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  • The institutional data repository DataSuds provides IRD scientists and their partners with a service to disseminate, preserve and enhance their multi-disciplinary research data by facilitating their identification and citation. It is one of the elements of the open science system for the South promoted by IRD.

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  • The Eukaryotic Promoter Database (EPD) provides accurate transcription start site (TSS) information for promoters of 15 model organisms, from human to yeast to the malaria parasite Plasmodium falciparum. While the original database was a manually curated database based on published experiments, new promoter collections are now produced entirely automatically (under the name “EPDnew”) based on high-throughput transcript mapping data and high-quality gene annotation resources. Corresponding functional genomics data can be viewed in a genome browser, queried or analyzed via web interfaces, or exported in standard formats like FASTA or BED for subsequent analysis with other tools; of note, EPD is tightly integrated with two tool suites developed by our group: ChIP-Seq and Signal Search Analysis, for analysis of chromatin context and sequence motif respectively. EPD provides promoter viewers, designed with the aim of integrating and displaying information from different sources about, for instance, histone marks, transcription factor-binding sites or SNPs with known phenotypes. These viewers rely upon the UCSC genome browser as a visualization platform, which enables users to view data tracks from EPD jointly with tracks from UCSC or public track hubs.

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  • Paramecia are unicellular eukaryotes of large size (~ 120 micrometers for P aurelia species) that belong to the ciliate phylum. Ciliates, like the Last Eukaryotic Common Ancestor, have the axonemal structure in the form of vibrating cilia that assure locomotion and food capture and are essential for pairing of paramecia of opposite mating types during conjugation (sexual reproduction). Like multicellular eukaryotes, ciliates separate germinal and somatic functions, harbouring two different kinds of nuclei. A diploid germinal micronucleus transmits the genetic information to the next sexual generation, while a polyploid somatic macronucleus is responsible for gene expression. Reproducible DNA elimination, which occurs in many animal lineages, takes place in ciliates during sexual reproduction, when a new somatic macronucleus develops from a copy of the germline micronucleus. The somatic genomes of numerous Paramecium species are being sequenced and annotated. ParameciumDB integrates the genomes as they become available, to provide resources for functional and comparative genomics to the community. ParameciumDB interfaces and tools have been redesigned. Your feedback is welcome.

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  • A public standards-compliant repository for gel-based proteomics data linked to protein identification published in the literature, and stores a collection of multi-species reference maps, with thousands of identified spots..

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1,800 Data sources
  • The institutional data repository DataSuds provides IRD scientists and their partners with a service to disseminate, preserve and enhance their multi-disciplinary research data by facilitating their identification and citation. It is one of the elements of the open science system for the South promoted by IRD.

    more_vert
  • more_vert
  • The Eukaryotic Promoter Database (EPD) provides accurate transcription start site (TSS) information for promoters of 15 model organisms, from human to yeast to the malaria parasite Plasmodium falciparum. While the original database was a manually curated database based on published experiments, new promoter collections are now produced entirely automatically (under the name “EPDnew”) based on high-throughput transcript mapping data and high-quality gene annotation resources. Corresponding functional genomics data can be viewed in a genome browser, queried or analyzed via web interfaces, or exported in standard formats like FASTA or BED for subsequent analysis with other tools; of note, EPD is tightly integrated with two tool suites developed by our group: ChIP-Seq and Signal Search Analysis, for analysis of chromatin context and sequence motif respectively. EPD provides promoter viewers, designed with the aim of integrating and displaying information from different sources about, for instance, histone marks, transcription factor-binding sites or SNPs with known phenotypes. These viewers rely upon the UCSC genome browser as a visualization platform, which enables users to view data tracks from EPD jointly with tracks from UCSC or public track hubs.

    more_vert
  • more_vert
  • Paramecia are unicellular eukaryotes of large size (~ 120 micrometers for P aurelia species) that belong to the ciliate phylum. Ciliates, like the Last Eukaryotic Common Ancestor, have the axonemal structure in the form of vibrating cilia that assure locomotion and food capture and are essential for pairing of paramecia of opposite mating types during conjugation (sexual reproduction). Like multicellular eukaryotes, ciliates separate germinal and somatic functions, harbouring two different kinds of nuclei. A diploid germinal micronucleus transmits the genetic information to the next sexual generation, while a polyploid somatic macronucleus is responsible for gene expression. Reproducible DNA elimination, which occurs in many animal lineages, takes place in ciliates during sexual reproduction, when a new somatic macronucleus develops from a copy of the germline micronucleus. The somatic genomes of numerous Paramecium species are being sequenced and annotated. ParameciumDB integrates the genomes as they become available, to provide resources for functional and comparative genomics to the community. ParameciumDB interfaces and tools have been redesigned. Your feedback is welcome.

    more_vert
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  • more_vert
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  • A public standards-compliant repository for gel-based proteomics data linked to protein identification published in the literature, and stores a collection of multi-species reference maps, with thousands of identified spots..

    more_vert
  • more_vert
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  • 7
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