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Drosophila Wnt/Fz Pathways (Supplemental Tables)

Ramanuj Dasgupta1, Michael Boutros2, and Norbert Perrimon1*

1Current contributing authorities, Harvard Medical School/HHMI, Department of Genetics, Boston, MA 02115, USA.
2Former contributing authority, German Cancer Research Center (DKFZ/B110), Im Neuenheimer Feld 580, 69120 Heidelberg, Germany.

Table 1. List of “hits” identified as potential regulators of the Wnt/Wg pathway, reprinted with permission (1). The identifiers are listed by Drosophila RNAi Screening Center (DRSC) amplicons, HFA, or gene names. Detailed information can be found at the DRSC Web site (2). The Z-scores corresponding to each double-stranded RNA (dsRNA) from the primary screen are listed. Secondary screens (in 96-well plate format) of the “hits” have been depicted as “fold change of reporter activity” with respect to (wrt) green fluorescent protein (GFP) dsRNA knockdown. Hits were considered significant and reproducible only if they displayed a fold change of ≥ 1.5 for both positive and negative regulators. Using this method, ~90% of the hits obtained from the primary screen could be reproduced in the secondary screens. “Phenotype” corresponds to the effect of dsRNA-mediated knockdown of the corresponding gene on the Wnt-reporter activity. RNAi toward negative regulators result in an “increased” (superactivation of reporter gene) phenotype, whereas those toward positive effectors lead to a “decreased” (repression of reporter gene) phenotype. Gene ontology (GO) information was obtained from InterPro (3) and Flybase (4). ND, not determined or unknown; NC, no change; TM, transmembrane.

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Table 2. Specific examples of candidate genes that are “highly related” to human genes associated with genetic diseases [as curated from the Homophila Web site (5)]. The fly genes are listed together with the corresponding FlyBase genome annotations (FBgns) and the disease-related human orthologs or “highly related” genes, as well as the mutations that are associated with the specific diseases. More information about the diseases can be found at the Online Mendelian Inheritance in Man (OMIM) site. The human homologs are purely based on sequence homologies using strict criteria of E value < 10–20 to identify potential homologs; hence, they are referred to as "highly related" genes. A few candidate gene homologs that have E values < 10–10 are also listed, because they were independently identified as sequence homologs by reciprocal-best-blast (RBB). This is in accordance with Reiter et al. (6), in which sequence homologies of E < 10–10 were considered highly related. [Reprinted with permission from (1).]

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*Corresponding author. E-mail, perrimon{at}rascal.med.harvard.edu

References and Notes
    1. R. DasGupta, A. J. Kaykas, R. T. Moon, N. Perrimon, Functional genomic analysis of the Wnt/Wingless signaling pathway. Science 308, 826-833 (2005). (published online April 7 2005; 10.1126/science.1109374). [Abstract] [Full Text]
    2. Drosophila RNAi Screening Center, http://www.flyrnai.org
    3. InterPro http://www.ebi.ac.uk/interpro
    4. FlyBase, http://flybase.bio.indiana.edu
    5. Homophila: Human Disease to Drosophila Gene Database, http://superfly.ucsd.edu/homophila/
    6. L. T. Reiter, L. Potocki, S. Chien, M. Gribskov, E. Bier, "A Systematic Analysis of Human Disease-Associated Gene Sequences in Drosophila melanogaster," Genome Research 11, 1114-1125 (Cold Spring Harbor Labratory Press, NY, 2001).

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    Citation: R. DasGupta, M. Boutros, N. Perrimon, Drosophila Wnt/Fz pathways. Sci. STKE (Connections Map, supplemental tables), http://stke.sciencemag.org/cgi/cm/stkecm;CMP_6459.

    © 2005 American Association for the Advancement of Science


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