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These findings were recapitulated by using a second siRNA against PHD1 (Fig 2C).
The data obtained in the subsequent experiments were confirmed using a second siRNA sequence to rule out off-target effects (Additional data file 2).
Fig. S2 Validation of gene expression data (A-B) Confirmation of the siRNA data using a second siRNA to knock-down expression against each of the indicated genes in radiation-induced senescent vs. non-senescent human subcutaneous preadipocytes and HUVECs.
Control experiments using a second siRNA pool directed against a different region of ArhGAP44 mRNA confirmed the phenotype, thus showing that siRNA knockdown and overexpression of ArhGAP44 have opposing effects.
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DOI: http://dx.doi.org/10.7554/eLife.00068.011 10.7554/eLiFigure68.012 Figure 5 figure supplement 2. Confirmation of TAF requirement for transcriptional activity using a second, unrelated siRNA.
DOI: http://dx.doi.org/10.7554/eLife.00068.021 10.7554/eLiFigure68 figuregure 8—figure supplement 3. Validation of results presented in Figure 8B using a second, unrelated siRNA.
We observed essentially identical results using a second independent siRNA for a subset of INT subunits, confirming that the loss of PC is not due to an off-target effect (supplementary material Fig. S1).
The results of the E2F4 transfection experiments were verified using a second set of independent siRNA obtained from Ambion Biotechnologies [31], [45].
Similar effects were observed using a second, independent JAM-A siRNA construct (Supplementary Figure S1B in Additional file 1).
To exclude that these observations could be due to nonspecific off-target effects, CHKA-specific silencing and co-modulation of selected genes were validated by RT-qPCR using a second independent CHKA-specific siRNA pool (Supplementary Figure 5A and 5B).
CHKA silencing was validated using a second set of independent siRNAs and four shRNAs described in detail in Additional file 2: Supplementary materials and methods and Additional file 3: Figure S2.
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