ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates - Université Claude Bernard Lyon 1 Accéder directement au contenu
Article Dans Une Revue Nucleic Acids Research Année : 2020

ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates

Delphine Dauga
Emmanuel Faure
Alexandra Louis
Shigeki Fujiwara
Michael Veeman
Joseph F Ryan
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Hiroki Nishida

Résumé

ANISEED (https://www.aniseed.cnrs.fr) is the main model organism database for the worldwide community of scientists working on tunicates, the vertebrate sister-group. Information provided for each species includes functionally-annotated gene and transcript models with orthology relationships within tunicates, and with echinoderms, cephalochordates and vertebrates. Beyond genes the system describes other genetic elements, including repeated elements and cis-regulatory modules. Gene expression profiles for several thousand genes are formalized in both wild-type and experimentally-manipulated conditions , using formal anatomical ontologies. These data can be explored through three complementary types of browsers, each offering a different viewpoint. A developmental browser summarizes the information in a gene-or territory-centric manner. Advanced genomic browsers integrate the genetic features surrounding genes or gene sets within a species. A Genomicus synteny browser explores the conservation of local gene order across deuteros-tome. This new release covers an extended taxo-nomic range of 14 species, including for the first time a non-ascidian species, the appendicularian Oiko-pleura dioica. Functional annotations, provided for each species, were enhanced through a combination of manual curation of gene models and the development of an improved orthology detection pipeline. Finally , gene expression profiles and anatomical territories can be explored in 4D online through the newly developed Morphonet morphogenetic browser.
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hal-02415680 , version 1 (18-12-2019)

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Justine Dardaillon, Delphine Dauga, Paul Simion, Emmanuel Faure, Takeshi Onuma, et al.. ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates. Nucleic Acids Research, 2020, 48 (D1), pp.D668-D675. ⟨10.1093/nar/gkz955⟩. ⟨hal-02415680⟩
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