5/6/2023 0 Comments Sample manager lims book![]() We have implemented PHP-based export tool (2ImmPort), which converts study data collected in LabKey to the ImmPort compliant tab separated file format and packages it in a zip file ready for ImmPort submission. To enhance the usability the user is provided with drop-down boxes wherever the input of controlled vocabulary data is required. However, the mandate to map these rich and flexible annotations to limited Immport vocabulary was not feasible. We would have preferred to use existing ontologies as they are provided by the MIRIAM registry. We implemented a controlled vocabulary, which is easily mapped to the ImmPort data. Our LIMS is designed in such a way that all required data for ImmPort submission is captured in real time, that is, the experimenter provides all relevant information when recording experimental steps and results. Josep Bassaganya-Riera, in Computational Immunology, 2016 Public Repositories: ImmPort The number of patient-specific data records and the complexity of relationships in family-based testing make it difficult for manual processes to achieve the required reliability. 72 Automated procedures for exporting data files to analytical software and data archiving on indelible media are also important issues. More sophisticated statistical models of sequencing and genotyping data are greatly improving the ability to handle datasets per individual that would be far too large for manual analysis. Instrument-specific and secondary base-calling programs are necessary for data interpretation. Automated data acquisition is an important component of DNA sequencing and genotyping. Relational databases (usually implemented on Oracle or SQL servers) should integrate sample accession, physical archive, quality control, and genotype information. DNA diagnostic laboratories have several unique problems and requirements that deserve comment. Laboratory information management (LIM) systems are widespread and each laboratory must deal with the generic operational problems of sample accession, tracking, and reporting. ![]() Belmont, in Clinical Immunology (Third Edition), 2008 INTERNAL DATABASES AND DATA ACQUISITION Such systems seem of little relevance unless they are supported and integrated with an efficient LIMS guiding the flow of samples. These systems may have a sample processing capacity hardly attainable using manual processing. Such ALHs may be referred to as production lines. Integration of multiple components or equipment may enable larger ALHs to perform several usually separate laboratory processes without requirements for manual intervention. Medium-sized ALHs may be used without LIMS integration, but they generally benefit from LIMS integration. The instrument software controlling most medium-sized ALHs enables processing of samples according to information contained in simple input files, for example, generated by a LIMS. ![]() This enables the medium-sized ALHs to be used for more complex laboratory processes utilizing various labware. The deck size allows for multiple tubes in carriers as well as microtiter plates and hence allows more complex processes. The pipetting arm may be automatic adjustable (span) enabling the ALHs to efficiently transfer samples from tubes to plates or vice versa. Medium-sized ALHs generally offer greater flexibility, and options for integration as well as communication with a LIMS. However, being simple with limited flexibility ensures that fewer options must be tested and validated enabling faster validation and implementation. The flexibility and the integration options of the smaller ALHs may be significantly lower than those of the medium-sized ALHs or simply not existing. LIMS integration may not be possible with these instruments. This reduces the cost of the instrument and the validation as well as the requirements to the operators in terms of computer skills. The simplest ALH may be controlled by a simple control panel rather than a PC. Laboratories with no or very limited LIMS support may benefit from choosing simple stand-alone ALHs. The level of available LIMS support may have a significant impact on the selection of the optimal ALH. LIMS integration requires exchange of information either by a shared database or transfer of files. ![]() Morling, in Encyclopedia of Forensic Sciences (Second Edition), 2013 LIMS Support/Integration
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