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We prepared the expression plasmids pcDNAERα, pcDNAERβ, pZeoSV2AR, pSG5-GR, pZeo-TRα1, and pZeo-TRβ1 encoding full-length receptor proteins and the reporter plasmids pGL3-tkERE, pIND-ARE, pGRE-tk-Luc, and pIND-TREpal as previously described (Kitamura et al. 2005b; Kojima et al. 2003, 2004; Yamamoto et al. 2000).
After the cell lysates were prepared, the expression level of these proteins was detected by anti-HMGR, anti-p53, anti-p-p53 (ser-15), anti-Erk, anti-p-Erk, anti-p38, anti-p-p38, anticaspase 3, and antiactin antibodies by the conventional Western blot procedure.
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The synthetic gene was ligated into the NdeI and NotI sites of pET K) to prepare the expression construct pET K) LSA-NRCE.
To test if the two mRNA forms generate functional MsrB1, we prepared the corresponding expression constructs differing in the 3'-UTR and coding for an N-terminal GFP followed by mouse MsrB1 sequences.
Theses results were in good agreement with the pilot experiment in Figure 2. In light of the high cloning specificity of the TS-HR technique, we prepared the immunoglobulin expression plasmids without screening single colonies for a correct clone.
We prepared the distribution of expression changes along Ch5b by plotting the expression ratios Sor55/3153A of each gene to its position on Ch5b, Fig. 3.
RK prepared the P. pastoris expression strains.
TU and MY prepared the dataset, gene expression data and sequences of the RP gene for this study and helped with the writing of the manuscript.
Recombinant proteins rp(H M180 and the chimeric protein were prepared using the expression vector pQE30 (Qiagen Inc ., expressed in E. coli, isolated, and purified using QIAexpress Ni-NTA Protein Purification System following previously described protocols [23].
The oligonucleotide primers used for amplifying PMM cDNAs during preparing the bacterial expression constructs are provided in Additional file 4. The induction of PMM cDNA expression in the bacterial cells and the purification of histidine tagged PMMs through metal chelate affinity chromatography were accomplished as described previously [ 6].
To prepare the gene expression matrix for further downstream analysis, we applied a KNN (k = 10) imputation to make sure an expression value existed for all genes in all samples [ 57].
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