Gedmatch calculators on Vahaduo

Quote:

Originally Posted by Lucas

OK

Lucas please replace these

Karakalpak,0.0698116,-0.1838955,0.0396605,-0.0040106,-0.0358785,-0.0125965,0.0108888,0.0116532,-0.0062379,-0.003827,-0.0200278,-0.0031348,0.0012634,-0.0022822,0.001538,0.0011159,-0.0031294,-0.0016153,0.0006808,0.0075348,-0.01305,-0.0027927,-0.0095928,0.0008737,0.0004692

Nogai,0.0737954,-0.1729785,0.0439032,-0.0054102,-0.0276974,-0.0123875,0.0095374,0.0135571,-0.0091524,-0.0026577,-0.0201768,-0.002735,0.0017219,-0.0037731,0.0021151,0.001337,0.0025968,-0.0006969,-0.0016237,0.0046375,-0.0096184,-0.0015045,-0.0112153,0.0002411,-0.0012873

Quote:

Originally Posted by Dr_Maul

Lucas please replace these

Karakalpak,0.0698116,-0.1838955,0.0396605,-0.0040106,-0.0358785,-0.0125965,0.0108888,0.0116532,-0.0062379,-0.003827,-0.0200278,-0.0031348,0.0012634,-0.0022822,0.001538,0.0011159,-0.0031294,-0.0016153,0.0006808,0.0075348,-0.01305,-0.0027927,-0.0095928,0.0008737,0.0004692

Nogai,0.0737954,-0.1729785,0.0439032,-0.0054102,-0.0276974,-0.0123875,0.0095374,0.0135571,-0.0091524,-0.0026577,-0.0201768,-0.002735,0.0017219,-0.0037731,0.0021151,0.001337,0.0025968,-0.0006969,-0.0016237,0.0046375,-0.0096184,-0.0015045,-0.0112153,0.0002411,-0.0012873

Thanks

Quote:

Originally Posted by Kaazi

@Lucas, Please update them. These are UP Brahmins and Rajputs from Mondal (2016) Genomic analysis of Andamanese provides insights into ancient human migration into Asia and adaptation.

https://pubmed.ncbi.nlm.nih.gov/27455350/

These samples had avg 80% coverage with G25 as per David. Please also update the Bahun and Bahun-o samples from Eurogenes.

Code:

