PromoSer: a large-scale mammalian promoter and transcription start site identification service
- 1 July 2003
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 31 (13) , 3554-3559
- https://doi.org/10.1093/nar/gkg549
Abstract
Proximal promoters have a major impact on transcriptional regulation. Studies of the sequence-based nature of this regulation usually require collection of proximal promoter sequences for large sets of co-regulated genes. We report a newly implemented web service that facilitates extraction of user specified regions around the transcription start site of all annotated human, mouse or rat genes. The transcription start sites have been identified computationally by considering alignments of a large number of partial and full-length mRNA sequences to genomic DNA, with provision for alternative promoters. The service is publicly available at http://biowulf.bu.edu/zlab/PromoSer/.Keywords
This publication has 37 references indexed in Scilit:
- Full-length cDNAs: more than just reaching the endsPhysiological Genomics, 2001
- Visualizing associations between genome sequences and gene expression data using genome-mean expression profilesBioinformatics, 2001
- Promoter prediction in the human genomeBioinformatics, 2001
- Creation of genome-wide protein expression libraries using random activation of gene expressionNature Biotechnology, 2001
- First Pass Annotation of Promoters on Human Chromosome 22Genome Research, 2001
- Identification and analysis of eukaryotic promoters: recent computational approachesTrends in Genetics, 2001
- Initial sequencing and analysis of the human genomeNature, 2001
- Systematic variation in gene expression patterns in human cancer cell linesNature Genetics, 2000
- Cluster analysis and display of genome-wide expression patternsProceedings of the National Academy of Sciences, 1998
- Going the Distance: A Current View of Enhancer ActionScience, 1998