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18. Implication du pharmacien clinicien dans la réalisation du bilan médicamenteux des patients en phase de screeningd’un essai clinique : un premier test réussi !

Author

Achemaoui, S., Gahbiche, A., Indart, S., Fayel, A., Sanchez Ortiz, M., Bloch, V., Paquet, C., and Jacob, A.

Abstract

En 2021, l’unité pharmaceutique des essais cliniques (EC) a mené une enquête auprès des équipes investigatrices afin de recueillir leurs besoins en termes d’accompagnement pharmaceutique. Parmi les répondants, 42,8 % souhaitaient une collaboration pharmaceutique en phase de screeningpour la réalisation des bilans médicamenteux (BM).

Published
2024
Full Text
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30. Grid-based International Network for Flu Observation (g-INFO)

Author

Doan, T. T., Bernard, A., Da Costa, A. L., Bloch, V., H Le, T., Yannick Legre, Maigne, L., Salzemann, J., Nguyen, H. Q., Vincent Breton, Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Régulations des réactions immunitaires et inflammatoires, Université Nice Sophia Antipolis (1965 - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-IFR50-Institut National de la Santé et de la Recherche Médicale (INSERM), Université Nice Sophia Antipolis (... - 2019) (UNS), and Pellet, Jeanine

Subjects
[SDV.BIBS] Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], [SDV.SPEE] Life Sciences [q-bio]/Santé publique et épidémiologie, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], ComputingMilieux_MISCELLANEOUS, [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM]
Abstract

International audience

Published
2010

31. Increasing WISDOM resources using EDGeS technologie

Author

Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Published
2009

32. The new WISDOM environment

Author

Salzemann, J., Bloch, V., Reichstadt, M., Delahaye, M., Da Costa, A., Tran, T.T., Lee, S., Kim, J., Kim, N., Hwang, S., BRETON, Vincent, Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Published
2009

33. Grids for Life Sciences

Author

Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Published
2008

34. A bioinformatics platform: the evolution of the WISDOM environment

Author

Bloch, V., Salzemann, J., Reichstadt, M., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), and WISDOM

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]
Abstract

Demo; Mature and efficient, the WISDOM environment has evolved continuously to take advantage of the Grid computing and storage resources for large-scale drug discovery applications. The environment has also been used on several occasions for other bioinformatics applications, thanks to its flexibility and its simplicity. This new bioinformatics platform just brings the environment to a new level: combining bioinformatics tools altogether within the same framework.

Published
2008

35. A platform for bioinformatics on the grids

Author

Reichstadt, M., Salzemann, J., Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Published
2008

36. HOPE, an open platform for medical data management on the grid

Author

Diarena, M., Nowak, S., Boire, J. Y., Bloch, V., Donnarieix, D., Fessy, A., Grenier, B., Irrthum, B., Legré, Y., Maigne, L., Salzemann, J., Thiam, C., Spalinger, N., Verhaeghe, N., Vlieger, P., Vincent Breton, Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Equipe de Recherche en Signal et Imagerie Medicale (ERIM-ERI 14), Université d'Auvergne - Clermont-Ferrand I (UdA)-Institut National de la Santé et de la Recherche Médicale (INSERM), Centre Jean Perrin [Clermont-Ferrand] (UNICANCER/CJP), UNICANCER, HealthGrid Association (HealthGrid), HealthGrid Association, CHU Gabriel Montpied [Clermont-Ferrand], CHU Clermont-Ferrand, T. Solomonides, J.C. Silverstein, J. Saltz, Y. Legré, M. Kratz, I. Foster, V. Breton, and J.R. Beck

Subjects
[INFO.INFO-AR]Computer Science [cs]/Hardware Architecture [cs.AR], medical data, Medical Records Systems, Computerized, Medical Informatics Computing, Neurosurgery, Access to Information, Databases as Topic, Computer Systems, [INFO.INFO-IM]Computer Science [cs]/Medical Imaging, Humans, France, telemedicine, data management, Grid, [INFO.INFO-DC]Computer Science [cs]/Distributed, Parallel, and Cluster Computing [cs.DC], Monte Carlo Method, Algorithms, Computer Security, Software, ComputingMilieux_MISCELLANEOUS
Abstract

The paper describes a platform developed for the secure management and analysis of medical data and images in a grid environment. Designed for telemedicine and built upon the EGEE gLite middleware and particularly the metadata catalogue AMGA as well as the GridSphere web portal, the platform provides to healthcare professionals the capacity to upload and query medical information stored over distributed servers. A job submission environment is also available for data analysis. Security features include authentication and authorization by grid certificates, anonymization of medical data and image encryption. The platform is currently deployed on several sites in Europe and Asia and is being customized for applications in the field of telemedicine and medical physics.

Published
2008

37. InterProScan on grids

Author

Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], grid
Published
2008

38. WISDOM

Author

Salzemann, J., Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), and WISDOM

Subjects
bioinformatics, [INFO.INFO-DC]Computer Science [cs]/Distributed, Parallel, and Cluster Computing [cs.DC], [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], drug-discovery, large scale deployment
Abstract

Demo, Abstracts Book; The environment evolved throughout the development: It was first made of a set ofscripts that generate the jobs, submit the files and check regularly their statuswhile they are on the Grid. Through this abstract we want to present the newenvironement that is based on the AMGA metadata catalog for more flexibility andon a Java environment that can be used through web services. The environment isvery flexible and can be used for any type of bioinformatics application.In thisnew environment we control the job distribution, maintaing the choice of directlysubmitting the executable (push mode) or implementing a two-way submission wherethe system submits generic wrapper jobs which request their paylod (theexecutable and the input data) only when they start to be executed (pull mode).