Scaled Brahmin_UP:mondal_BR1-1.SG,0.07057,-0.061947,-0.106348,0.084303,-0.064935,0.047411,0.003525,0.002769,0.013294,-0.002734,-0.019162,0.002248,-0.001338,-0.000826,0.006922,-0.008618,-0.011083,-0.003041,-0.007668,-0.010505,-0.002995,0.001237,0.002588,0.002771,0.003712 Brahmin_UP:mondal_BR1-3.SG,0.053497,-0.146236,-0.097297,0.08075,-0.046162,0.04769,-0.003995,0.007384,0.017794,0.008018,-0.019811,-3e-04,0.003717,-0.000963,0.000814,0.004641,0.021774,-0.003167,-0.00176,0.004127,-0.002995,0.002597,0.002711,-0.003494,0.008742 Brahmin_UP:mondal_BR1-4.SG,0.063741,-0.06804,-0.108611,0.087856,-0.061242,0.053547,-0.000705,0.007615,0.02168,0.009476,-0.016726,0.004496,-0.005352,-0.008257,0,-0.000398,-0.003129,-0.002534,-0.005279,-0.01113,0.003369,-0.001237,-0.002588,0.000361,-0.004191 Brahmin_UP:mondal_BR1-5.SG,0.063741,-0.06804,-0.106348,0.079458,-0.061858,0.048527,0.0047,0.010615,0.012271,0.001822,-0.013803,-0.003747,-0.000743,-0.003441,0.000136,-0.012463,-0.007823,0.000127,-0.006536,0.003752,0.004367,0.007296,0.008258,0.004458,0.00946 Brahmin_UP:mondal_BR1-6.SG,0.062603,-0.064994,-0.105971,0.094316,-0.051702,0.044344,-0.00047,0.015922,0.011658,0.006014,-0.009743,-0.005695,-0.00446,-0.005092,0.000136,0.000796,-0.001173,-0.001774,-0.000628,-0.005878,-0.007736,0.004204,0.003944,-0.000482,-0.000599 Brahmin_UP:mondal_BR1-10.SG,0.05122,-0.13405,-0.099183,0.07429,-0.05201,0.052431,-0.00423,0.008077,0.01943,0.00656,-0.027931,0.001199,-0.000595,-0.000826,0.00285,0.000796,0.009257,-0.004054,-0.00264,-0.000875,-0.00025,-0.000371,-0.001356,0.007712,0.007185 Brahmin_UP:mondal_BR1-12.SG,0.069432,-0.045699,-0.119924,0.085272,-0.061242,0.051037,0.00235,0.008538,0.013908,0.009841,-0.018188,0.001798,0.004162,-0.001789,0.006107,-0.002519,0.002217,0.002914,-0.000628,-0.002126,-0.002121,-0.001978,0.000123,0.000482,-0.006826 Brahmin_UP:mondal_BR1-13.SG,0.063741,-0.067025,-0.104462,0.083657,-0.058165,0.054384,0.00282,0.006923,0.011044,0.002734,-0.019487,-0.004046,-0.002081,-0.004817,0.010722,0.014717,0.006258,0.002534,0.002263,-0.002501,0.000998,-0.000247,0.006039,0.003133,-0.001078 Brahmin_UP:mondal_BR1-16.SG,0.067156,-0.040621,-0.110873,0.083011,-0.066474,0.054384,0.00564,0.010384,0.018612,0.003645,-0.012991,0.001948,0.002081,0.007844,0.006515,-0.012198,-0.014994,-0.000887,0.003268,-0.012381,-0.001872,-0.005564,0.002465,0.003494,-0.002036 Brahmin_UP:mondal_BR1-18.SG,0.064879,-0.054839,-0.105594,0.085272,-0.064935,0.057173,-0.003525,0.011999,0.008181,0.003098,-0.015102,-0.004046,0.001784,-0.007569,-0.001629,0.011535,0.008345,-0.000253,-0.006913,0.004877,0.006114,-0.000742,-0.001849,0.001566,-0.002155 Rajput:mondal_RAI-2.SG,0.064879,-0.050776,-0.115022,0.081719,-0.067089,0.054941,-0.002115,0.004846,0.015135,0.004556,-0.007632,-0.001349,0.000743,-0.001927,0.006515,0.000133,-0.005867,-0.001394,-0.004399,-0.009379,0.00287,-0.009521,0.007395,-0.001205,-0.002754 Rajput:mondal_RAI-3.SG,0.069432,-0.050776,-0.104085,0.074936,-0.056934,0.042112,0.005405,0.003,0.003681,-0.00656,-0.005196,-0.003147,0.005946,0.003578,0.000814,-0.006895,-0.005346,0.000127,-0.002011,-0.007128,-0.001497,0.00371,-0.003204,0.008194,0.008023 