09f8c57bea92e646e7cc4ac1d20a09d585ffe5e5 jnavarr5 Fri May 3 08:33:57 2019 -0700 Updating http to https for galGal6, uiLinks cronjob. diff --git src/hg/makeDb/trackDb/crispr10K.html src/hg/makeDb/trackDb/crispr10K.html index 68514ef..a9095e5 100644 --- src/hg/makeDb/trackDb/crispr10K.html +++ src/hg/makeDb/trackDb/crispr10K.html @@ -46,31 +46,31 @@ <p> Mouse-over a target site to show predicted specificity and efficiency scores:<br> <ol> <li>The MIT Specificity score summarizes all off-targets into a single number from 0-100. The higher the number, the fewer off-target effects are expected. We recommend guides with an MIT specificity > 50.</li> <li>The efficiency score tries to predict if a guide leads to rather strong or weak cleavage. According to <a href="#References">(Haeussler et al. 2016)</a>, the <a href="https://portals.broadinstitute.org/gpp/public/analysis-tools/sgrna-design">Doench 2016 Efficiency score</a> should be used to select the guide with the highest cleavage efficiency when expressing guides from RNA PolIII Promoters such as U6. Scores are given as percentiles, e.g. "70%" means that 70% of mammalian guides have a score equal or lower than this guide. The raw score number is also shown in parentheses after the percentile.</li> <li>The <a -href="http://www.crisprscan.org/">Moreno-Mateos 2015 Efficiency +href="https://www.crisprscan.org/">Moreno-Mateos 2015 Efficiency score</a> should be used instead of the Doench 2016 score when transcribing the guide in vitro with a T7 promoter, e.g. for injections in mouse, zebrafish or Xenopus embryos. The Moreno-Mateos score is given in percentiles and the raw value in parentheses, see the note above.</li> </ol> </p> <p>Click onto features to show all scores and predicted off-targets with up to four mismatches. The Out-of-Frame score by <a href="#References">Bae et al. 2014</a> is correlated with the probability that mutations induced by the guide RNA will disrupt the open reading frame. The authors recommend out-of-frame scores > 66 to create knock-outs with a single guide efficiently.<p> <p>Off-target sites are sorted by the CFD score (<a href="https://www.nature.com/articles/nbt.3437" target="_blank">Doench et al. 2016</a>). The higher the CFD score, the more likely there is off-target cleavage at that site.