Indeed, quantifying or measuring this kind of biological effect might easily differ depending upon the method used to assess hypomethylation (e.g., some methods interrogate the important small RNA sequences, whereas others do not), consistent with the current literature.
Inspired by previous sequence-based computational prediction algorithms [Ng and Henikoff, 2001; Thomas et al., 2003], our unweighted/species-independent method interrogates sequence conservation through the underlying amino acid probabilities modeled by the internal match states of several HMMs representing the alignment of homologous sequences and conserved protein domains.
The method interrogates Raman shifts originating from molecular vibrational energy levels, and therefore, allowing to distinguish structurally similar molecules if they have distinct vibrational spectra.
The Finnish method additionally interrogates the resonance resulting from the multiple methylene groups found on these lipids [33].
"Bisulphite-tagging," a method that interrogates the methylation status of the CpG site within TaqI (5′-T′CGA) and MspI (5′-C′CGG) restriction sites in the genome, was applied to DNA isolated from three CRC cell lines, SW480, HCT116, and LIM1215, as well as to DNA from eight pairs of CRC and matched normal tissue samples,.
This is promising for studying the haemodynamics of focal lesions, but a timing method that interrogates the whole liver seems to be approaching acceptance as a clinical tool for studying arteriovenous shunting which occur in malignancy and in cirrhosis as well as in a few benign masses, notably FNH and oestrogen adenomas but, importantly, not in haemangiomas of the adult type.
As applied in this study, each method interrogated different, but overlapping, portions of the methylome.
However, this paper uses a budget approach in a paired non-glaciated basin, primarily as a method of interrogating the terrace record concerning the degree of reworking and new sediment input required to produce the reconstructed terrace sequences.
A more global method for interrogating the data presented in this report is to make use of web-delivered tools to discover possible networks or canonical pathways.
Lineage tracing using inducible genetic labeling has emerged to be a powerful method for interrogating the developmental fate of cells in intact tissues.
