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The amount of work that would be needed to assign the positions of the H atoms was considered to be beyond the scope of the current paper.
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To assign the position of sp3H2 H-atoms, we first identify the tetrahedron centered at A with two of its vertices at B and the heavy atom A1, and then put the two H-atoms at the remaining vertices of the tetrahedron (A2 and H in Figure 1a), while retaining the standard bond lengths and bond angles.
The strain MolK2 was used as a reference to assign the position of each polymorphism in the sequence.
150 nuclei from three independent experiments were imaged and analysed for with the nuclear erosion scrip (Croft et al., 1999) to assign the position of the 13p locus.
The tolerance in uracil position was adopted to overcome the inability of FindMiRNA to precisely assign the position of the miRNA 5' end.
All of the MS/MS spectra were then carefully inspected to confirm the identifications, and many of them had to be manually interpreted to correctly assign the position of the phospho residue(s).
The evidence of polymerase pausing from the NRO results may partially reflect the protocol used because fragmentation of RNA after affinity selection can make it difficult to precisely assign the position of polymerase.
The fragments i1 (m/ z 601.5) and n2 (m/ z 253.1) would identify the location of that reduction in the β-isoprene unit; however, the spectra are very complex and weak in the n2/n3 region, supporting previous reports that it is not possible to unambiguously assign the position of the reduced double bond by mass spectrometry or NMR analysis.
We used this graph to assign the position of each pathway element, which was computed as the number of steps required to transduce the signal from the insulin/IGF1 receptor (position 0) to the remaining elements in the pathway (the maximum was ten steps).
Four-base codons for assigning the positions of nonnatural amino acids were also selected.
Of the CGGN-type four-base codons, CGGA and CGGG were the most efficient ones for assigning the positions of nonnatural amino acids.
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