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Initial sequencing and comparative analysis of the mouse genome.
The sequence of the mouse genome is a key informational tool for understanding the contents of the human genome and a key experimental tool for biomedical research. Here, we report the results of anExpand
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An atlas of active enhancers across human cell types and tissues
Enhancers control the correct temporal and cell-type-specific activation of gene expression in multicellular eukaryotes. Knowing their properties, regulatory activity and targets is crucial toExpand
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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
We report the generation and analysis of functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project. These dataExpand
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Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray.
Full-length cDNAs are essential for functional analysis of plant genes in the post-sequencing era of the Arabidopsis genome. Recently, cDNA microarray analysis has been developed for quantitativeExpand
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Comprehensive analysis of NAC family genes in Oryza sativa and Arabidopsis thaliana.
The NAC domain was originally characterized from consensus sequences from petunia NAM and from Arabidopsis ATAF1, ATAF2, and CUC2. Genes containing the NAC domain (NAC family genes) areExpand
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Genome-wide analysis of mammalian promoter architecture and evolution
Mammalian promoters can be separated into two classes, conserved TATA box–enriched promoters, which initiate at a well-defined site, and more plastic, broad and evolvable CpG-rich promoters. We haveExpand
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The Transcriptional Landscape of the Mammalian Genome
This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. WeExpand
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The regulated retrotransposon transcriptome of mammalian cells
Although repetitive elements pervade mammalian genomes, their overall contribution to transcriptional activity is poorly defined. Here, as part of the FANTOM4 project, we report that 6–30% ofExpand
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Antisense Transcription in the Mammalian Transcriptome
Antisense transcription (transcription from the opposite strand to a protein-coding or sense strand) has been ascribed roles in gene regulation involving degradation of the corresponding senseExpand
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A promoter-level mammalian expression atlas
TLDR
Promoter-based expression analysis reveals key transcription factors defining cell states and links them to binding-site motifs in mammalian cell-type-specific promoters. Expand
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