T.I.M.S: TaqMan Information Management System, tools to organize data flow in a genotyping laboratory
Open Access
- 12 October 2005
- journal article
- Published by Springer Nature in BMC Bioinformatics
- Vol. 6 (1) , 246
- https://doi.org/10.1186/1471-2105-6-246
Abstract
Background: Single Nucleotide Polymorphism (SNP) genotyping is a major activity in biomedical research. The Taqman technology is one of the most commonly used approaches. It produces large amounts of data that are difficult to process by hand. Laboratories not equipped with a Laboratory Information Management System (LIMS) need tools to organize the data flow.Results: We propose a package of Visual Basic programs focused on sample management and on the parsing of input and output TaqMan files. The code is written in Visual Basic, embedded in the Microsoft Office package, and it allows anyone to have access to those tools, without any programming skills and with basic computer requirements.Conclusion: We have created useful tools focused on management of TaqMan genotyping data, a critical issue in genotyping laboratories whithout a more sophisticated and expensive system, such as a LIMS.Keywords
This publication has 11 references indexed in Scilit:
- A DATABASE OF SINGLE-NUCLEOTIDE POLYMORPHISMS AND A GENOTYPING MICROARRAY FOR GENETIC EPIDEMIOLOGY OF LUNG CANCERExperimental Lung Research, 2005
- An Efficient SNP System for Mouse Genome Scanning and Elucidating Strain RelationshipsGenome Research, 2004
- Haploview: analysis and visualization of LD and haplotype mapsBioinformatics, 2004
- Modeling and E-M Estimation of Haplotype-Specific Relative Risks from Genotype Data for a Case-Control Study of Unrelated IndividualsHuman Heredity, 2003
- Choosing Haplotype-Tagging SNPS Based on Unphased Genotype Data Using a Preliminary Sample of Unrelated Subjects with an Example from the Multiethnic Cohort StudyHuman Heredity, 2003
- Minor Groove Binder-Conjugated DNA Probes for Quantitative DNA Detection by Hybridization-Triggered FluorescenceBioTechniques, 2002
- Genotype transposer: automated genotype manipulation for linkage disequilibrium analysisBioinformatics, 2001
- An integrated system for high throughput TaqMan™ based SNP genotypingBioinformatics, 2001
- Toward High-Throughput Genotyping: Dynamic and Automatic Software for Manipulating Large-Scale Genotype Data Using Fluorescently Labeled Dinucleotide MarkersGenome Research, 2001
- High-Throughput Genotyping with Single Nucleotide PolymorphismsGenome Research, 2001