Arshinoff BI , Cary GA , Karimi K , Foley S , Agalakov S , Delgado F , Lotay VS , Ku CJ , Pells TJ , Beatman TR , Kim E , Cameron RA , Vize PD , Telmer CA , Croce JC , Ettensohn CA , Hinman VF .

P41 HD095831 NICHD NIH HHS

	Figure 1. The Echinobase landing page and portal. A central feature of the page is an animated ‘news slider’ that presents a slide show of community news and new features of the resource. A horizontal navigation menu shared between all Echinobase pages provides consistency, and large ‘tiles’ of grouped content, e.g. ‘Genes and Expression’, ‘Genome Browsers’ and ‘BLAST’ aggregate commonly used tools and content.
	Figure 2. The Echinobase Gene Page. The top section of the page contains species agnostic information such as gene symbols, names and functions. It also contains synonyms, where legacy symbols and short names are stored and make genes locatable via database searches. The synonyms are also used to link Gene Pages to matched terms in the literature section. Due to the large amount of content aggregated on Gene Pages, much of the data is sorted into ‘tabs’ at the top of the page (orange arrow). Where a tab contains content, this is indicated by a numeral or icon. A transcriptional profile for the gene is also present, currently only for S. purpuratus, and will be expanded to additional species as data becomes available. The species specific content is arranged in vertical columns, each topped by a drop down menu that enables the user to define the content of that column (red arrow). In this example the third column header has been selected, displaying the three options for its content. The ‘+’ symbol highlighted by the green arrow allows additional columns to be displayed. As we will be adding both a fourth species and paralogs to the display options in the near future, the ability to customize the data viewed will become even more important. Where we store and integrate multiple genome versions, for example for S. purpuratus, the user can also select which genome version is displayed as a gene model via a drop-down menu, and which genome version is linked to the Gene Page in JBrowse. This is only the case when we have integrated multiple versions, and this is only the case in some species. As different genome builds (e.g. S. purpuratus v3.1 and v5.0) have different sets of gene models, not all genes will be available in all genome versions. When this happens the number of available genomes will change in the user display. The chromosome maps and gene model exon/intron graphics are generated dynamically from database content by JavaScript, and selecting a new genome version will dynamically display the new gene structure for the selected version. The rocket icon that appears adjacent to many sequence based hyperlinks will load the corresponding sequence into BLAST, while the magnifying glass icon will open the sequence in a display window.
	Figure 3. Echinobase literature pages. This screenshot illustrates a paper that has been processed by automated systems only, so all links, identified genes, authors and anatomy terms, figures and legends etc. were added by machine-based methods. The only organism detected by these tools was ‘echinodermata’, and a curator must annotate this page to include the species in the title, Heliocidaris erythrogramma, add additional genes, experimental reagents (morpholinos etc.), curate the gene expression patterns in the figures etc. When this is done all these data will also be displayed on this page. Authors with Echinobase community pages are hyperlinked, as are terms in the abstract and figure legends matching genes/synonyms, anatomy/synonyms etc. When text matches more than one target, selecting the link will display a disambiguation page.