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The solid line represents the development of alteration state in the mainstream, with individual red squares showing the state of the major tributaries.
The low alteration state also reflects rapid transport through the flood plains where most of the chemical weathering occurs (e.g., Lupker et al. 2012).
We derived four sets of these parameters, one for each alteration state k, which were adaptively determined per sample (Methods S1).
If the average methylation level of a DM locus detected in a dataset was higher or lower for the case compared to the control, we defined the alteration state of this locus as hypermethylated or hypomethylated.
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Among the 546 DM loci identified from the HNSCC_PB dataset, 75.6% were significantly altered in RA peripheral leukocytes and all methylation alteration states in HNSCC were consistent with those in RA (binomial test, P-value <2.2 × 10−16).
Similarly, among the 839 DM loci identified from the OVC_PB dataset, 65.7% were significantly altered in RA peripheral leukocytes and all methylation alteration states in ovarian cancer were consistent with those in RA (binomial test, P-value <2.2 × 10−16).
We used spatial tools for assessing and mapping biodiversity such as Patch Analyst in ArcGIS 10.2 to assess landscape alteration states, and the Integrated Valuation of Ecosystem Services and Tradeoffs to identify habitat quality.
There were 10 loci whose methylation alteration states in IBD were inconsistent with their alteration states in myeloid cells.
Of particular interest, the alteration states of four DM loci observed in HNSCC serum were inconsistent with respect to their alteration states in myeloid cells.
Then, we examined whether the alteration states of blood-borne DNAm alterations observed for inflammatory diseases were consistent with their alteration states in myeloid cells compared to lymphoid cells.
All of their alteration states in pancreatic cancer were consistent with those in myeloid cells (binomial test, P-value=2.44 × 10−4).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com