The GenArchivist Forum

There have been many papers without G25 coordinates (recently and perhaps older ones too).

If you know of any studies which dont have G25 coordinates please send me their raw data or at least the study they come from. Teepean has been helping me so I can help the community gong forward

(03-16-2024, 10:30 PM)ilabv Wrote: [ -> ]There have been many papers without G25 coordinates (recently and perhaps older ones too).

If you know of any studies which dont have G25 coordinates please send me their raw data or at least the study they come from. Teepean has been helping me so I can help the community gong forward

I think this last  papers without G25 coordinates

(03-16-2024, 10:30 PM)ilabv Wrote: [ -> ]There have been many papers without G25 coordinates (recently and perhaps older ones too).

If you know of any studies which dont have G25 coordinates please send me their raw data or at least the study they come from. Teepean has been helping me so I can help the community gong forward

https://www.sciencedirect.com/science/ar...4223022927

https://www.sciencedirect.com/science/ar...4223011112

Thanks and
See the discussion in the Late Antiquity-Early Middle Ages cemetery in the Eastern Italian Alps thread

Quote:Ancestry and kinship in a Late Antiquity-Early Middle Ages cemetery in the Eastern Italian Alps
https://doi.org/10.1016/j.isci.2023.108215
South Tyrol LA-EMA cemetery of Malles Burgusio Santo Stefano/Mals St. Stephan ob Burgeis (BSS) located in the Venosta/Vinschgau valley
genomes of 21 specimens (shotgun data plus nuclear capture data in four samples)
https://www.ebi.ac.uk/ena/browser/view/PRJEB60362

Maybe the format necessary for submission to Davidski can be created and is interested (to get official values)?

I've never seen those, LUN004 and BAL003.

https://journals.plos.org/plosgenetics/a...en.1010360

(03-17-2024, 05:31 PM)Fabrice E Wrote: [ -> ]I've never seen those, LUN004 and BAL003.

https://journals.plos.org/plosgenetics/a...en.1010360

I created the dataset about a year ago:

https://drive.google.com/drive/folders/1...sp=sharing

(03-17-2024, 06:08 PM)teepean Wrote: [ -> ]

(03-17-2024, 05:31 PM)Fabrice E Wrote: [ -> ]I've never seen those, LUN004 and BAL003.

https://journals.plos.org/plosgenetics/a...en.1010360

I created the dataset about a year ago:

https://drive.google.com/drive/folders/1...sp=sharing

great ! 
And no one has sent il to David ? 
Alright i'll do it 
thank you again Teepean

It's weird we don't have the HGDP Tuscan samples included in the dataset yet. It's always been on gedmatch and I thought HGDP data was easily obtainable? They're used by Li et al., Science (2008).
Unfortunately I don't have a clue on how or where to download them but the samples are as follows:

HGDP01161
HGDP01162
HGDP01163
HGDP01164
HGDP01167
HGDP01168
HGDP01169

How about this one? Red Deer Cave
https://www.cell.com/current-biology/ful...22)00928-9

Thanks everyone, keep sending them and I'll get to every single one when I can

(03-17-2024, 06:08 PM)teepean Wrote: [ -> ]

(03-17-2024, 05:31 PM)Fabrice E Wrote: [ -> ]I've never seen those, LUN004 and BAL003.

https://journals.plos.org/plosgenetics/a...en.1010360

I created the dataset about a year ago:

https://drive.google.com/drive/folders/1...sp=sharing

Unfortunately, not enough data for the G25

(03-18-2024, 06:24 AM)Fabrice E Wrote: [ -> ]

(03-17-2024, 06:08 PM)teepean Wrote: [ -> ]

(03-17-2024, 05:31 PM)Fabrice E Wrote: [ -> ]I've never seen those, LUN004 and BAL003.

https://journals.plos.org/plosgenetics/a...en.1010360

I created the dataset about a year ago:

https://drive.google.com/drive/folders/1...sp=sharing

Unfortunately, not enough data for the G25

That is weird, they are 2.4x and 16.5x coverage

4 new samples from this study: https://www.nature.com/articles/s41598-023-45612-3

Scaled

BellBeaker:ALW1,0.121791,0.116786,0.055814,0.068476,0.035391,0.025658,0.00329,0.003692,0.001227,-0.010387,-0.005359,0.005545,-0.013528,-0.018166,0.02538,0.017237,0.008736,0.003801,0.004777,0.018009,0.005615,0.009769,-0.003204,-0.000602,-0.001197
BellBeaker:ALW2,0.124067,0.116786,0.063356,0.067507,0.033545,0.026216,0.005405,0.004154,-0.005318,-0.01713,-0.010555,-0.002098,-0.008028,-0.026424,0.022665,0.016971,0.009909,0.00076,-0.001006,0.016633,0.007986,0.006306,-0.001479,0.003976,0.000838
BellBeaker:LUT1,0.117238,0.135065,0.070144,0.05491,0.038776,0.019522,0.00235,0.002769,-0.001432,-0.004191,-0.004709,0.002548,-0.011596,-0.011423,0.023615,-0.003447,-0.024121,0.001267,0.002388,0,0.007736,0.006925,0.000863,0.003976,-0.008263
BellBeaker:LUT2,0.122929,0.133034,0.058831,0.050065,0.035391,0.023427,0.00282,0.002308,0.002863,0.005285,-0.005846,0.002098,-0.012785,-0.01968,0.019815,0.011138,-0.002868,0.004561,0.006788,-0.00025,0.010981,0.001978,-0.002218,0.001928,-0.003473

Raw

BellBeaker:ALW1,0.0107,0.0115,0.0148,0.0212,0.0115,0.0092,0.0014,0.0016,0.0006,-0.0057,-0.0033,0.0037,-0.0091,-0.0132,0.0187,0.013,0.0067,0.003,0.0038,0.0144,0.0045,0.0079,-0.0026,-0.0005,-0.001
BellBeaker:ALW2,0.0109,0.0115,0.0168,0.0209,0.0109,0.0094,0.0023,0.0018,-0.0026,-0.0094,-0.0065,-0.0014,-0.0054,-0.0192,0.0167,0.0128,0.0076,0.0006,-0.0008,0.0133,0.0064,0.0051,-0.0012,0.0033,0.0007
BellBeaker:LUT1,0.0103,0.0133,0.0186,0.017,0.0126,0.007,0.001,0.0012,-0.0007,-0.0023,-0.0029,0.0017,-0.0078,-0.0083,0.0174,-0.0026,-0.0185,0.001,0.0019,0,0.0062,0.0056,0.0007,0.0033,-0.0069
BellBeaker:LUT2,0.0108,0.0131,0.0156,0.0155,0.0115,0.0084,0.0012,0.001,0.0014,0.0029,-0.0036,0.0014,-0.0086,-0.0143,0.0146,0.0084,-0.0022,0.0036,0.0054,-0.0002,0.0088,0.0016,-0.0018,0.0016,-0.0029

(03-18-2024, 05:03 AM)Kale Wrote: [ -> ]How about this one? Red Deer Cave
https://www.cell.com/current-biology/ful...22)00928-9

I couldn't find the raw data for this one. It takes me to a dead link:

https://ngdc.cncb.ac.cn/gsa-human/browse/HRA002402

(03-18-2024, 05:03 AM)Kale Wrote: [ -> ]How about this one? Red Deer Cave
https://www.cell.com/current-biology/ful...22)00928-9

I checked that once, the SNP count was pitiful
And going through the Chinese database was awful too.