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Literature DB >> 8744779

SIGNAL SCAN 4.0: additional databases and sequence formats.

Abstract

SIGNAL SCAN is a program that utilizes transcription factor databases to find potential transcription factor binding sites in DNA sequences. The program is now in its fourth version. SIGNAL SCAN 4 now includes, in addition to the Transcription Factor Database, the TRANSFAC and IMD (Information Matrix Database) databases. In addition, it now accepts GCG and FASTA formatted DNA sequences in addition to Staden formatted sequences. SIGNAL SCAN is available for both IBM-compatible PC and Unix workstation platforms.

Entities: Chemical

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Year: 1996 PMID： 8744779 DOI： 10.1093/bioinformatics/12.2.157

Source DB: PubMed Journal: Comput Appl Biosci ISSN： 0266-7061

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Cited

17 in total

1. SELEX_DB: an activated database on selected randomized DNA/RNA sequences addressed to genomic sequence annotation.

Authors: J V Ponomarenko; G V Orlova; M P Ponomarenko; S V Lavryushev; A S Frolov; S V Zybova; N A Kolchanov
Journal: Nucleic Acids Res Date: 2000-01-01 Impact factor: 16.971

2. DNA replication efficiency depends on transcription factor-binding sites.

Authors: W J Turner; M E Woodworth
Journal: J Virol Date: 2001-06 Impact factor: 5.103

3. MATCH: A tool for searching transcription factor binding sites in DNA sequences.

Authors: A E Kel; E Gössling; I Reuter; E Cheremushkin; O V Kel-Margoulis; E Wingender
Journal: Nucleic Acids Res Date: 2003-07-01 Impact factor: 16.971

4. Bayesian variable selection for gene expression modeling with regulatory motif binding sites in neuroinflammatory events.

Authors: Kuang-Yu Liu; Xiaobo Zhou; Kinhong Kan; Stephen T C Wong
Journal: Neuroinformatics Date: 2006

5. Characterization of PROFILIN genes from allotetraploid (Gossypium hirsutum) cotton and its diploid progenitors and expression analysis in cotton genotypes differing in fiber characteristics.

Authors: Anagnostis Argiriou; Apostolos Kalivas; Georgios Michailidis; Athanasios Tsaftaris
Journal: Mol Biol Rep Date: 2011-07-03 Impact factor: 2.316

SIGNAL SCAN 4.0: additional databases and sequence formats.

1. SELEX_DB: an activated database on selected randomized DNA/RNA sequences addressed to genomic sequence annotation.

2. DNA replication efficiency depends on transcription factor-binding sites.

3. MATCH: A tool for searching transcription factor binding sites in DNA sequences.

4. Bayesian variable selection for gene expression modeling with regulatory motif binding sites in neuroinflammatory events.

5. Characterization of PROFILIN genes from allotetraploid (Gossypium hirsutum) cotton and its diploid progenitors and expression analysis in cotton genotypes differing in fiber characteristics.

6. Structural and functional characterization of the human and mouse fibulin-1 gene promoters: role of Sp1 and Sp3.

7. E-box motifs within the human vasopressin gene promoter contribute to a major enhancer in small-cell lung cancer.

8. Survey and expression analysis of five new chitin synthase genes in the biotrophic rust fungus Puccinia graminis.

9. D-MATRIX: a web tool for constructing weight matrix of conserved DNA motifs.

10. Phyloscan: locating transcription-regulating binding sites in mixed aligned and unaligned sequence data.