Highly specific localization of promoter regions in large genomic sequences by PromoterInspector: A novel context analysis approach

Journal of Molecular Biology

Volumn 297, Issue 3, 2000, Pages 599-606

  Scherf, Matthias ^a   Klingenhoff, Andreas ^a,b   Werner, Thomas ^a,b  

^a INSTITUTE OF EPIDEMIOLOGY   (Germany)

^b Genomatix GmbH   (Germany)

Author keywords

Genome annotation; Genomic regulatory regions; In silico promoter prediction; Large scale sequence analysis; Unsupervised learning

Indexed keywords

DNA;

ACCURACY; ARTICLE; CONTROLLED STUDY; HUMAN; INTERMETHOD COMPARISON; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROMOTER REGION; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; VALIDATION PROCESS;

EUKARYOTA;

EID: 0034737325     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.3589     Document Type: Article

References (20)

1. Comparative sequence analysis of a gene-rich cluster at human chromosome 12p13 and its syntenic region in mouse chromosome 6
2. Detection of eukaryotic promoters using Markov transition matrices
3. Weight matrix descriptions of four eukaryotic RNA polymerase II promoter elements derived from 502 unrelated promoter sequences
4. The Eukaryotic Promoter Database EPD
5. Long-range sequence analysis in Xq28: Thirteen known and six candidate genes in 219.4 kb of high GC DNA between the RCP/GCP and G6PD loci
6. PromFD 1.0: A computer program that predicts eukaryotic pol II promoters using strings and IMD matrices
7. Eukaryotic promoter recognition
8. A novel method to develop hghly specific models for regulatory units detects a new LTR in GenBank which contains a functional promoter
9. Muscle actin genes: A first step towards computational classification of tissue specific promoters
10. CLEANUP: A fast computer program for removing redundancies from nucleotide sequence databases
11. The prediction of vertebrate promoter regions using differential hexamer frequency analysis
12. Promoter 2.0: For the recognition of Pol II promoter sequences
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18. EMBL Outstation - The European Informatics Institute
19. Models for prediction and recognition of eukaryotic promoters
20. Identification of functional elements in unaligned nucleic acid sequences by a novel tupel search algorithm