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For LMO4, Pax6, Brn3b and PKC immunostaining, antigen was unmasked with microwave treatment in 10 mM citrate buffer (in 1L water add 42g citric acid, 21 g Sodium hydroxide, pH = 6) using a 1000 watt microwave set at power 6 for 10 min and sections were cooled on ice for 10 min before processing for immunostaining.
Dry swabs were immersed in PBS (1 mL) for 10 min before processing.
For cells previously held for 120 min before processing high recovery levels (REC > 99%) with modest levels of compaction are still possible but any attempt to achieve high levels of compaction results in very high losses.
After incubation, the living larvae were fixed in paraformaldehyde (PFA) 3% in phosphate buffer saline (PBS) + 70% cold methanol for 20 min and then rinsed and rehydrated in 0.1% BSA/PBS for 10 min before processing for immunohistochemical reactions.
In some animals, a solution of type I horseradish peroxidase (HRP, 44 kDa, Sigma P 8125, 12 000 units, 143 mg/mL in sterile saline) was injected in the femoral vein 15 min before processing to label the retinal blood vessels, as previously described.
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For reprobing, the membrane was stripped with 70 mM SDS in Tris HCl (pH 6.8) with 0.7 % BME for 15 min at 55 °C before processing as described above.
1 µg total cellular RNA was digested with 1 unit DNase I (Promega) at 37°C for 20 min to remove genomic DNA contamination, before processing for reverse transcription (RT) with oligo dT) primers and reverse transcriptase of Moloney murine leukaemia virus (Promega).
Polished p-type Si(100) wafers (resistivity 1 to 10 Ω cm) were sonicated for 10 min in acetone, ethanol, DI H2O immediately before processing, thus preserving a native SiO2 layer.
Before processing the non-fixed cells, the slides were air-dried for ten min and then used for staining.
The cells were washed with 1X PBS and incubated with Alexa fluor Green (λ488) for 30 min. The antibody was removed and the cells were washed three times with 1X PBS before processing for FACS analysis.
After the whole blood samples were incubated at room temperature for 15 min, they were centrifuged at 3,000 ×g for 10 min, white blood cells were slowly removed from the corresponding layers, and the serum was extracted and stored at –80°C before processing for RNA analyses.
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