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Because constitutional epimutations in different tumor suppressor genes have been linked to sequence variants in the 5′ cis-regulatory region, - we sequenced a 3.4 kb upstream fragment including the BRCA1 promoter and exon 1.
Because constitutive hypermethylation in different tumor suppressor genes has been linked to sequence variants in the 5′ cis-regulatory regions (19, 21, 22), we sequenced a 3.2 kb upstream fragment including the BRCA1 promoter and exon 1 (Supplementary Material, Table S2).
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Unspecific cell death has also been linked to sequence-independent morpholino induction of a p53 response [ 43].
The first factor is linked to sequence errors in the transcriptome.
Since these studies relied on comparisons of staining patterns, they were only able to produce low-resolution results that could not be linked to sequence positions.
Affymetrix probe sets were linked to sequence data in regions 1,000 base pairs upstream and 200 base pairs downstream of the transcription start sites.
In addition, we showed that 17,453 probes on the NimbleGen array can be linked to sequence contigs in the bread wheat sequence data, with an accumulated sequence length of ~155 Mb, representing ~3.2%% of the D genome.
For instance, chromatin signature could be used to identify genes that are MAE in one particular mouse strain but not another, which could be linked to sequence differences within regulatory elements between the two strains.
For the analysis, Affymetrix probesets were linked to sequence data for regions 1,000 base pairs upstream and 200 base pairs downstream of the transcription start sites, and these were analyzed for significant enrichment of transcription factor binding sites.
For instance, sequence 1 can be linked to sequence 2, itself linked to sequence 3, while sequences 1 and 3 are not directly connected because they do not share a greater similarity than the stringency threshold used to construct the network.
The two variant 3′UTR sequences were linked to sequences from a selenoprotein reporter gene (iodothyronine deiodinase) and expressed in Caco-2 cells.
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