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A double epidemic model for the SARS propagation.
Ng TW, Turinici G, Danchin A. Ng TW, et al. BMC Infect Dis. 2003 Sep 10;3:19. doi: 10.1186/1471-2334-3-19. BMC Infect Dis. 2003. PMID: 12964944 Free PMC article.
BACKGROUND: An epidemic of a Severe Acute Respiratory Syndrome (SARS) caused by a new coronavirus has spread from the Guangdong province to the rest of China and to the world, with a puzzling contagion behavior. ...The model also suggests that there might exi …
BACKGROUND: An epidemic of a Severe Acute Respiratory Syndrome (SARS) caused by a new coronavirus has spread from the Guangdon …
Relationship of SARS-CoV to other pathogenic RNA viruses explored by tetranucleotide usage profiling.
Yap YL, Zhang XW, Danchin A. Yap YL, et al. BMC Bioinformatics. 2003 Sep 20;4:43. doi: 10.1186/1471-2105-4-43. Epub 2003 Sep 20. BMC Bioinformatics. 2003. PMID: 14499005 Free PMC article.
In approach one, a distance measure of a vector V, based on correlation coefficient was devised to construct a relationship tree by the neighbor-joining algorithm. ...Surprisingly also, the RNA viruses that do not go through a DNA stage displayed a
In approach one, a distance measure of a vector V, based on correlation coefficient was devised to construct a relation …
Testing the hypothesis of a recombinant origin of the SARS-associated coronavirus.
Zhang XW, Yap YL, Danchin A. Zhang XW, et al. Arch Virol. 2005 Jan;150(1):1-20. doi: 10.1007/s00705-004-0413-9. Epub 2004 Oct 11. Arch Virol. 2005. PMID: 15480857 Free PMC article.
In this study, we implemented a 3-step strategy to test the intriguing hypothesis that SARS-CoV might have been derived from a recombinant virus. ...Like the other coronaviruses used in the analysis, SARS-CoV is also a mosaic structure....
In this study, we implemented a 3-step strategy to test the intriguing hypothesis that SARS-CoV might have been derived from a
A parasite vector-host epidemic model for TSE propagation.
Ng TW, Turinici G, Ching WK, Chung SK, Danchin A. Ng TW, et al. Med Sci Monit. 2007 Mar;13(3):BR59-66. Med Sci Monit. 2007. PMID: 17325629
To investigate the nature of a possible vector, the spread of a disease in a closed population of hosts and vectors where the number of hosts is constant and the vectors multiply in the host was modeled mathematically. In this model, the disease is caused by …
To investigate the nature of a possible vector, the spread of a disease in a closed population of hosts and vectors whe …
Specialized microbial databases for inductive exploration of microbial genome sequences.
Fang G, Ho C, Qiu Y, Cubas V, Yu Z, Cabau C, Cheung F, Moszer I, Danchin A. Fang G, et al. BMC Genomics. 2005 Feb 7;6:14. doi: 10.1186/1471-2164-6-14. BMC Genomics. 2005. PMID: 15698474 Free PMC article.
GenoChore http://bioinfo.hku.hk/genochore.html, a set of 17 specialized end-user-oriented microbial databases (including one instance of Microsporidia, Encephalitozoon cuniculi, a member of Eukarya) has been made publicly available. ...In addition they provide a
GenoChore http://bioinfo.hku.hk/genochore.html, a set of 17 specialized end-user-oriented microbial databases (including one instance …
MtnK, methylthioribose kinase, is a starvation-induced protein in Bacillus subtilis.
Sekowska A, Mulard L, Krogh S, Tse JK, Danchin A. Sekowska A, et al. BMC Microbiol. 2001;1:15. doi: 10.1186/1471-2180-1-15. Epub 2001 Aug 8. BMC Microbiol. 2001. PMID: 11545674 Free PMC article.
RESULTS: Using trifluoromethylthioribose as a toxic analog to select for resistant mutants, we demonstrate that methylthioribose is first phosphorylated by MtnK, methylthioribose kinase, the product of gene mtnK (formerly ykrT), expressed as an operon with mtnS (formerly y …
RESULTS: Using trifluoromethylthioribose as a toxic analog to select for resistant mutants, we demonstrate that methylthioribose is f …
The methionine salvage pathway in Bacillus subtilis.
Sekowska A, Danchin A. Sekowska A, et al. BMC Microbiol. 2002 Apr 25;2:8. doi: 10.1186/1471-2180-2-8. BMC Microbiol. 2002. PMID: 12022921 Free PMC article.
CONCLUSIONS: A complete methionine salvage pathway exists in B. subtilis. This pathway is chemically similar to that in K. pneumoniae, but recruited different proteins to this purpose. In particular, a paralogue or Rubisco, MtnW, is used at one of the steps in the p …
CONCLUSIONS: A complete methionine salvage pathway exists in B. subtilis. This pathway is chemically similar to that in K. pneumoniae …
Bacterial variations on the methionine salvage pathway.
Sekowska A, Dénervaud V, Ashida H, Michoud K, Haas D, Yokota A, Danchin A. Sekowska A, et al. BMC Microbiol. 2004 Mar 4;4:9. doi: 10.1186/1471-2180-4-9. BMC Microbiol. 2004. PMID: 15102328 Free PMC article.
The enzymes that catalyze the reactions are recruited from a variety of origins. The first, ubiquitous, enzyme of the pathway, MtnA (methylthioribose-1-phosphate isomerase), belongs to a family of proteins related to eukaryotic intiation factor 2B alpha. mtnB codes …
The enzymes that catalyze the reactions are recruited from a variety of origins. The first, ubiquitous, enzyme of the pathway, MtnA ( …
Classification between normal and tumor tissues based on the pair-wise gene expression ratio.
Yap Y, Zhang X, Ling MT, Wang X, Wong YC, Danchin A. Yap Y, et al. BMC Cancer. 2004 Oct 7;4:72. doi: 10.1186/1471-2407-4-72. BMC Cancer. 2004. PMID: 15469618 Free PMC article.
METHOD: Using recent datasets on colon and prostate cancer, a data transformation procedure from single gene expression to pair-wise gene expression ratio is proposed. ...CONCLUSION: The results from this study indicated that: 1) in the case when the pair-wise expression r …
METHOD: Using recent datasets on colon and prostate cancer, a data transformation procedure from single gene expression to pair-wise …
Colibri: a functional data base for the Escherichia coli genome.
Médigue C, Viari A, Hénaut A, Danchin A. Médigue C, et al. Microbiol Rev. 1993 Sep;57(3):623-54. Microbiol Rev. 1993. PMID: 8246843 Free PMC article. Review.
A data base, implemented on Macintosh by using the data base management system 4th Dimension, is described. It is constructed around a core constituted by known contigs of E. coli sequences and links data collected in general libraries (unmodified) to data associate
A data base, implemented on Macintosh by using the data base management system 4th Dimension, is described. It is constructed around
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