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This frequency exceeds that of 37 STAT1 binding sites collected from descriptions in the literature [22].
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The experimentally confirmed binding sites were collected from the original papers and mapped to the extracted sequences.
The PPARα binding sites were collected from chromatin immunoprecipitation with massively parallel DNA sequencing (ChIP-Seq) [ 27].
In addition, 414,510 SNPs on miRNA-mRNA binding site were collected from MirSNP [ 29].
In order to identify binding sites, we collected chromatin immunopreciptation (ChIP) material from differentiated 3T3-L1 cells using PPARγ and RXR specific antibodies.
Non-genomic Binding Sites: We applied the same method as above to the motif binding scores collected from each gene promoter upstream 1Kb.
The motif enrichment of known splicing factor binding sites consisted of a set of binding sites for 115 RBPs collected from the literature (see 'Materials and methods').
Known binding sites of HNF6 (ONECUT1) were collected from the TRANSFAC database, (www.biobase.de).de
We identified RNAP binding sites from ChIP data collected during exponential phase only since the binding sites do not differ appreciably between the exponential and stationary growth phases [ 24].
Nurses at each site collected information from the patients' charts.
A detailed site questionnaire was collected from participating sites yearly.
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