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2020 nakatsuka south patagonia #100

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2020 nakatsuka south patagonia #100

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93Boy Oct 11, 2022
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93Boy Oct 11, 2022
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nevrome Nov 4, 2022
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nevrome Nov 4, 2022
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1 change: 1 addition & 0 deletions 2020_Nakatsuka_SouthPatagonia/CHANGELOG.md
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V 3.0.0: fully updated version of the package
V 2.0.0: updated the package to Poseidon v2.5 and adjusted the .janno file accordingly
4 changes: 2 additions & 2 deletions 2020_Nakatsuka_SouthPatagonia/Nakatsuka_SouthPatagonia.bed
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2 changes: 1 addition & 1 deletion 2020_Nakatsuka_SouthPatagonia/LITERATURE.bib → ...uthPatagonia/Nakatsuka_SouthPatagonia.bib
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@ARTICLE{Nakatsuka2020-qq,
@ARTICLE{NakatsukaLuisiNatureCommunications2020,
title = "Ancient genomes in South Patagonia reveal population movements
associated with technological shifts and geography",
author = "Nakatsuka, Nathan and Luisi, Pierre and Motti, Josefina M B and
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4 changes: 2 additions & 2 deletions 2020_Nakatsuka_SouthPatagonia/Nakatsuka_SouthPatagonia.bim
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40 changes: 20 additions & 20 deletions 2020_Nakatsuka_SouthPatagonia/Nakatsuka_SouthPatagonia.fam
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Aonikenk_SouthContinent_CerroJohnny_400BP I8575 0 0 1 -9
Selknam_FaroMendez_100BP I8576 0 0 1 -9
Selknam_NorthTierradelFuego_Grouped_500BP I12364 0 0 2 -9
Selknam_NorthTierradelFuego_Grouped_500BP I12366 0 0 2 -9
Haush_MitrePeninsula_Grouped_700BP I12357 0 0 2 -9
Argentina_Tierra_del_Fuego_brother.I12367 I12365 0 0 1 -9
Haush_MitrePeninsula_Grouped_700BP I12359 0 0 1 -9
Haush_MitrePeninsula_Grouped_700BP I12361 0 0 1 -9
Yamana_BeagleChannel_Grouped_1900-500BP I12355 0 0 1 -9
Argentina_NorthTierradelFuego_LaArcillosa2_6000BP I12362 0 0 2 -9
Argentina_LagunaToro_2400BP I12376 0 0 2 -9
Haush_MitrePeninsula_Grouped_700BP I12360 0 0 1 -9
Selknam_NorthTierradelFuego_Grouped_500BP I12363 0 0 1 -9
Selknam_NorthTierradelFuego_Grouped_500BP I12367 0 0 2 -9
Yamana_BeagleChannel_Grouped_1900-500BP I12941 0 0 1 -9
Yamana_BeagleChannel_Grouped_1900-500BP I12943 0 0 2 -9
Yamana_BeagleChannel_Grouped_1900-500BP I12942 0 0 2 -9
Haush_MitrePeninsula_Grouped_700BP I12356 0 0 1 -9
Selknam_NorthTierradelFuego_Grouped_500BP I12354 0 0 1 -9
Haush_MitrePeninsula_Grouped_700BP I12358 0 0 1 -9
Chile_SouthernContinent_Aonikenk_400BP I8575 0 0 1 0
Chile_NorthTierradelFuego_Selknam_100BP I8576 0 0 1 0
Argentina_NorthTierradelFuego_Selknam_500BP I12364 0 0 2 0
Argentina_NorthTierradelFuego_Selknam_500BP I12366 0 0 2 0
Argentina_MitrePeninsula_Haush_400BP I12357 0 0 2 0
Argentina_NorthTierradelFuego_Selknam_500BP_brother.I12367 I12365 0 0 1 0
Argentina_MitrePeninsula_Haush_400BP I12359 0 0 1 0
Argentina_MitrePeninsula_Haush_400BP I12361 0 0 1 0
Argentina_BeagleChannel_Yamana_1500BP I12355 0 0 1 0
Argentina_LagunaToro_2400BP I12376 0 0 2 0
Argentina_MitrePeninsula_Haush_400BP I12360 0 0 1 0
Argentina_NorthTierradelFuego_Selknam_500BP I12363 0 0 1 0
Argentina_NorthTierradelFuego_Selknam_500BP I12367 0 0 2 0
Argentina_BeagleChannel_Yamana_100BP I12941 0 0 1 0
Argentina_BeagleChannel_Yamana_100BP I12943 0 0 2 0
Argentina_BeagleChannel_Yamana_100BP I12942 0 0 2 0
Argentina_MitrePeninsula_Haush_400BP I12356 0 0 1 0
Argentina_NorthTierradelFuego_LaArcillosa2_5800BP I12362 0 0 2 0
Argentina_NorthTierradelFuego_Selknam_500BP I12354 0 0 1 0
Argentina_MitrePeninsula_Haush_400BP I12358 0 0 1 0
42 changes: 21 additions & 21 deletions 2020_Nakatsuka_SouthPatagonia/Nakatsuka_SouthPatagonia.janno
