A Laboratory Information Management System (LIMS) for a high throughput genetic platform aimed at candidate gene mutation screening
High throughput mutation screening in an automated environment generates large data sets that have to be organized and stored reliably. Complex multistep workflows require strict process management and careful data tracking. We have developed a Laboratory Information Management Systems (LIMS) tailor...
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| Veröffentlicht in: | Bioinformatics 2007-09, Vol.23 (18), p.2504-2506 |
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| container_title | Bioinformatics |
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| creator | Voegele, C. Tavtigian, S.V. de Silva, D. Cuber, S. Thomas, A. Le Calvez-Kelm, F. |
| description | High throughput mutation screening in an automated environment generates large data sets that have to be organized and stored reliably. Complex multistep workflows require strict process management and careful data tracking. We have developed a Laboratory Information Management Systems (LIMS) tailored to high throughput candidate gene mutation scanning and resequencing that respects these requirements. Designed with a client/server architecture, our system is platform independent and based on open-source tools from the database to the web application development strategy. Flexible, expandable and secure, the LIMS, by communicating with most of the laboratory instruments and robots, tracks samples and laboratory information, capturing data at every step of our automated mutation screening workflow. An important feature of our LIMS is that it enables tracking of information through a laboratory workflow where the process at one step is contingent on results from a previous step. Availability: Script for MySQL database table creation and source code of the whole JSP application are freely available on our website: http://www-gcs.iarc.fr/lims/. Contact: voegele@iarc.fr Supplementary information: System server configuration, database structure and additional details on the LIMS and the mutation screening workflow are available on our website: http://www-gcs.iarc.fr/lims/ |
| doi_str_mv | 10.1093/bioinformatics/btm365 |
| format | Article |
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Complex multistep workflows require strict process management and careful data tracking. We have developed a Laboratory Information Management Systems (LIMS) tailored to high throughput candidate gene mutation scanning and resequencing that respects these requirements. Designed with a client/server architecture, our system is platform independent and based on open-source tools from the database to the web application development strategy. Flexible, expandable and secure, the LIMS, by communicating with most of the laboratory instruments and robots, tracks samples and laboratory information, capturing data at every step of our automated mutation screening workflow. An important feature of our LIMS is that it enables tracking of information through a laboratory workflow where the process at one step is contingent on results from a previous step. Availability: Script for MySQL database table creation and source code of the whole JSP application are freely available on our website: http://www-gcs.iarc.fr/lims/. Contact: voegele@iarc.fr Supplementary information: System server configuration, database structure and additional details on the LIMS and the mutation screening workflow are available on our website: http://www-gcs.iarc.fr/lims/</description><identifier>ISSN: 1367-4803</identifier><identifier>EISSN: 1460-2059</identifier><identifier>EISSN: 1367-4811</identifier><identifier>DOI: 10.1093/bioinformatics/btm365</identifier><identifier>PMID: 17709339</identifier><identifier>CODEN: BOINFP</identifier><language>eng</language><publisher>Oxford: Oxford University Press</publisher><subject>Biological and medical sciences ; Clinical Laboratory Techniques ; Computer Communication Networks ; Database Management Systems ; Databases, Genetic ; DNA Mutational Analysis - methods ; Fundamental and applied biological sciences. 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Complex multistep workflows require strict process management and careful data tracking. We have developed a Laboratory Information Management Systems (LIMS) tailored to high throughput candidate gene mutation scanning and resequencing that respects these requirements. Designed with a client/server architecture, our system is platform independent and based on open-source tools from the database to the web application development strategy. Flexible, expandable and secure, the LIMS, by communicating with most of the laboratory instruments and robots, tracks samples and laboratory information, capturing data at every step of our automated mutation screening workflow. An important feature of our LIMS is that it enables tracking of information through a laboratory workflow where the process at one step is contingent on results from a previous step. Availability: Script for MySQL database table creation and source code of the whole JSP application are freely available on our website: http://www-gcs.iarc.fr/lims/. Contact: voegele@iarc.fr Supplementary information: System server configuration, database structure and additional details on the LIMS and the mutation screening workflow are available on our website: http://www-gcs.iarc.fr/lims/</description><subject>Biological and medical sciences</subject><subject>Clinical Laboratory Techniques</subject><subject>Computer Communication Networks</subject><subject>Database Management Systems</subject><subject>Databases, Genetic</subject><subject>DNA Mutational Analysis - methods</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>General aspects</subject><subject>Genetic Testing - methods</subject><subject>Information Storage and Retrieval - methods</subject><subject>Mathematics in biology. Statistical analysis. Models. Metrology. 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| identifier | ISSN: 1367-4803 |
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| source | Oxford Journals Open Access Collection |
| subjects | Biological and medical sciences Clinical Laboratory Techniques Computer Communication Networks Database Management Systems Databases, Genetic DNA Mutational Analysis - methods Fundamental and applied biological sciences. Psychology General aspects Genetic Testing - methods Information Storage and Retrieval - methods Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) Software Systems Integration User-Computer Interface |
| title | A Laboratory Information Management System (LIMS) for a high throughput genetic platform aimed at candidate gene mutation screening |
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