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In vitro pattern classification has been highlighted as an important future application of DNA computing.
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Predicted fracture patterns closely matched the in vitro patterns; however, predictions of fracture load differed by approximately 50% due to sensitivity to local material properties.
Although significant differences between in vivo and in vitro patterns of gene expression may be expected, the OptGro and ConstExp datasets were both done in vitro.
We suggest that the differences between the in vivo and in vitro patterns are due to modifications in the hepatic degradation of plasma sex steroid hormones.
These frameshifts, especially in some of the regulatory genes, may account for the altered in vitro patterns of expression reported here.
However, this conclusion is at odds with the VEGFR2-dependent nature of angiogenesis in the retina [ 12], in in vitro patterning of porcine aortic endothelial cells [ 7], and in MMP9 induced carcinogenesis [ 16].
To exclude that this dramatic switch in target innervation was due to experimental variation or altered in vitro patterning, we replicated this experiment with a new cell differentiation and transplanted to immunocompetent rats under immunosuppression using daily injections of ciclosporin.
Figure 3A,B and Additional file 1: Figure S11A,B already indicate that positions of stable nucleosomes are not strongly conserved – if that were the case, distinct in vitro patterns of dinucleotide frequencies in stable nucleosomes would be more closely reproduced in vivo.
No significant differences in antibiotic resistance genes were observed between clusters, in contrast to previously reported in-vitro patterns of drug resistance.
In Figure 2 the logo of the in vitro evolved pattern is compared to the logo of 41 known naturally evolved DYNNL1 binding peptides (listed in Table S2).
Distinct in vitro interaction pattern of dopamine receptor subtypes with adaptor proteins involved in post-endocytotic receptor targeting.
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