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The cell cultures were allowed to continue growing for 6 hr, 8 hr and 10 hr (according to the experimental design) after induction and adjustment of growing temperature.
The three clustered subtypes were designated as "oxidative phosphorylation (OxPhos)", "B-cell response (BCR)", and "host response (HR)" according to relevant molecular mechanisms.
We used CM-H2DCFDA (Molecular Probes, Invitrogen) to measure the intracellular ROS during the reoxygenation (1 6 hr) according to the manufacturer's protocol with a few modifications.
Gel rehydration of the 24-cm IPG strips (GE Healthcare) with the 450-µL rehydration buffer (including the protein sample), was performed at room temperature in the dark for 12 hr according to the manufacturer's instructions.
Cells were allowed to rest for 16 20 hr, growth media was removed, and the calcium indicator dye Fluo-4 NW (Invitrogen) was used to load the cells for 1 hr according to the manufacturer's instructions.
Transfection was performed with Lipofectamine 2000 (Invitrogen) for 48 hr according to the standard Invitrogen protocols.
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If the HR was not directly given in the publication, we estimated HRs according to methods proposed by Parmar et al 18 and Tierney et al. 19 We identified three non-randomised, prospective, parallel and controlled clinical trials (figure 1).
For proliferation assays, bromodeoxyuridine (BrDU) was added in the last 12 hrs according to the manufacturer's instruction.
To determine cytokine production, the cells were treated with Golgi-Plug (BD Biosciences) during the last 2 hrs according to the manufacturer's instructions.
To conduct GFP-WIPI-1 puncta-formation analyses [22], [23], DJ-1 WT or KO MEF were transiently transfected using Lipofectamin2000 (Invitrogen, USA) at a ratio of 1∶2.5 (pEGFP.C1-WIPI-1 DNA:Lipofectamin2000) for 48 hrs according to the manufactorer's instruction.
Mortality and adjusted HRs according to HbA1c categories are shown in Table 2.
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