Literature DB >> 6364039

Computer methods to locate signals in nucleic acid sequences.

R Staden.   

Abstract

This paper describes computer methods for locating signals in nucleic acid sequences. The signals include ribosome binding sites, promoter sequences and splice junctions. The methods are of use both to those trying to interpret the function of newly determined sequences and to those studying the molecular mechanisms involved in the recognition of these special signal sequences.

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Substances：

Year:  1984        PMID： 6364039      PMCID： PMC321067          DOI： 10.1093/nar/12.1part2.505

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  30 in total

Review 1.  Translational initiation in prokaryotes.

Authors:  L Gold; D Pribnow; T Schneider; S Shinedling; B S Singer; G Stormo
Journal:  Annu Rev Microbiol       Date:  1981       Impact factor: 15.500

2.  Nucleotide sequence of an Escherichia coli tRNA (Leu 1) operon and identification of the transcription promoter signal.

Authors:  G Duester; R K Campen; W M Holmes
Journal:  Nucleic Acids Res       Date:  1981-05-11       Impact factor: 16.971

3.  A lac promoter with a changed distance between -10 and -35 regions.

Authors:  W Mandecki; W S Reznikoff
Journal:  Nucleic Acids Res       Date:  1982-02-11       Impact factor: 16.971

Review 4.  Compilation and analysis of Escherichia coli promoter DNA sequences.

Authors:  D K Hawley; W R McClure
Journal:  Nucleic Acids Res       Date:  1983-04-25       Impact factor: 16.971

5.  Spacer mutations in the lac ps promoter.

Authors:  J E Stefano; J D Gralla
Journal:  Proc Natl Acad Sci U S A       Date:  1982-02       Impact factor: 11.205

6.  Sequence determinants of promoter activity.

Authors:  P Youderian; S Bouvier; M M Susskind
Journal:  Cell       Date:  1982-10       Impact factor: 41.582

7.  Use of the 'Perceptron' algorithm to distinguish translational initiation sites in E. coli.

Authors:  G D Stormo; T D Schneider; L Gold; A Ehrenfeucht
Journal:  Nucleic Acids Res       Date:  1982-05-11       Impact factor: 16.971

8.  A catalogue of splice junction sequences.

Authors:  S M Mount
Journal:  Nucleic Acids Res       Date:  1982-01-22       Impact factor: 16.971

9.  A possible novel interaction between the 3'-end of 18 S ribosomal RNA and the 5'-leader sequence of many eukaryotic messenger RNAs.

Authors:  D R Sargan; S P Gregory; P H Butterworth
Journal:  FEBS Lett       Date:  1982-10-18       Impact factor: 4.124

10.  Search algorithm for pattern match analysis of nucleic acid sequences.

Authors:  R Harr; M Häggström; P Gustafsson
Journal:  Nucleic Acids Res       Date:  1983-05-11       Impact factor: 16.971
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  194 in total

1.  DNA splice site detection: a comparison of specific and general methods.

Authors:  Won Kim; W John Wilbur
Journal:  Proc AMIA Symp       Date:  2002

2.  A biophysical approach to transcription factor binding site discovery.

Authors:  Marko Djordjevic; Anirvan M Sengupta; Boris I Shraiman
Journal:  Genome Res       Date:  2003-11       Impact factor: 9.043

3.  Finding errors in DNA sequences.

Authors:  J Posfai; R J Roberts
Journal:  Proc Natl Acad Sci U S A       Date:  1992-05-15       Impact factor: 11.205

4.  Bipartite pattern discovery by entropy minimization-based multiple local alignment.

Authors:  Chengpeng Bi; Peter K Rogan
Journal:  Nucleic Acids Res       Date:  2004-09-23       Impact factor: 16.971

5.  The evolutionary selection of DNA base pairs in gene-regulatory binding sites.

Authors:  O G Berg
Journal:  Proc Natl Acad Sci U S A       Date:  1992-08-15       Impact factor: 11.205

6.  An assessment of neural network and statistical approaches for prediction of E. coli promoter sites.

Authors:  P B Horton; M Kanehisa
Journal:  Nucleic Acids Res       Date:  1992-08-25       Impact factor: 16.971

7.  Evaluating bacterial gene-finding HMM structures as probabilistic logic programs.

Authors:  Søren Mørk; Ian Holmes
Journal:  Bioinformatics       Date:  2012-01-03       Impact factor: 6.937

8.  PDZ domain-containing 1 (PDZK1) protein regulates phospholipase C-β3 (PLC-β3)-specific activation of somatostatin by forming a ternary complex with PLC-β3 and somatostatin receptors.

Authors:  Jung Kuk Kim; Ohman Kwon; Jinho Kim; Eung-Kyun Kim; Hye Kyung Park; Ji Eun Lee; Kyung Lock Kim; Jung Woong Choi; Seyoung Lim; Heon Seok; Whaseon Lee-Kwon; Jang Hyun Choi; Byoung Heon Kang; Sanguk Kim; Sung Ho Ryu; Pann-Ghill Suh
Journal:  J Biol Chem       Date:  2012-04-23       Impact factor: 5.157

9.  Nucleotide sequence of a B1 hordein gene and the identification of possible upstream regulatory elements in endosperm storage protein genes from barley, wheat and maize.

Authors:  B G Forde; A Heyworth; J Pywell; M Kreis
Journal:  Nucleic Acids Res       Date:  1985-10-25       Impact factor: 16.971

10.  Escherichia coli possesses two homologous anaerobic C4-dicarboxylate membrane transporters (DcuA and DcuB) distinct from the aerobic dicarboxylate transport system (Dct).

Authors:  S Six; S C Andrews; G Unden; J R Guest
Journal:  J Bacteriol       Date:  1994-11       Impact factor: 3.490
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