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To identify the Ago-binding regions, 61 Ago CLIP-Seq (HITS-CLIP, PAR-CLIP and CLASH) datasets from human and mouse were downloaded from the National Center for Biotechnology Information Gene Expression Omnibus (NCBI GEO) (25) or starBase (13 , 26 (details in Supplementary materials).
Some non-canonical sites in the CLASH and chimera datasets are supported by multiple reads, and all the dCLIP-identified non-canonical sites of the miR-155 study (Loeb et al., 2012) are supported by multiple reads.
On 24 RNA crystallographic datasets, ERRASER corrects the majority of steric clashes and anomalous backbone geometries, improves the average Rfree by 0.014, resolves functionally important structural discrepancies, and refines low-resolution structures to better match higher resolution structures.
Although primarily designed for use with AGO CLASH data, hyb can also be used for the detection and annotation of chimeric reads in other high-throughput sequencing datasets.
The datasets are pretty limited.
The first is government datasets.
and S.R. assembled datasets.
Clashing with rude, tremendous shocks?
Or clashing.
We spend hours making datasets work, reformatting pdfs, mashing datasets together.
And clashing of classes.
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