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GLAD: an Online Database of Gene List Annotation for Drosophila.

Hu Y, Comjean A, Perkins LA, Perrimon N, Mohr SE - J Genomics (2015)

Bottom Line: The resource is available online for scientists to search and view, and is editable based on community input.We anticipate that the number of lists will increase over time; that the composition of some lists will grow and/or change over time as new information becomes available; and that the lists will benefit the scientific community, e.g. at experimental design and data analysis stages.Based on this, we present an easily updatable online database, available at www.flyrnai.org/glad, at which gene group lists can be viewed, searched and downloaded.

View Article: PubMed Central - PubMed

Affiliation: 1. Drosophila RNAi Screening Center, Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.

ABSTRACT
We present a resource of high quality lists of functionally related Drosophila genes, e.g. based on protein domains (kinases, transcription factors, etc.) or cellular function (e.g. autophagy, signal transduction). To establish these lists, we relied on different inputs, including curation from databases or the literature and mapping from other species. Moreover, as an added curation and quality control step, we asked experts in relevant fields to review many of the lists. The resource is available online for scientists to search and view, and is editable based on community input. Annotation of gene groups is an ongoing effort and scientific need will typically drive decisions regarding which gene lists to pursue. We anticipate that the number of lists will increase over time; that the composition of some lists will grow and/or change over time as new information becomes available; and that the lists will benefit the scientific community, e.g. at experimental design and data analysis stages. Based on this, we present an easily updatable online database, available at www.flyrnai.org/glad, at which gene group lists can be viewed, searched and downloaded.

No MeSH data available.


User interface for the GLAD gene group resource (www.flyrnai.org/glad). Features of the user interface include search or download of specific lists, one-click transfer of the list to UP-TORR for identification of corresponding RNAi reagents, and the option to provide feedback regarding a list (e.g. suggest new genes or relevant publications).
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Figure 2: User interface for the GLAD gene group resource (www.flyrnai.org/glad). Features of the user interface include search or download of specific lists, one-click transfer of the list to UP-TORR for identification of corresponding RNAi reagents, and the option to provide feedback regarding a list (e.g. suggest new genes or relevant publications).

Mentions: The gene group resource, which we call GLAD for gene list annotation for Drosophila, is available online at www.flyrnai.org/glad. Users can choose a gene group of interest from a drop-down menu. At the results page (Fig. 2), information about how the list was built is indicated, along with detailed information regarding members of the group. The table of genes includes FlyBase gene identifiers, gene symbols, sub-group annotations and if available, a confidence score. Tables can be downloaded for off-line analysis. At the user interface, a link to UP-TORR 13 is provided so users can quickly identify corresponding cell-based or in vivo RNAi reagents from public resources. A form provides an opportunity for the research community at large to suggest changes or additions to a given list (see below).


GLAD: an Online Database of Gene List Annotation for Drosophila.

Hu Y, Comjean A, Perkins LA, Perrimon N, Mohr SE - J Genomics (2015)

User interface for the GLAD gene group resource (www.flyrnai.org/glad). Features of the user interface include search or download of specific lists, one-click transfer of the list to UP-TORR for identification of corresponding RNAi reagents, and the option to provide feedback regarding a list (e.g. suggest new genes or relevant publications).
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4495321&req=5

Figure 2: User interface for the GLAD gene group resource (www.flyrnai.org/glad). Features of the user interface include search or download of specific lists, one-click transfer of the list to UP-TORR for identification of corresponding RNAi reagents, and the option to provide feedback regarding a list (e.g. suggest new genes or relevant publications).
Mentions: The gene group resource, which we call GLAD for gene list annotation for Drosophila, is available online at www.flyrnai.org/glad. Users can choose a gene group of interest from a drop-down menu. At the results page (Fig. 2), information about how the list was built is indicated, along with detailed information regarding members of the group. The table of genes includes FlyBase gene identifiers, gene symbols, sub-group annotations and if available, a confidence score. Tables can be downloaded for off-line analysis. At the user interface, a link to UP-TORR 13 is provided so users can quickly identify corresponding cell-based or in vivo RNAi reagents from public resources. A form provides an opportunity for the research community at large to suggest changes or additions to a given list (see below).

Bottom Line: The resource is available online for scientists to search and view, and is editable based on community input.We anticipate that the number of lists will increase over time; that the composition of some lists will grow and/or change over time as new information becomes available; and that the lists will benefit the scientific community, e.g. at experimental design and data analysis stages.Based on this, we present an easily updatable online database, available at www.flyrnai.org/glad, at which gene group lists can be viewed, searched and downloaded.

View Article: PubMed Central - PubMed

Affiliation: 1. Drosophila RNAi Screening Center, Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.

ABSTRACT
We present a resource of high quality lists of functionally related Drosophila genes, e.g. based on protein domains (kinases, transcription factors, etc.) or cellular function (e.g. autophagy, signal transduction). To establish these lists, we relied on different inputs, including curation from databases or the literature and mapping from other species. Moreover, as an added curation and quality control step, we asked experts in relevant fields to review many of the lists. The resource is available online for scientists to search and view, and is editable based on community input. Annotation of gene groups is an ongoing effort and scientific need will typically drive decisions regarding which gene lists to pursue. We anticipate that the number of lists will increase over time; that the composition of some lists will grow and/or change over time as new information becomes available; and that the lists will benefit the scientific community, e.g. at experimental design and data analysis stages. Based on this, we present an easily updatable online database, available at www.flyrnai.org/glad, at which gene group lists can be viewed, searched and downloaded.

No MeSH data available.