Link to this post | posted 06 Apr, 2023 22:49

engstrom

I could use some thoughts on an interesting gene in Huwbert, called stop codon is 58,402. This is syntenic to a Pham called as RecA-like DNA recombinase in Triscuit. But I am not so sure. Nucleotides 335-568/9 find homology to RecA-like recombinases, but only to the AAA-ATPase domain (HHPred). Likewise HHPred picks up other proteins that have an AAA-ATPase in the same stretch. From nt 1-312, there is strong predicted structural homology to Replication Protein B Primase, a function not in the approved function list. Not completely sure where to go with this thing. I could call a DNA primase/helicase, but do I actually have evidence for the helicase function, or just for an AAA-ATPase. A primase would not need an ATPase, so I rather suspect the helicase is there. Anyway, I'd love some feedback. Thanks.

Link to this post | posted 07 Apr, 2022 14:29

engstrom

Hey Folks, We are experiencing trouble Blasting in DNA Master. When BLASTing all genes, it can run for days with 0% progress. When BLASTing a single gene, we see an error message "HTTP/1.1 403 Forbidden" I have updated DNA Master. Tied ethernet and wireless. I have tried to ensure that our preferences are set correctly, according to the directions in the Bioinformatics Guidelines, but I do not even have a "secure connections" box as an option under PREFERENCES–> Internet. Any ideas would be greatly appreciated.

Link to this post | posted 28 Feb, 2022 23:13
engstrom	Hi All, 2/28/22 and I am having a very similar problem. Doesn't look like this issue was resolved earlier. Anyone else unable to update DNAmaster? I am currently running Version 5.22.5 Build 2356. HELP then UPDATE DNA MASTER launches, but ultimately returns a "DNA MASTER failed to update" message. Thanks anyone who can spot a fix!

Link to this post | posted 22 Feb, 2022 22:53
engstrom	This is terrific! Thanks so much!

Link to this post | posted 22 Feb, 2022 22:45
engstrom	Having DNAMaster go into my Mac Applications folder was exactly my problem (I think)!. Is there a way that the guidelines could be posted so those of us without Google accounts can see them? Thanks so much! Eric

Link to this post | posted 12 Jan, 2022 21:46
engstrom	I am also trying to use Parallels to run DNA Master on my M1 Mac, Monterey OS. No luck so far. Parallels seems to default to installing Windows 11, rather than 10. I'll keep trying and keep checking this thread.

Link to this post | posted 05 Feb, 2019 19:37
engstrom	Perfectly clear! Many thanks!

Link to this post | posted 05 Feb, 2019 16:31
engstrom	Hi! What exactly are we indicating by selecting either "suggested start (ss)" or "not informative" on the drop-down menu located under Starterator on the Genes page of Pecaan? Do the options refer to Starterator data only, or to Glimmer and GeneMark as well? Does our selection work it's way into our eventual annotation? In short, how do we use this menu? Thanks!