julie thompsonJulie Dawn Thompson


 Institut de Génétique et de Biologie Moléculaire et Cellulaire,
Strasbourg,
France.

E-mail:  julie@igbmc.u-strasbg.fr



Biography



1984
B.Sc. University of Sheffield, England
1984-1986
Vickers Shipbuilding and Engineering Limited, England.
1986-1988
Singer Link Miles Limited, England
1988-1990 Rediffusion Simulation Limited, England
1991-1994 European Moelcular Biology Laboratory, Germany
1995-present Institut de Génétique et de Biologie Moléculaire et Cellulaire, France.


                               

 

Publications

 

Chalmel F, Lardenois A, Thompson JD, Muller J, Sahel JA, Leveillard T, Poch O. (2005) GOAnno: GO annotation based on multiple alignment. Bioinformatics. Jan 12;

 

Thompson JD, Prigent V, Poch O. (2004) LEON: multiple aLignment Evaluation Of Neighbours. Nucleic Acids Res. 4:1298-1307.

 

Plewniak F, Bianchetti L, Brelivet Y, Carles A, Chalmel F, Lecompte O, Mochel T, Moulinier L, Muller A, Muller J, Prigent V, Ripp R, Thierry JC, Thompson JD, Wicker N, Poch O. (2003) PipeAlign: A new toolkit for protein family analysis. Nucleic Acids Res. 13:3829-3832.

 

Thompson JD, Thierry JC, Poch O. (2003) RASCAL: rapid scanning and correction of multiple sequence alignments. Bioinformatics. 9:1155-1161.

 

Chenna R, Sugawara H, Koike T, Lopez R, Gibson TJ, Higgins DG, Thompson JD. (2003)  Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res. 13:3497-3500.

 

Thompson JD, Plewniak F, Ripp R, Thierry JC, Poch O. (2001) Towards a reliable objective function for multiple sequence alignments. J Mol Biol. 4:937-951.

 

Lecompte O, Thompson JD, Plewniak F, Thierry J, Poch O. (2001) Multiple alignment of complete sequences (MACS) in the post-genomic era. Gene. 1:17-30.

 

Bahr A, Thompson JD, Thierry JC, Poch O. (2001) BAliBASE (Benchmark Alignment dataBASE): enhancements for repeats, transmembrane sequences and circular permutations. Nucleic Acids Res. 1:323-326.

 

Plewniak F, Thompson JD, Poch O. (2000) Ballast: blast post-processing based on locally conserved segments. Bioinformatics. 9:750-759.

 

Thompson JD, Plewniak F, Thierry J, Poch O. (2000) DbClustal: rapid and reliable global multiple alignments of protein sequences detected by database searches.

Nucleic Acids Res. 15:2919-2926.

 

Thompson JD, Plewniak F, Poch O. (1999) A comprehensive comparison of multiple sequence alignment programs. Nucleic Acids Res. J13:2682-2690.

 

Thompson JD, Plewniak F, Poch O. (1999) BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs. Bioinformatics. 1:87-88.

 

Jeanmougin F, Thompson JD, Gouy M, Higgins DG, Gibson TJ. (1998) Multiple sequence alignment with Clustal X. Trends Biochem Sci. 10:403-405.

 

Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24:4876-4882.

 

Birney E, Thompson JD, Gibson TJ. (1996) PairWise and SearchWise: finding the optimal alignment in a simultaneous comparison of a protein profile against all DNA translation frames. Nucleic Acids Res. 14:2730-2739.

 

Higgins DG, Thompson JD, Gibson TJ. (1996) Using CLUSTAL for multiple sequence alignments. Methods Enzymol. 266:383-402.

 

Thompson JD (1995) Introducing variable gap penalties to sequence alignment in linear space. CABIOS 2:181-186.

 

Thompson JD, Higgins DG, Gibson TJ. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.

 

Gibson TJ, Thompson JD. (1994) Detection of dsRNA-binding domains in RNA helicase A and Drosophila maleless: implications for monomeric RNA helicases. Nucleic Acids Res. 13:2552-2556.

 

Gibson TJ, Thompson JD, Blocker A, Kouzarides T. (1994) Evidence for a protein domain superfamily shared by the cyclins, TFIIB and RB/p107. Nucleic Acids Res. 6:946-952.

 

Thompson JD, Higgins DG, Gibson TJ. (1994) Improved sensitivity of profile searches through the use of sequence weights and gap excision. Comput Appl Biosci. 1:19-29.

 

Gibson TJ, Rice PM, Thompson JD, Heringa J. (1993) KH domains within the FMR1 sequence suggest that fragile X syndrome stems from a defect in RNA metabolism. Trends Biochem Sci. 9:331-333.

 

Gibson TJ, Thompson JD, Heringa J. (1993) The KH domain occurs in a diverse set of RNA-binding proteins that include the antiterminator NusA and is probably involved in binding to nucleic acid. FEBS Lett. 3:361-366.

 

Gibson TJ, Thompson JD, Abagyan RA. (1993) Proposed structure for the DNA-binding domain of the helix-loop-helix family of eukaryotic gene regulatory proteins. Protein Eng. 1:41-50.