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Table 1 Number of hERα sites relative to genome annotations and repeats.

From: Relationship between estrogen receptor α location and gene induction reveals the importance of downstream sites and cofactors

t-score > 16

Total

In genes

Intergenic

In repeats

Number of sites

2359

1041

1318

396

  1. Columns 1–3: Detected sites and their positions with respect to annotated transcripts
  2. (UCSC genome browser, hg18).
  3. Column 4: Detected sites residing in regions marked as repeats by RepeatMasker as reported in UCSC genome browser tables.
  4. To be associated with a transcript, a site is required to lie between -5 kb and +5 kb of the annotated boundaries (transcription start site and poly-adenylation site). A complete list is available upon request to the authors. The smoothing used in SLM is σ = 200 bp [21].
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BMC Genomics

ISSN: 1471-2164

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