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In HpPen3 cell extracts the halo is most likely due to the accumulation of IPN, whereas for HpPen4 cells residual amounts of PenG and IPN may remain inside the cells.
It has also been reported that in Xenopus egg cell extracts the binding of GINS and Cdc45 to chromatin are mutually dependent [ 4].
In order to perform a direct and easy quantification of transcripts on cell extracts, the feasibility of an analytical device able to selectively detect a defined target RNA in a complex mixture while avoiding labelling, retrotranscription and amplification steps, has been explored.
Advantages of this assay are its applicability to cell extracts, the possibility to determine the enantiopreference by using enantiopure α-methylbenzylamine and its high sensitivity.
For telomerase activity measurements in zebrafish embryo and cell extracts, the TRAP (Telomere Repeat Amplification Protocol) assay was performed using three different types of detection methods.
In cell extracts, the relative amount (AR(E)) of each RNA was first calculated from the threshold cycle (CT) of each cDNA amplification by using the following equation: AR(E) = 2−ΔCT = 2− CT of test RNA – CT of reference RNA).
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Within the same cell extract, the amount of UBF-associated rDNA promoter was only slightly reduced.
After addition of the cell extract the absorbance first decreased and subsequently increased again.
However, due to the low concentrations of dNTPs in the cell extract, the peak containing dTTP co-eluted with ATP.
The cell extracts incubated in the absence of antibody were used for input controls.
Thus, in wild-type cell extracts RNA limits the accessibility of Not5-associated Rrp41.
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