tag:blogger.com,1999:blog-1195222727010537305.post746629909985089467..comments2023-08-03T07:13:32.291-05:00Comments on Aptamer Project Site - 10% APS for Everyone: Nucleic Acid Aptamer Selection Against MUC-1 for the Early Diagnosis of Epithelial tumors.Aptamer Staffhttp://www.blogger.com/profile/11584531632318072295noreply@blogger.comBlogger9125tag:blogger.com,1999:blog-1195222727010537305.post-9830730276243375902014-04-23T04:41:21.336-05:002014-04-23T04:41:21.336-05:00custom peptide synthesis- The information that you...<a href="http://www.custompeptideservices.com/" rel="nofollow">custom peptide synthesis</a>- The information that you provided was helpful for readers. I will have to share your article with others.Anonymoushttps://www.blogger.com/profile/13252636315596716579noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-57889769126613087752010-09-17T13:26:36.941-05:002010-09-17T13:26:36.941-05:00MUC-1 came in a few days ago (9-15-10?). It was i...MUC-1 came in a few days ago (9-15-10?). It was in PBS solution at 250ug/250ul. The target is 10kDa so it is 100uM concentration. Sabeena aliquoted a few different volumes (pmol/tube) @ 800, 400 and 200. Lot# 897283. Aliquoted and placed in -80C rack J3 second box back.Brad Hallhttps://www.blogger.com/profile/10516353314281930175noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-10798079340003952352010-09-08T16:47:02.666-05:002010-09-08T16:47:02.666-05:00The Abcam company got back to me with a price. Th...The Abcam company got back to me with a price. This product is 250ug for $255.00 and in stock at the moment. The ID number is ab80082 which is a MUC1 protein (His tag)<br /><br />http://www.abcam.com/index.html?datasheet=80082).Sabeena Shaikhhttps://www.blogger.com/profile/08945883512959825251noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-79092895994610221162010-09-08T16:46:19.100-05:002010-09-08T16:46:19.100-05:00That original paper on MUC-1 can be found here.That original paper on MUC-1 can be found <a href="https://www.annualreviews.org/doi/pdf/10.1146/annurev.ph.57.030195.003135" rel="nofollow">here</a>.Nia_Fernandezhttps://www.blogger.com/profile/06524075862801694775noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-58455430771187905282010-09-08T16:45:07.349-05:002010-09-08T16:45:07.349-05:00This comment has been removed by the author.Nia_Fernandezhttps://www.blogger.com/profile/06524075862801694775noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-25934241590864623332010-09-08T16:43:36.515-05:002010-09-08T16:43:36.515-05:00It seems that the C-terminal region is located in ...It seems that the C-terminal region is located in the cytoplasm per Gendler and Spicer's 1995 <a rel="nofollow">work</a>. It would be interesting to select a diagnostic aptamer for the cytoplasmic portion given that the protein is often found in the blood stream when over expressed by epithelial cancer cells suggested by <a href="http://pubs.acs.org/doi/full/10.1021/ac901223q" rel="nofollow">Cheng et al</a>. I also found the sequence from GenBank that matched the AbCam sequence. <a href="http://www.ncbi.nlm.nih.gov/protein/296439295?report=genbank&log$=protalign&blast_rank=1&RID=8G079W39013" rel="nofollow">GenBank</a> suggests that portion could be cytoplasmic. So lets just order it.Nia_Fernandezhttps://www.blogger.com/profile/06524075862801694775noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-66819794543095020792010-09-07T13:47:58.338-05:002010-09-07T13:47:58.338-05:00In the paper for the aptamer, it appears to be a D...In the paper for the aptamer, it appears to be a DNA aptamer. UT doesn't have access to the original paper published in Tumor Biology (Ferreira, C. S. M., Matthews, C. S. and Missailidis, S. Tumor Biol. 2006, 27, 289–301), but I have contacted the authors for a reprint.<br /><br />In the QD paper (your ref #6), the target MUC-1 was a custom synthesis: "The MUC1 peptide with two repeats of the 20 amino acid variable tandem repeat region (from the N terminus to the C terminus: PDTRPAPGSTAPPAHGVTSAPDTRPAPGSTAPPAHGVTSA) was purchased as a custom synthetic peptide from the University of British Columbia Brain Research Centre (Vancouver, BC)." The 20 amino acid variable region is extracellular and potentially can be detected in the blood stream. Abcam makes the MUC1 HIS tagged, <a href="http://www.abcam.com/muc1-protein-his-tag-ab80082.html" rel="nofollow">Cat# ab80082</a> but it may not be the extracellular immunogenic portion. AnaSpec also makes a 9aa peptide with the sequence H - Ser - Thr - Ala - Pro - Pro - Ala - His - Gly - Val - OH, <a href="http://www.anaspec.com/products/product.asp?id=32831" rel="nofollow">Cat# 61357</a>. This is a portion of the sequence used above, but we would need to functionalize onto a biotin and somehow remove the remaining free biotin. It won't be an easy target, but an RNA aptamer may be particularly interesting for diagnostics, especially if it has better binding kinetics than the original DNA aptamer.Brad Hallhttps://www.blogger.com/profile/10516353314281930175noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-7279940734393578712010-09-01T16:49:49.348-05:002010-09-01T16:49:49.348-05:00How is this aptamer better than other methods of d...How is this aptamer better than other methods of diagnosing? The description of aptamers seems too much like something from a source, maybe make it more your own!Nia_Fernandezhttps://www.blogger.com/profile/06524075862801694775noreply@blogger.comtag:blogger.com,1999:blog-1195222727010537305.post-16440968081080231702010-09-01T10:53:48.864-05:002010-09-01T10:53:48.864-05:00Good work.
How will your selection differ from Fe...Good work.<br /><br />How will your selection differ from Ferreira et al's selection? How will you improve upon the aptamer they've selected? Did they select a DNA aptamer & will you select an RNA aptamer? <br /><br />As you've pointed out, it will be important for your target to be glycosolated (can't spell). Will you purchase human Muc1 with the correct glycosolation? Do you anticipate any target issues?Gwen Stovallhttps://www.blogger.com/profile/11462038982643107356noreply@blogger.com