db872ad0e2ac111a8c955ad1a5658ee53d3eb2ab gperez2 Fri Aug 5 11:25:08 2022 -0700 Replacing links with the resources a user shared and removing library name links, refs #29824 diff --git src/hg/makeDb/trackDb/mouse/cloneEndSuper.html src/hg/makeDb/trackDb/mouse/cloneEndSuper.html index 3493c7b..4970aeb 100644 --- src/hg/makeDb/trackDb/mouse/cloneEndSuper.html +++ src/hg/makeDb/trackDb/mouse/cloneEndSuper.html @@ -35,51 +35,48 @@ <h2>Methods</h2> <p> The mappings of these BAC end sequences are taken directly from the NCBI Clone DB FTP site <a href="ftp://ftp.ncbi.nih.gov/repository/clone/reports/Mus_musculus/" target=_blank>ftp.ncbi.nih.gov/repository/clone/reports/Mus_musculus/</A> *.GCF_000001635.22.103.*.gff files.</p> <p> UCSC filtered the NCBI Clone DB mapped ends to drop ends that mapped to a region that was three times longer than the median size of the clones in the library. Only libraries with more than 20,000 clones are included in this track display.</p> <p> -Click through on displayed items to the Clone DB database information, -including -<a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" -target="_blank">Clone DB distributor</a> references. +Click through on displayed items to the Clone DB distributor references. </p> <table BORDER=1> <tr><th>library<br>name</th> <th>total<br>clones</th> <th>total end<br>sequences</th> <th>NCBI mapped<br>ends</th> <th>UCSC filtered<br>ends</th> <th>UCSC<br>dropped</th> <th>percent<br>dropped</th> </tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">B6Ng01</A></th><td align=right>128,007</td><td align=right>253,638</td><td align=right>98,478</td><td align=right>95,837</td><td align=right>2,641</td><td align=right>2.68</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">bMQ</a></th><td align=right>129,826</td><td align=right>244,222</td><td align=right>75,671</td><td align=right>72,540</td><td align=right>3,131</td><td align=right>4.14</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">C3H</a></th><td align=right>86,696</td><td align=right>169,665</td><td align=right>43,690</td><td align=right>42,378</td><td align=right>1,312</td><td align=right>3.00</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">CH29</a></th><td align=right>93,023</td><td align=right>340,272</td><td align=right>52,320</td><td align=right>50,621</td><td align=right>1,699</td><td align=right>3.25</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">DN</a></th><td align=right>180,218</td><td align=right>665,070</td><td align=right>106,463</td><td align=right>100,472</td><td align=right>5,991</td><td align=right>5.63</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">MHPN</a></th><td align=right>118,658</td><td align=right>208,707</td><td align=right>61,942</td><td align=right>58,582</td><td align=right>3,360</td><td align=right>5.42</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">MHPP</a></th><td align=right>67,769</td><td align=right>112,081</td><td align=right>30,594</td><td align=right>28,550</td><td align=right>2,044</td><td align=right>6.68</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">MSMg01</a></th><td align=right>175,178</td><td align=right>337,471</td><td align=right>83,677</td><td align=right>78,772</td><td align=right>4,905</td><td align=right>5.86</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">RP23</a></th><td align=right>175,999</td><td align=right>553,274</td><td align=right>85,082</td><td align=right>83,062</td><td align=right>2,020</td><td align=right>2.37</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">RP24</a></th><td align=right>163,859</td><td align=right>294,217</td><td align=right>52,470</td><td align=right>50,849</td><td align=right>1,621</td><td align=right>3.09</td></tr> -<tr><th align=left><a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target="_blank">WI1</a></th><td align=right>907,213</td><td align=right>1,822,723</td><td align=right>337,591</td><td align=right>324,259</td><td align=right>13,332</td><td align=right>3.95</td></tr> +<tr><th align=left><a href="https://dna.brc.riken.jp/en/cloneseten/b6n_bac_en" target="_blank">B6Ng01</A></th><td align=right>128,007</td><td align=right>253,638</td><td align=right>98,478</td><td align=right>95,837</td><td align=right>2,641</td><td align=right>2.68</td></tr> +<tr><th align=left><a>bMQ</th><td align=right>129,826</td><td align=right>244,222</td><td align=right>75,671</td><td align=right>72,540</td><td align=right>3,131</td><td align=right>4.14</td></tr> +<tr><th align=left><a >C3H</a></th><td align=right>86,696</td><td align=right>169,665</td><td align=right>43,690</td><td align=right>42,378</td><td align=right>1,312</td><td align=right>3.00</td></tr> +<tr><th align=left><a href="https://bacpacresources.org/library.php?id=207" target="_blank">CH29</a></th><td align=right>93,023</td><td align=right>340,272</td><td align=right>52,320</td><td align=right>50,621</td><td align=right>1,699</td><td align=right>3.25</td></tr> +<tr><th align=left><a >DN</a></th><td align=right>180,218</td><td align=right>665,070</td><td align=right>106,463</td><td align=right>100,472</td><td align=right>5,991</td><td align=right>5.63</td></tr> +<tr><th align=left><a >MHPN</a></th><td align=right>118,658</td><td align=right>208,707</td><td align=right>61,942</td><td align=right>58,582</td><td align=right>3,360</td><td align=right>5.42</td></tr> +<tr><th align=left><a >MHPP</a></th><td align=right>67,769</td><td align=right>112,081</td><td align=right>30,594</td><td align=right>28,550</td><td align=right>2,044</td><td align=right>6.68</td></tr> +<tr><th align=left><a href="https://dna.brc.riken.jp/en/cloneseten/msm_bac_en" target="_blank">MSMg01</a></th><td align=right>175,178</td><td align=right>337,471</td><td align=right>83,677</td><td align=right>78,772</td><td align=right>4,905</td><td align=right>5.86</td></tr> +<tr><th align=left><a href="https://bacpacresources.org/femmouse23.htm" target="_blank">RP23</a></th><td align=right>175,999</td><td align=right>553,274</td><td align=right>85,082</td><td align=right>83,062</td><td align=right>2,020</td><td align=right>2.37</td></tr> +<tr><th align=left><a href="https://bacpacresources.org/mmouse24.htm" target="_blank">RP24</a></th><td align=right>163,859</td><td align=right>294,217</td><td align=right>52,470</td><td align=right>50,849</td><td align=right>1,621</td><td align=right>3.09</td></tr> +<tr><th align=left><a >WI1</a></th><td align=right>907,213</td><td align=right>1,822,723</td><td align=right>337,591</td><td align=right>324,259</td><td align=right>13,332</td><td align=right>3.95</td></tr> </table> <h2>Credits</h2> <p> Additional information about the clone, including how it can be obtained, may be found at the <a href="https://ncbiinsights.ncbi.nlm.nih.gov/2019/05/01/clone-db-retirement/" target=_blank>NCBI Clone Registry</A>. To view the registry entry for a specific clone, open the details page for the clone and click on its name at the top of the page.</p>