Rajput:mondal_RAI-4.SG,0.047806,-0.147252,-0.101068,0.062016,-0.040315,0.047411,-0.00752,0.009923,0.018816,0.010752,-0.025982,-0.001199,0.007879,-0.009634,-0.004479,0.005038,0.009909,-0.002154,-0.004022,0.006378,0.004617,0.01014,-0.003204,0.010604,0.0097 Rajput:mondal_RAI-5.SG,0.048944,-0.151314,-0.09692,0.055233,-0.044624,0.038487,-0.00282,0.011538,0.017998,0.015126,-0.027931,-0.001349,0.006987,-0.007982,-0.003122,-0.001193,0.007693,-0.005194,0.003897,0.005753,-0.005366,0.00915,0.001109,0.00241,0.008023 Rajput:mondal_RAI-8.SG,0.050082,-0.140143,-0.111251,0.07429,-0.049855,0.053826,-0.003525,0.018692,0.026384,0.014397,-0.031179,0,0.003122,-0.001789,-0.010858,-0.00769,0.006389,-0.003801,0.004651,0.003627,0.003244,0.005812,0.007395,0.001807,0.004191 Rajput:mondal_RAI-9.SG,0.05122,-0.142174,-0.098806,0.066538,-0.045239,0.042112,-0.00094,0.013384,0.015339,0.009841,-0.027606,-0.002698,0.001933,-0.003441,-0.002986,0.001193,-0.001043,0.00228,-0.000503,-0.001376,-0.001747,-0.001731,0.004683,0.00494,0.00958 Rajput:mondal_RAI-11.SG,0.047806,-0.127957,-0.098051,0.06783,-0.052625,0.047411,-0.00094,0.017999,0.02168,0.009841,-0.032315,-0.003147,-0.001635,-0.002615,0.004207,-0.012861,-0.011343,0.005194,-0.001131,-0.000375,0.004617,0.002597,0.005669,0.006025,0.001676 Rajput:mondal_RAI-12.SG,0.044391,-0.14319,-0.091263,0.056848,-0.044008,0.048527,0.00282,0.00923,0.010226,0.005103,-0.029068,-0.002398,0.000446,-0.001239,0.000271,-0.010342,0.002868,0.003041,-0.002891,0.004127,0.005241,0.008532,0.000863,0.008435,0.012334 Rajput:mondal_RAI-13.SG,0.054635,-0.149283,-0.084098,0.063631,-0.04924,0.047411,-0.00235,0.01223,0.017385,0.011663,-0.031991,-0.004046,-0.000297,-0.001651,0.003257,0.004906,0.008345,-0.00076,-0.003394,-0.002251,0.001747,0.00643,0.008874,0.004699,0.012813 Rajput:mondal_RAI-15.SG,0.048944,-0.144205,-0.101068,0.063308,-0.048317,0.051595,0.003525,0.003231,0.016157,0.014032,-0.030529,-0.003147,0,-0.010184,0.005429,-0.001591,0.010431,-0.00076,-0.006034,0.004377,-0.001123,0.004946,-0.004807,0.00241,0.013771 Raw Brahmin_UP:mondal_BR1-1.SG,0.0062,-0.0061,-0.0282,0.0261,-0.0211,0.017,0.0015,0.0012,0.0065,-0.0015,-0.0118,0.0015,-0.0009,-0.0006,0.0051,-0.0065,-0.0085,-0.0024,-0.0061,-0.0084,-0.0024,0.001,0.0021,0.0023,0.0031 Brahmin_UP:mondal_BR1-3.SG,0.0047,-0.0144,-0.0258,0.025,-0.015,0.0171,-0.0017,0.0032,0.0087,0.0044,-0.0122,-0.0002,0.0025,-0.0007,0.0006,0.0035,0.0167,-0.0025,-0.0014,0.0033,-0.0024,0.0021,0.0022,-0.0029,0.0073 Brahmin_UP:mondal_BR1-4.SG,0.0056,-0.0067,-0.0288,0.0272,-0.0199,0.0192,-0.0003,0.0033,0.0106,0.0052,-0.0103,0.003,-0.0036,-0.006,0,-0.0003,-0.0024,-0.002,-0.0042,-0.0089,0.0027,-0.001,-0.0021,0.0003,-0.0035 Brahmin_UP:mondal_BR1-5.SG,0.0056,-0.0067,-0.0282,0.0246,-0.0201,0.0174,0.002,0.0046,0.006,0.001,-0.0085,-0.0025,-0.0005,-0.0025,0.0001,-0.0094,-0.006,0.0001,-0.0052,0.003,0.0035,0.0059,0.0067,0.0037,0.0079 Brahmin_UP:mondal_BR1-6.SG,0.0055,-0.0064,-0.0281,0.0292,-0.0168,0.0159,-0.0002,0.0069,0.0057,0.0033,-0.006,-0.0038,-0.003,-0.0037,0.0001,0.0006,-0.0009,-0.0014,-0.0005,-0.0047,-0.0062,0.0034,0.0032,-0.0004,-0.0005 