Document Detail

Repeatability and reproducibility of ribotyping and its computer interpretation.
MedLine Citation:
PMID:  15059627     Owner:  NLM     Status:  MEDLINE    
Many molecular typing methods are difficult to interpret because their repeatability (within-laboratory variance) and reproducibility (between-laboratory variance) have not been thoroughly studied. In the present work, ribotyping of coryneform bacteria was the basis of a study involving within-gel and between-gel repeatability and between-laboratory reproducibility (two laboratories involved). The effect of different technical protocols, different algorithms, and different software for fragment size determination was studied. Analysis of variance (ANOVA) showed, within a laboratory, that there was no significant added variance between gels. However, between-laboratory variance was significantly higher than within-laboratory variance. This may be due to the use of different protocols. An experimental function was calculated to transform the data and make them compatible (i.e., erase the between-laboratory variance). The use of different interpolation algorithms (spline, Schaffer and Sederoff) was a significant source of variation in one laboratory only. The use of either Taxotron (Institut Pasteur) or GelCompar (Applied Maths) was not a significant source of added variation when the same algorithm (spline) was used. However, the use of Bio-Gene (Vilber Lourmat) dramatically increased the error (within laboratory, within gel) in one laboratory, while decreasing the error in the other laboratory; this might be due to automatic normalization attempts. These results were taken into account for building a database and performing automatic pattern identification using Taxotron. Conversion of the data considerably improved the identification of patterns irrespective of the laboratory in which the data were obtained.
Gwénola Lefresne; Eric Latrille; Françoise Irlinger; Patrick A D Grimont
Related Documents :
21868937 - Equivalence and reduction of expansive tree grammars.
17579527 - Reduction of multi-dimensional laboratory data to a two-dimensional plot: a novel techn...
10667687 - Series analyses and quality specifications required for monitoring over time.
24087907 - Bayesian-based ensemble source apportionment of pm2.5.
10679717 - Multiple measures of axonal excitability: a new approach in clinical testing.
19717357 - Semisupervised multicategory classification with imperfect model.
Publication Detail:
Type:  Evaluation Studies; Journal Article; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  Research in microbiology     Volume:  155     ISSN:  0923-2508     ISO Abbreviation:  Res. Microbiol.     Publication Date:  2004 Apr 
Date Detail:
Created Date:  2004-04-02     Completed Date:  2004-06-29     Revised Date:  2006-11-15    
Medline Journal Info:
Nlm Unique ID:  8907468     Medline TA:  Res Microbiol     Country:  France    
Other Details:
Languages:  eng     Pagination:  154-61     Citation Subset:  IM    
UMR Génie et Microbiologie des Procédés Alimentaires INRA-INAPG, Institut National de la Recherche Agronomique, 78850 Thiverval-Grignon, France.
Export Citation:
APA/MLA Format     Download EndNote     Download BibTex
MeSH Terms
Arthrobacter / genetics
Citrobacter / genetics
DNA, Bacterial / chemistry,  genetics
Data Interpretation, Statistical
Electrophoresis, Agar Gel
Nucleic Acid Hybridization
RNA, Ribosomal / chemistry,  genetics
Reproducibility of Results
Ribotyping / methods*,  standards
Software / standards
Reg. No./Substance:
0/DNA, Bacterial; 0/RNA, Ribosomal

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine

Previous Document:  The influence of surface carbohydrates during in vitro infection of mammalian cells by the dermatoph...
Next Document:  Cloning and expression of a fibrinolytic enzyme (subtilisin DFE) gene from Bacillus amyloliquefacien...