Strawberry (Fragaria vesca) eFP Browser

Data Source Mode Gene ID Signal Threshold

  

All data presented here is RNA-seq data consisting of 51-bp single-ended reads from the Illumina HiSeq2000 instrument. Mapping was against the F. vesca genome assembly v2.0a. The data from the fruit stages is from Kang et al., 2013. The flower stage data is from Hollender et al., 2014. All stage numbering follows Hollender et al., 2012. The data in "Green vs White" is from Liu Lab, unpublished data. The eFP tool itself is based on the software from University of Toronto (Winter et al., 2007), with some small modifications.

Hollender, Courtney A., Aviva C. Geretz, Janet P. Slovin, and Zhongchi Liu. "Flower and Early Fruit Development in a Diploid Strawberry, Fragaria Vesca." Planta 235, no. 6 (June 1, 2012): 1123–39. doi:10.1007/s00425-011-1562-1.

Hollender, Courtney A., Chunying Kang, Omar Darwish, Aviva Geretz, Benjamin F. Matthews, Janet Slovin, Nadim Alkharouf, and Zhongchi Liu. "Floral Transcriptomes in Woodland Strawberry Uncover Developing Receptacle and Anther Gene Networks." Plant Physiology 165, no. 3 (July 1, 2014): 1062–75. doi:10.1104/pp.114.237529.

Kang, Chunying, Omar Darwish, Aviva Geretz, Rachel Shahan, Nadim Alkharouf, and Zhongchi Liu. "Genome-Scale Transcriptomic Insights into Early-Stage Fruit Development in Woodland Strawberry Fragaria Vesca." The Plant Cell Online 25, no. 6 (June 1, 2013): 1960–78. doi:10.1105/tpc.113.111732.

Winter, Debbie, Ben Vinegar, Hardeep Nahal, Ron Ammar, Greg V. Wilson, and Nicholas J. Provart. "An 'Electronic Fluorescent Pictograph' Browser for Exploring and Analyzing Large-Scale Biological Data Sets." Edited by Ivan Baxter. PLoS ONE 2, no. 8 (August 8, 2007): e718. doi:10.1371/journal.pone.0000718.