Brahmin_UP:mondal_BR1-10.SG,0.0045,-0.0132,-0.0263,0.023,-0.0169,0.0188,-0.0018,0.0035,0.0095,0.0036,-0.0172,0.0008,-0.0004,-0.0006,0.0021,0.0006,0.0071,-0.0032,-0.0021,-0.0007,-0.0002,-0.0003,-0.0011,0.0064,0.006 Brahmin_UP:mondal_BR1-12.SG,0.0061,-0.0045,-0.0318,0.0264,-0.0199,0.0183,0.001,0.0037,0.0068,0.0054,-0.0112,0.0012,0.0028,-0.0013,0.0045,-0.0019,0.0017,0.0023,-0.0005,-0.0017,-0.0017,-0.0016,0.0001,0.0004,-0.0057 Brahmin_UP:mondal_BR1-13.SG,0.0056,-0.0066,-0.0277,0.0259,-0.0189,0.0195,0.0012,0.003,0.0054,0.0015,-0.012,-0.0027,-0.0014,-0.0035,0.0079,0.0111,0.0048,0.002,0.0018,-0.002,0.0008,-0.0002,0.0049,0.0026,-0.0009 Brahmin_UP:mondal_BR1-16.SG,0.0059,-0.004,-0.0294,0.0257,-0.0216,0.0195,0.0024,0.0045,0.0091,0.002,-0.008,0.0013,0.0014,0.0057,0.0048,-0.0092,-0.0115,-0.0007,0.0026,-0.0099,-0.0015,-0.0045,0.002,0.0029,-0.0017 Brahmin_UP:mondal_BR1-18.SG,0.0057,-0.0054,-0.028,0.0264,-0.0211,0.0205,-0.0015,0.0052,0.004,0.0017,-0.0093,-0.0027,0.0012,-0.0055,-0.0012,0.0087,0.0064,-0.0002,-0.0055,0.0039,0.0049,-0.0006,-0.0015,0.0013,-0.0018 Rajput:mondal_RAI-2.SG,0.0057,-0.005,-0.0305,0.0253,-0.0218,0.0197,-0.0009,0.0021,0.0074,0.0025,-0.0047,-0.0009,0.0005,-0.0014,0.0048,0.0001,-0.0045,-0.0011,-0.0035,-0.0075,0.0023,-0.0077,0.006,-0.001,-0.0023 Rajput:mondal_RAI-3.SG,0.0061,-0.005,-0.0276,0.0232,-0.0185,0.0151,0.0023,0.0013,0.0018,-0.0036,-0.0032,-0.0021,0.004,0.0026,0.0006,-0.0052,-0.0041,0.0001,-0.0016,-0.0057,-0.0012,0.003,-0.0026,0.0068,0.0067 Rajput:mondal_RAI-4.SG,0.0042,-0.0145,-0.0268,0.0192,-0.0131,0.017,-0.0032,0.0043,0.0092,0.0059,-0.016,-0.0008,0.0053,-0.007,-0.0033,0.0038,0.0076,-0.0017,-0.0032,0.0051,0.0037,0.0082,-0.0026,0.0088,0.0081 Rajput:mondal_RAI-5.SG,0.0043,-0.0149,-0.0257,0.0171,-0.0145,0.0138,-0.0012,0.005,0.0088,0.0083,-0.0172,-0.0009,0.0047,-0.0058,-0.0023,-0.0009,0.0059,-0.0041,0.0031,0.0046,-0.0043,0.0074,0.0009,0.002,0.0067 Rajput:mondal_RAI-8.SG,0.0044,-0.0138,-0.0295,0.023,-0.0162,0.0193,-0.0015,0.0081,0.0129,0.0079,-0.0192,0,0.0021,-0.0013,-0.008,-0.0058,0.0049,-0.003,0.0037,0.0029,0.0026,0.0047,0.006,0.0015,0.0035 Rajput:mondal_RAI-9.SG,0.0045,-0.014,-0.0262,0.0206,-0.0147,0.0151,-0.0004,0.0058,0.0075,0.0054,-0.017,-0.0018,0.0013,-0.0025,-0.0022,0.0009,-0.0008,0.0018,-0.0004,-0.0011,-0.0014,-0.0014,0.0038,0.0041,0.008 Rajput:mondal_RAI-11.SG,0.0042,-0.0126,-0.026,0.021,-0.0171,0.017,-0.0004,0.0078,0.0106,0.0054,-0.0199,-0.0021,-0.0011,-0.0019,0.0031,-0.0097,-0.0087,0.0041,-0.0009,-0.0003,0.0037,0.0021,0.0046,0.005,0.0014 Rajput:mondal_RAI-12.SG,0.0039,-0.0141,-0.0242,0.0176,-0.0143,0.0174,0.0012,0.004,0.005,0.0028,-0.0179,-0.0016,0.0003,-0.0009,0.0002,-0.0078,0.0022,0.0024,-0.0023,0.0033,0.0042,0.0069,0.0007,0.007,0.0103 Rajput:mondal_RAI-13.SG,0.0048,-0.0147,-0.0223,0.0197,-0.016,0.017,-0.001,0.0053,0.0085,0.0064,-0.0197,-0.0027,-0.0002,-0.0012,0.0024,0.0037,0.0064,-0.0006,-0.0027,-0.0018,0.0014,0.0052,0.0072,0.0039,0.0107 Rajput:mondal_RAI-15.SG,0.0043,-0.0142,-0.0268,0.0196,-0.0157,0.0185,0.0015,0.0014,0.0079,0.0077,-0.0188,-0.0021,0,-0.0074,0.004,-0.0012,0.008,-0.0006,-0.0048,0.0035,-0.0009,0.004,-0.0039,0.002,0.0115

