Computational analysis of polymerase II (Pol II) promoters may contribute to improved gene
identification and to prediction of the expression context of genes. Before assessing the state …

Computational prediction of eukaryotic promoters from the nucleotide sequence is one of the
most attractive problems in sequence analysis today, but it is also a very difficult one. Thus …

The signals that determine activation and repression of specific genes in response to
appropriate stimuli are one of the most important, but least understood, types of information …

For many newly sequenced genes, sequence analysis of the putative protein yields no clue
on function. It would be beneficial to be able to identify in the genome the regulatory regions …

Promoter sequences are the main regulatory elements of gene expression. Their recognition
by computer algorithms is fundamental for understanding gene expression patterns, cell …

The RNase III family of double-stranded RNA-specific endonucleases is characterized by
the presence of a highly conserved 9 amino acid stretch in their catalytic center known as …

Motivation: Computational prediction and analysis of transcription regulatory regions in DNA
sequences has the potential to accelerate greatly our understanding of how cellular …

The identification of promoters and their regulatory elements is one of the major challenges
in bioinformatics and integrates comparative, structural, and functional genomics. Many …

Important progress has been made in the past two years in the identification of Pol II
promoters. For most other regulatory elements, however, current biological knowledge is still …

Cis-regulatory modules (CRMs) are transcription regulatory DNA segments (∼ 1 Kb range)
that control the expression of developmental genes in higher eukaryotes. We analyzed …