Nurturing interdisciplinary research. Nat Struct Mol Biol (2004) 1.61
The ubiquitin ligase Drosophila Mind bomb promotes Notch signaling by regulating the localization and activity of Serrate and Delta. Development (2005) 1.55
Mushroom body efferent neurons responsible for aversive olfactory memory retrieval in Drosophila. Nat Neurosci (2011) 1.53
Y chromosome and other heterochromatic sequences of the Drosophila melanogaster genome: how far can we go? Genetica (2003) 1.49
A computational and experimental approach to validating annotations and gene predictions in the Drosophila melanogaster genome. Proc Natl Acad Sci U S A (2005) 1.46
A survey of 6,300 genomic fragments for cis-regulatory activity in the imaginal discs of Drosophila melanogaster. Cell Rep (2012) 1.39
Global analyses of mRNA translational control during early Drosophila embryogenesis. Genome Biol (2007) 1.30
Contributions of the 12 neuron classes in the fly lamina to motion vision. Neuron (2013) 1.25
Multiple new site-specific recombinases for use in manipulating animal genomes. Proc Natl Acad Sci U S A (2011) 1.23
Cathepsin D-deficient Drosophila recapitulate the key features of neuronal ceroid lipofuscinoses. Neurobiol Dis (2005) 1.15
Neuroarchitecture and neuroanatomy of the Drosophila central complex: A GAL4-based dissection of protocerebral bridge neurons and circuits. J Comp Neurol (2014) 1.01
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The Ca(2+)-calmodulin-activated protein phosphatase calcineurin negatively regulates EGF receptor signaling in Drosophila development. Genetics (2002) 0.94
The Drosophila synaptotagmin-like protein bitesize is required for growth and has mRNA localization sequences within its open reading frame. Proc Natl Acad Sci U S A (2003) 0.93
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