added

Quote:

Originally Posted by Lucas

added

Lukasz, there were some minor things in a PM for you.

Quote:

Originally Posted by Dr_Maul

Updated Buryat average but with the half and quarter Russians in the previous database removed. (G25)

Code:

Buryat,0.0433518,-0.3658114,0.0778508,-0.0272163,-0.0680259,-0.0389598,0.0184127,0.0260056,0.007265,0.0131052,-0.0217812,0.0015247,-0.0021394,0.0056605,0.0049744,0.0040527,-0.0003912,-0.0019334,0.0055307,0.0166982,-0.0208002,-0.0098546,-0.0233207,-0.0021322,0.0001823

Im also thinking of doing one for Udmurts. Would you say I also remove the samples with 1-5% Russian admixture?

Quote:

Originally Posted by Lucas

added

Here's the Brahmin_UP and Rajput (Rajasthan) average which was not added.

Average scaled

Code:

Brahmin_UP,0.063058,-0.0751491,-0.1064611,0.0838185,-0.0588725,0.0510928,0.000611,0.0090226,0.0147872,0.0048474,-0.0172944,-0.0006145,-0.0002825,-0.0025736,0.0032573,-0.0003711,0.0009649,-0.0010135,-0.0026521,-0.003264,-0.0003121,0.0005195,0.0020335,0.0020001,0.0012214 Rajput,0.0528139,-0.124707,-0.1001632,0.0666349,-0.0498246,0.0473833,-0.000846,0.0104073,0.0162801,0.0088751,-0.0249429,-0.002248,0.0025124,-0.0036884,-0.0000952,-0.0029302,0.0022036,-0.0003421,-0.0015837,0.0003753,0.0012603,0.0040065,0.0024773,0.0048319,0.0077357

Supplementary Figure 1: Geographical positions of Indian populations sequenced in this study.
Pg 39 Rajputs and Brahmins location
https://static-content.springer.com/...OESM32_ESM.pdf

Quote:

Originally Posted by Kaazi

Here's the Brahmin_UP and Rajput (Rajasthan) average which was not added.

Average scaled

Code:

Brahmin_UP,0.063058,-0.0751491,-0.1064611,0.0838185,-0.0588725,0.0510928,0.000611,0.0090226,0.0147872,0.0048474,-0.0172944,-0.0006145,-0.0002825,-0.0025736,0.0032573,-0.0003711,0.0009649,-0.0010135,-0.0026521,-0.003264,-0.0003121,0.0005195,0.0020335,0.0020001,0.0012214 Rajput,0.0528139,-0.124707,-0.1001632,0.0666349,-0.0498246,0.0473833,-0.000846,0.0104073,0.0162801,0.0088751,-0.0249429,-0.002248,0.0025124,-0.0036884,-0.0000952,-0.0029302,0.0022036,-0.0003421,-0.0015837,0.0003753,0.0012603,0.0040065,0.0024773,0.0048319,0.0077357

Supplementary Figure 1: Geographical positions of Indian populations sequenced in this study.
Pg 39 Rajputs and Brahmins location
https://static-content.springer.com/...OESM32_ESM.pdf

Added but isn't Brahmin_UP the same as Brrahmin_Uttar_Pradesh which weas already in?

Quote:

Originally Posted by Lucas

Added but isn't Brahmin_UP the same as Brrahmin_Uttar_Pradesh which weas already in?

No they have different autosomal. This one seems like its from Tibeto Burmese contact zone which previous ones lack. This one has around 80% coverage which makes it useful for those pops from Tibetan contact zone.

Quote:

Originally Posted by Kaazi

No they have different autosomal. This one seems like its from Tibeto Burmese contact zone which previous ones lack. This one has around 80% coverage which is also way better.

Ok Uttar_Pradesh is probably from very old work from 2009.

G25 modern individual samples scaled does not work.
http://g25vahaduo.genetics.ovh/G25modern-scaled.htm