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GMan71
05-28-2017, 01:31 AM
I look after a few family members ftdna accounts. One family members mtdna results indicate possible new subclade and we have been asked to consider supplying the result to Genbank.
I don't know a lot about this but if it were my mtdna I wouldn't have an issue and like the idea of helping researchers but I need fully explain this all to the family member.
Anyone out there know if anything I should be aware of?
Thanks!

evon
05-28-2017, 09:19 AM
It is largely anonymous and you only supply birth location, and ethnic group if needed. The data in itself is not something to worry about as it is only mtDNA, not Autosomal.. I uploaded my FGS a few years ago and I am now part of the various mtDNA trees that are published, which helps me as much as it helps research...

firemonkey
05-28-2017, 12:09 PM
How would you go about doing this? I've looked at https://www.ncbi.nlm.nih.gov/genbank/submit/ but can't make any sense of it.

GMan71
05-28-2017, 01:13 PM
How would you go about doing this? I've looked at https://www.ncbi.nlm.nih.gov/genbank/submit/ but can't make any sense of it.

The project admin is helping me out - I'm not going via that link so can't help I'm afraid. I've had assistance with the file generation - Fasta file in ftdna is then modified in format to meet requirements then sent to Genbank who then will contact with some queries is the general process I think - yet to actually do it. Dr Ian Logan has a website tool that can assist in the file generation plus steps to go through. Google Dr Ian Logan GenBank sequence checker. Unsure if it's just ftdna files he assists with

deadly77
05-28-2017, 03:33 PM
I did mine a few months ago. You can order a custom report on the mtDNA full sequence from Dr Ann Turner, details here https://isogg.org/wiki/Custom_mitochondrial_DNA_reports - I did this and found it very informative and recommend it. You can also check mitomap to see if any on the mtDNA SNPs are medically significant - https://www.mitomap.org/MITOMAP

Ian Logan was pretty helpful via email with the submission file. From his website it looks like he handles mtDNA from FGC and YSEQ in addition to FTDNA - http://www.ianlogan.co.uk/submission.htm

After submitting, got a couple of emails from Genbank, essentially asking "are you sure you want to do this?" and then sequence was published. It doesn't have my name associated with it - only name I can see is B. Greenspan of Family Tree DNA as author of the direct submission. My FTDNA kit number is included under source.

firemonkey
05-28-2017, 04:34 PM
Tried to cut and paste HVR1,HVR2, and coding region differences from https://www.familytreedna.com/my/mtdna-results#rcrs but couldn't get it to work. As with most of these things it's probably too complicated for the average user,which I confess to being or even below average.

Thanks to those who replied to my post. I hope you get or have got something out of supplying your data.

deadly77
05-28-2017, 06:17 PM
Tried to cut and paste HVR1,HVR2, and coding region differences from https://www.familytreedna.com/my/mtdna-results#rcrs but couldn't get it to work. As with most of these things it's probably too complicated for the average user,which I confess to being or even below average.

Thanks to those who replied to my post. I hope you get or have got something out of supplying your data.

I had some issues with the copy/paste as well the first time I tried it. I found it was easier when I copied and pasted each section separately. You could also try typing the differences into the email to Ian Logan.

vettor
05-28-2017, 06:37 PM
How would you go about doing this? I've looked at https://www.ncbi.nlm.nih.gov/genbank/submit/ but can't make any sense of it.

Email Ian Logan ............he will guide you step by step

Take note , that once you place your sample with Genbank and it is accepted..........they will never ever contact you, they will never answer you,.......... you need to gather any info yourself from the number given to you.

I sent mine to establish a new branch/marker ( which it did ) , and the other ( my wife sample ) they found no extra data for a different subclade

vettor
05-28-2017, 06:44 PM
I did mine a few months ago. You can order a custom report on the mtDNA full sequence from Dr Ann Turner, details here https://isogg.org/wiki/Custom_mitochondrial_DNA_reports - I did this and found it very informative and recommend it. You can also check mitomap to see if any on the mtDNA SNPs are medically significant - https://www.mitomap.org/MITOMAP

Ian Logan was pretty helpful via email with the submission file. From his website it looks like he handles mtDNA from FGC and YSEQ in addition to FTDNA - http://www.ianlogan.co.uk/submission.htm

After submitting, got a couple of emails from Genbank, essentially asking "are you sure you want to do this?" and then sequence was published. It doesn't have my name associated with it - only name I can see is B. Greenspan of Family Tree DNA as author of the direct submission. My FTDNA kit number is included under source.

what did the custom report say from Ann, as my wife only received a small report from Ian................I got no report, probably because my line was created with my sample.

deadly77
05-28-2017, 07:37 PM
what did the custom report say from Ann, as my wife only received a small report from Ian................I got no report, probably because my line was created with my sample.

I received a 13 page Word document from Ann Turner - covered intro to mitochondrial DNA and background on the CRS and rCRS, then my differences from the rCRS with reference to the phylotree, ranking of mutations, private mutations and a bit of discussion about where that private mutation would possibly fit on a future build of the phylotree. Nicely written with good explanations and easy to understand. I'm happy that I ordered it. The ISOGG page I linked in post #5 also has a link to a sample report here https://docs.google.com/file/d/0B-wpDkkP5x0oRzBuU2tzOVdoSWs/edit

From Ian Logan, I didn't receive any report, but I wasn't expecting to - after following his instructions he sent me a submission file for Genbank and instructions on how to submit.