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The general transcript and metabolite profiles reacted in an antagonistic way especially to low N and low P treatment.
Conventional PCR products for the general COL11A1 transcript run on a 2%% w/v agarose gel: in lane 1 PCR MW Marker (50-150-300-500-766 bp), lanes 2–5 positive cDNA samples for the general transcript (132 bp), lane 6 blank.
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The existence of other variants is speculated: the fact that in 29 % of the cDNA samples no COL11A1 variant were detected -despite the presence of the general transcript- warrants a new research effort in the future for the quest and identification of novel variants.
This indicates that the strong expression of lncRNAs originating from NBiPs in the human PFC could be due to this general transcript processing mechanism.
Cufflinks v0.8.1 was run with default parameters with the following additional tags (-c 2 -F 0.05) and with the Flybase annotation included in a General Transcript File (GTF file).
The general COL11A1 transcript was detected in all samples.
In order to detect the presence or not of the general COL11A1 transcript, a simple conventional PCR was developed.
The general COL11A1 transcript was detected in all samples (Additional file 1: Figure S1) as revealed from a distinct 132 bp band in all PCR products.
When 90 breast cancer tissues were studied, only A and E variants were encountered while the general COL11A1 transcript was present in all samples.
Additionally, the general COL11A1 transcript could also be quantitated in a novel assay (e.g. multiplexed with A and/or E variants) in order to identify samples that although they are positive for A and/or E variants don't sum up to the total COL11A1 transcript and therefore one could hypothesize that they contain additional aberrant transcripts.
In this study, we screened for changes in the expression of core promoter factors including TAFs, general transcript factors (GTFs), and mediator subunits (MEDs) upon neuronal differentiation.
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