Published
2008

39. WISDOM: grid enabled identification of active molecules against targets implicated in Malaria

Author

Da Costa, A. L., Kasam, V., Salzemann, J., Bloch, V., Vincent Breton, Rastelli, G., Degliesposti, G., Kang, H. K., Kim, D., Saidani, N., Marechal, E., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
Auvergrid, Wisdom, docking, malaria, plasmepsin, in vitro, EGEE, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], virtual screening, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], molecular dynamics
Abstract

à paraître dans l'Abstract book

Published
2008

40. Improving e-Science with Interoperability of the e-Infrastructures EGEE and DEISA

Author

Riedel, M., Memon, A. S., Memon, M. S., Mallmann, D., Venturi, V., Andreetto, P., Marzolla, M., Ferraro, A., Ghiselli, A., Hedman, F., Shah, Z. A., Salzemann, J., Da Costa, A., Bloch, V., Vincent Breton, Kasam, V., Hofmann-Apitius, M., Snelling, D., Berghe, S., Li, V., Brewer, S., Dunlop, A., Silva, N., M. Riedel, A.S. Memon, M.S. Memon, D. Mallmann, A. Streit, V. Venturi, P. Andreetto, M. Marzolla, A. Ferraro, A. Ghiselli, F. Hedman, Zeeshan A. Shah, J. Salzemann, A. Da Costa, V. Breton, V. Kasam, M. Hofmann-Apitiu, D. Snelling, S. van de Berghe, V. Li, S. Brewer, A. Dunlop, and N. De Silva

Abstract

In the last couple of years, many e-Science infrastructures have begun to offer production services to e- Scientists with an increasing number of applications that require access to different kinds of computational resources. Within Europe two rather different multi-national e-Science infrastructures evolved over time namely Distributed European Infrastructure for Supercomputing Applications (DEISA) and Enabling Grids for E-SciencE (EGEE). DEISA provides access to massively parallel systems such as supercomputers that are well suited for scientific applications that require many interactions between their typically high numbers of CPUs. EGEE on the other hand provides access to a world-wide Grid of university clusters and PC pools that are well suited for farming applications that require less or even no interactions between the distributed CPUs. While DEISA uses the HPC-driven Grid technology UNICORE, EGEE is based on the gLite Grid middleware optimized for farming jobs. Both have less adoption of open standards and therefore both systems are technically non-interoperable, which means that no e-Scientist can easily leverage the DEISA and EGEE infrastructure with one suitable client environment for scientific applications. This paper argues that future interoperability of such large e-Science infrastructures is required to improve e-Science in general and to increase the real scientific impact of world-wide Grids in particular. We discuss the interoperability achieved by the OMII-Europe project that fundamentally improved the interoperability between UNICORE and gLite by using open standards. We also outline one specific scientific scenario of the WISDOM initiative that actually benefits from the recently established interoperability.

Published
2008

41. Wisdom Production Environment

Author

Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), and WISDOM

Subjects
[INFO.INFO-DC]Computer Science [cs]/Distributed, Parallel, and Cluster Computing [cs.DC], [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Published
2007

42. The gLite information system

Author

Bloch, V., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-AR]Computer Science [cs]/Hardware Architecture [cs.AR], [INFO.INFO-DC]Computer Science [cs]/Distributed, Parallel, and Cluster Computing [cs.DC]
Published
2007

43. WISDOM : a large scale docking application on the grid

Author

Bloch, V., Lee, H.-C., Salzemann, J., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]
Abstract

PCSV

Published
2007

44. Wisdom

Author

Bloch, V., Breton, Vincent, Salzemann, J., Laboratoire de Physique Corpusculaire - Clermont-Ferrand (LPC), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]
Abstract

PCSV

Published
2007

46. PDB_REDO: automated re-refinement of X-ray structure models in the PDB.

Author

Joosten, R.P., Salzemann, J., Bloch, V., Stockinger, H., Berglund, A, Blanchet, C, Bongcam-Rudloff, E., Combet, C., Da Costa, A.L., Deleage, G., Diarena, M., Fabbretti, R., Fettahi, G., Flegel, V., Gisel, A., Kasam, V., Kervinen, T., Korpelainen, E., Mattila, K., Pagni, M., Reichstadt, M., Breton, V., Tickle, I.J., Vriend, G., Joosten, R.P., Salzemann, J., Bloch, V., Stockinger, H., Berglund, A, Blanchet, C, Bongcam-Rudloff, E., Combet, C., Da Costa, A.L., Deleage, G., Diarena, M., Fabbretti, R., Fettahi, G., Flegel, V., Gisel, A., Kasam, V., Kervinen, T., Korpelainen, E., Mattila, K., Pagni, M., Reichstadt, M., Breton, V., Tickle, I.J., and Vriend, G.

Abstract

Contains fulltext : 81681.pdf (publisher's version ) (Open Access)

Published
2009

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