The Experts below are selected from a list of 90009 Experts worldwide ranked by ideXlab platform
Etienne Danchin - One of the best experts on this subject based on the ideXlab platform.
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figenix intelligent automation of genomic annotation expertise integration in a new software platform
2005Co-Authors: Philippe Gouret, Verane Vitiello, Nathalie Balandraud, Andre Gilles, Pierre Pontarotti, Etienne DanchinAbstract:Background: Two of the main objectives of the genomic and post-genomic era are to structurally and functionally annotate genomes which consists of detecting genes' position and structure, and inferring their function (as well as of other features of genomes). Structural and functional annotation both require the complex chaining of numerous different software, algorithms and methods under the supervision of a biologist. The automation of these pipelines is necessary to manage huge amounts of data released by sequencing projects. Several pipelines already automate some of these complex chaining but still necessitate an important contribution of Biologists for supervising and controlling the results at various steps. Results: Here we propose an innovative automated platform, FIGENIX, which includes an expert system capable to substitute to human expertise at several key steps. FIGENIX currently automates complex pipelines of structural and functional annotation under the supervision of the expert system (which allows for example to make key decisions, check intermediate results or refine the dataset). The quality of the results produced by FIGENIX is comparable to those obtained by expert Biologists with a drastic gain in terms of time costs and avoidance of errors due to the human manipulation of data. Conclusion: The core engine and expert system of the FIGENIX platform currently handle complex annotation processes of broad interest for the genomic community. They could be easily adapted to new, or more specialized pipelines, such as for example the annotation of miRNAs, the classification of complex multigenic families, annotation of regulatory elements and other genomic features of interest.
Stanley S Young - One of the best experts on this subject based on the ideXlab platform.
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powermv a software environment for molecular viewing descriptor generation data analysis and hit evaluation
2005Co-Authors: Kejun Liu, Jun Feng, Stanley S YoungAbstract:Ideally, a team of Biologists, medicinal chemists and information specialists will evaluate the hits from high throughput screening. In practice, it often falls to nonmedicinal chemists to make the initial evaluation of HTS hits. Chemical genetics and high content screening both rely on screening in cells or animals where the biological target may not be known. There is a need to place active compounds into a context to suggest potential biological mechanisms. Our idea is to build an operating environment to help the biologist make the initial evaluation of HTS data. To this end the operating environment provides viewing of compound structure files, computation of basic biologically relevant chemical properties and searching against biologically annotated chemical structure databases. The benefit is to help the nonmedicinal chemist, biologist and statistician put compounds into a potentially informative biological context. Although there are several similar public and private programs used in the pharmaceutical industry to help evaluate hits, these programs are often built for computational chemists. Our program is designed for use by Biologists and statisticians.
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powermv a software environment for molecular viewing descriptor generation data analysis and hit evaluation
2005Co-Authors: Jun Feng, Stanley S YoungAbstract:Ideally, a team of Biologists, medicinal chemists and information specialists will evaluate the hits from high throughput screening. In practice, it often falls to nonmedicinal chemists to make the initial evaluation of HTS hits. Chemical genetics and high content screening both rely on screening in cells or animals where the biological target may not be known. There is a need to place active compounds into a context to suggest potential biological mechanisms. Our idea is to build an operating environment to help the biologist make the initial evaluation of HTS data. To this end the operating environment provides viewing of compound structure files, computation of basic biologically relevant chemical properties and searching against biologically annotated chemical structure databases. The benefit is to help the nonmedicinal chemist, biologist and statistician put compounds into a potentially informative biological context. Although there are several similar public and private programs used in the pharmace...
Etienne G J Danchin - One of the best experts on this subject based on the ideXlab platform.
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figenix intelligent automation of genomic annotation expertise integration in a new software platform
2005Co-Authors: Philippe Gouret, Verane Vitiello, Nathalie Balandraud, Andre Gilles, Pierre Pontarotti, Etienne G J DanchinAbstract:Background Two of the main objectives of the genomic and post-genomic era are to structurally and functionally annotate genomes which consists of detecting genes' position and structure, and inferring their function (as well as of other features of genomes). Structural and functional annotation both require the complex chaining of numerous different software, algorithms and methods under the supervision of a biologist. The automation of these pipelines is necessary to manage huge amounts of data released by sequencing projects. Several pipelines already automate some of these complex chaining but still necessitate an important contribution of Biologists for supervising and controlling the results at various steps.
