Analysis of gene regulation and cell fate from single-cell gene expression profiles in C. elegans
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Supplemental Table 1. List of 93 genes used in this study.
Supplemental Table 2.001-2.326. Raw expression data for each worm image. Each single text file represents a worm. It contains the fluorescence, size and their derivatives of each segmented nucleus.
Column 1: name of annotated nucleus. If the nucleus is not annotated, a segmentation index number is used.
Column 2: size of the nucleus.
Column 3: mass mCherry intensity of the nucleus (GFP intensity in case of myo-3 and his-72).
Column 4: DAPI intensity.
Column 5: background mCHerry, the mean mCherry intensity of the 10 pseudo-nuclei.
Column 6: background DAPI, the mean DAPI intensity of the 10 pseudo-nuclei.
Column 7: adjusted mCherry, Column 3 - Column 5.
Column 8: adjusted DAPI, Column 4 - Column 6.
Column 9: relative DAPI, Column 8 / (mean of Column 8).
Column 10: normalized mCherry, Column 7 / Column 9. If the value is < 1, set the value to 1.
Column 11: log2(normalized mCherry+background), background = 500 in this study.
Supplemental Table 3. List of worm stacks analyzed in this study, worm strains they belong to and gene reporters they carry.
Supplemental Tables 4. Average expression levels of 93 genes in 363 cells. For each gene, the median of the log2 gene expression value (a) or linear gene expression value (b) across all images of worms carrying the reporter is shown.
Supplemental Table 5. Heterogeneous gene expression patterns among cells of the same fate. A. hyp7 nuclei . B. MS- and D-derived body wall muscle cells. C. A-P gradient in body wall muscle cells.
Supplemental Table 6. Log 2 expression of C08B11_3 sample in hyp7 nuclei 1.5 hours and 10 hours after hatching.
7. List of asymmetric cell divisions.