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Table 1 Generalized linear model comparing gene detection of the Freeze-thaw protocol to the other tested protocols. Comparison of the number of genes detected for Smart-seq2, and five modified Smart-seq2 variants, against our “Freeze-thaw” protocol using a generalized linear model with a negative binomial error distribution. Significant p-values (<= 0.05) are indicated with an asterisk

From: An efficient single-cell transcriptomics workflow for microbial eukaryotes benchmarked on Giardia intestinalis cells

FPKM Protocol Estimate StdError z-value Pr(>|z|)
0 Smart-seq2 −0.045146 0.036829 −1.226 0.22026
0 Half volumes −0.098322 0.036848 −2.668 0.00762*
0 5′ Biotin mod. −0.035167 0.038118 −0.923 0.35622
0 In-house beads −0.050162 0.03683 −1.362 0.17321
0 1 μM oligo-dT −0,004165 0.036814 −0.113 0.90992
0 All changes −0.022638 0.036821 −0.615 0.53867
0.1 Smart-seq2 −0.12486 0.06261 −1.994 0.0461*
0.1 Half volumes −0.14494 0.06261 −2.315 0.0206*
0.1 5′ Biotin mod. −0.07958 0.0648 −1.228 0.2194
0.1 In-house beads −0.10104 0.0626 −1.614 0.1065
0.1 1 μM oligo-dT −0.07918 0.0626 − 1.265 0.2059
0.1 All changes −0.0756 0.0626 −1.208 0.2271
1 Smart-seq2 −0.26975 0.12333 −2.187 0.0287*
1 Half volumes −0.11903 0.12331 −0.965 0.3344
1 5′ Biotin mod. −0.23547 0.12766 −1.845 0.0651
1 In-house beads −0.13111 0.12331 −1.063 0.2876
1 1 μM oligo-dT −0.20511 0.12332 −1.663 0.0963
1 All changes −0.20074 0.12332 −1.628 0.1036