Philippe Gouret - One of the best experts on this subject based on the ideXlab platform.
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figenix intelligent automation of genomic annotation expertise integration in a new software platform
2005Co-Authors: Philippe Gouret, Verane Vitiello, Nathalie Balandraud, Andre Gilles, Pierre Pontarotti, Etienne G J DanchinAbstract:Background Two of the main objectives of the genomic and post-genomic era are to structurally and functionally annotate genomes which consists of detecting genes' position and structure, and inferring their function (as well as of other features of genomes). Structural and functional annotation both require the complex chaining of numerous different software, algorithms and methods under the supervision of a biologist. The automation of these pipelines is necessary to manage huge amounts of data released by sequencing projects. Several pipelines already automate some of these complex chaining but still necessitate an important contribution of Biologists for supervising and controlling the results at various steps.
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figenix intelligent automation of genomic annotation expertise integration in a new software platform
2005Co-Authors: Philippe Gouret, Verane Vitiello, Nathalie Balandraud, Andre Gilles, Pierre Pontarotti, Etienne DanchinAbstract:Background: Two of the main objectives of the genomic and post-genomic era are to structurally and functionally annotate genomes which consists of detecting genes' position and structure, and inferring their function (as well as of other features of genomes). Structural and functional annotation both require the complex chaining of numerous different software, algorithms and methods under the supervision of a biologist. The automation of these pipelines is necessary to manage huge amounts of data released by sequencing projects. Several pipelines already automate some of these complex chaining but still necessitate an important contribution of Biologists for supervising and controlling the results at various steps. Results: Here we propose an innovative automated platform, FIGENIX, which includes an expert system capable to substitute to human expertise at several key steps. FIGENIX currently automates complex pipelines of structural and functional annotation under the supervision of the expert system (which allows for example to make key decisions, check intermediate results or refine the dataset). The quality of the results produced by FIGENIX is comparable to those obtained by expert Biologists with a drastic gain in terms of time costs and avoidance of errors due to the human manipulation of data. Conclusion: The core engine and expert system of the FIGENIX platform currently handle complex annotation processes of broad interest for the genomic community. They could be easily adapted to new, or more specialized pipelines, such as for example the annotation of miRNAs, the classification of complex multigenic families, annotation of regulatory elements and other genomic features of interest.
Jun Feng - One of the best experts on this subject based on the ideXlab platform.
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powermv a software environment for molecular viewing descriptor generation data analysis and hit evaluation
2005Co-Authors: Kejun Liu, Jun Feng, Stanley S YoungAbstract:Ideally, a team of Biologists, medicinal chemists and information specialists will evaluate the hits from high throughput screening. In practice, it often falls to nonmedicinal chemists to make the initial evaluation of HTS hits. Chemical genetics and high content screening both rely on screening in cells or animals where the biological target may not be known. There is a need to place active compounds into a context to suggest potential biological mechanisms. Our idea is to build an operating environment to help the biologist make the initial evaluation of HTS data. To this end the operating environment provides viewing of compound structure files, computation of basic biologically relevant chemical properties and searching against biologically annotated chemical structure databases. The benefit is to help the nonmedicinal chemist, biologist and statistician put compounds into a potentially informative biological context. Although there are several similar public and private programs used in the pharmaceutical industry to help evaluate hits, these programs are often built for computational chemists. Our program is designed for use by Biologists and statisticians.
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powermv a software environment for molecular viewing descriptor generation data analysis and hit evaluation
2005Co-Authors: Jun Feng, Stanley S YoungAbstract:Ideally, a team of Biologists, medicinal chemists and information specialists will evaluate the hits from high throughput screening. In practice, it often falls to nonmedicinal chemists to make the initial evaluation of HTS hits. Chemical genetics and high content screening both rely on screening in cells or animals where the biological target may not be known. There is a need to place active compounds into a context to suggest potential biological mechanisms. Our idea is to build an operating environment to help the biologist make the initial evaluation of HTS data. To this end the operating environment provides viewing of compound structure files, computation of basic biologically relevant chemical properties and searching against biologically annotated chemical structure databases. The benefit is to help the nonmedicinal chemist, biologist and statistician put compounds into a potentially informative biological context. Although there are several similar public and private programs used in the pharmace...
