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From the results of our analysis, we observed that semiquantitative methods normalized to the background activity seem to outperform qualitative approaches and semiquantitative methods without normalization.
Virus release efficiency was calculated as described in MATERIALS AND METHODS, normalized to virus release efficiency in Ctrl cells.
Relative gene expressions were calculated using the comparative Ct (2−ßßCT) methods normalized to housekeeping gene 36b4.
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Expression levels of each mature miRNA were evaluated using comparative threshold cycle (Ct) method, normalized to those of U6 small nuclear RNA (house-keeping gene) for each condition (delta Ct).
Expression levels of each mRNA were evaluated using comparative threshold cycle (Ct) method, normalized to those of β2-microglobulin and hypoxanthine guanine phosphoribosyl transferase 1 (house-keeping genes) for each condition (delta Ct).
After washes, cultures were harvested, dried and then metal content was determined by Inductively Coupled Plasma Optical Emission Spectrometry (ICP-OES) method, normalized to dry mass.
Relative expression of each miRNA was calculated using ΔΔCt method, normalized to RNU48 (an abundant and stable small nuclear RNA) expression.
Luciferase activity was measured using single-tube luminometers with injectors based on standard method, normalized to background levels of luciferase activity derived from negative control cells.
Quantitative reverse transcriptase PCR was performed according to the manufacturer's instructions on a StepOne Plus machine using SYBR Green master mix (Life Technologies, Paisley, UK) and analysed using the ΔΔ-Ct method, normalized to β-actin.
All the disorder prediction results from these methods were normalized to a 0 1 scale of disorder with values of 0.5 and greater indicating the tendency of a residue to be considered disordered.
To examine this, we profiled temporal cortex mRNA levels by qRT-PCR for 4 of the "type 1" genes listed in Fig. 2 (SYK, NEUROD2, GABRA2, GAD1) in a cohort of six child brains (range: 1.3 11.5 years) and 11 adults (range: 32 87 years), carefully matched for RNA quality (see Methods) and normalized to 18S rRNA levels (data not shown).
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