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Poseidon_ID Genetic_Sex Group_Name
I8575 M Aonikenk_SouthContinent_CerroJohnny_400BP
I8576 M Selknam_FaroMendez_100BP
I12364 F Selknam_NorthTierradelFuego_Grouped_500BP
I12366 F Selknam_NorthTierradelFuego_Grouped_500BP
I12357 F Haush_MitrePeninsula_Grouped_700BP
I12365 M Argentina_Tierra_del_Fuego_brother.I12367
I12359 M Haush_MitrePeninsula_Grouped_700BP
I12361 M Haush_MitrePeninsula_Grouped_700BP
I12355 M Yamana_BeagleChannel_Grouped_1900-500BP
I12362 F Argentina_NorthTierradelFuego_LaArcillosa2_6000BP
I12376 F Argentina_LagunaToro_2400BP
I12360 M Haush_MitrePeninsula_Grouped_700BP
I12363 M Selknam_NorthTierradelFuego_Grouped_500BP
I12367 F Selknam_NorthTierradelFuego_Grouped_500BP
I12941 M Yamana_BeagleChannel_Grouped_1900-500BP
I12943 F Yamana_BeagleChannel_Grouped_1900-500BP
I12942 F Yamana_BeagleChannel_Grouped_1900-500BP
I12356 M Haush_MitrePeninsula_Grouped_700BP
I12354 M Selknam_NorthTierradelFuego_Grouped_500BP
I12358 M Haush_MitrePeninsula_Grouped_700BP
Poseidon_ID Genetic_Sex Group_Name Collection_ID Country Location Latitude Longitude Date_Type Date_C14_Labnr Date_C14_Uncal_BP Date_C14_Uncal_BP_Err Date_BC_AD_Start Date_BC_AD_Stop MT_Haplogroup Source_Tissue Nr_Libraries Capture_Type UDG Library_Built Genotype_Ploidy Nr_SNPs Coverage_on_Target_SNPs Damage Genetic_Source_Accession_IDs Publication
I8575 M Chile_SouthernContinent_Aonikenk_400BP Cerro Johnny Chile Southern Continent, Magallanes, Cerro Johnny -52.04 -70.03 C14 n/a 428 46 141 1631 D1g+16189 tooth 1 1240K half ds diploid 505809 0.611389 0.023 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I8576 M Chile_NorthTierradelFuego_Selknam_100BP Faro Mendez Chile North of Tierra del Fuego, Faro Méndez -52.52 -69.59 contextual n/a n/a n/a 1800 1900 D1g+16189 tooth 1 1240K half ds diploid 675498 1.025169 0.039 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12364 F Argentina_NorthTierradelFuego_Selknam_500BP 51JM Argentina Tierra del Fuego (North), Margen Sur -53.82 -67.65 C14 AA-69655 897 38 1040 1280 D4h3a tooth (molar) 1 1240K half ds diploid 210049 0.217564 0.052 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12366 F Argentina_NorthTierradelFuego_Selknam_500BP 56JM Argentina Tierra del Fuego (North), Pozo Tierra del Fuego 1 -53.66 -67.96 C14 PSUAMS-6685 220 20 1670 1960 D1g+16189 tooth (molar) 1 1240K half ds diploid 549359 0.75698 0.04 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12357 F Argentina_MitrePeninsula_Haush_400BP 42JM Argentina Tierra del Fuego, Mitre Peninusula, Caleta Falsa -54.7 -65.35 C14 PSUAMS-6675 530 45 1470 1810 D1g+16189 tooth (molar) 1 1240K half ds diploid 581307 1.028975 0.051 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12365 M Argentina_NorthTierradelFuego_Selknam_500BP_brother.I12367 55JM Argentina Tierra del Fuego (North), Margen Sur -53.82 -67.65 C14 PSUAMS-6684 960 20 1150 1270 C1c8 tooth (molar) 1 1240K half ds diploid 338749 0.372559 0.054 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12359 M Argentina_MitrePeninsula_Haush_400BP 44JM Argentina Tierra del Fuego, Mitre Peninusula, Caleta Falsa -54.7 -65.35 C14 PSUAMS-6683 870 20 1280 1440 C1b tooth (premolar) 1 1240K half ds diploid 332598 0.394959 0.046 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12361 M Argentina_MitrePeninsula_Haush_400BP 46JM Argentina Tierra del Fuego, Mitre Peninusula, Río Policarpo -54.6 -65.58 C14 PSUAMS-6677 815 20 1450 1630 D1g+16189 tooth (molar) 1 1240K half ds diploid 125754 0.117069 0.028 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12355 M Argentina_BeagleChannel_Yamana_1500BP 32JM Argentina Beagle Channel, Tierra del Fuego, Río Pipo -54.85 -68.52 C14 PSUAMS-6673 1975 25 260 600 C1b tooth (premolar) 1 1240K half ds diploid 649220 2.694989 0.058 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12376 F Argentina_LagunaToro_2400BP 75JM Argentina Southwest of Buenos Aires, Laguna Toro -38.84 -61.42 C14 UGAMS-16601 2369 52 -740 -200 A2+(64) tooth (molar) 1 1240K half ds diploid 190166 0.182844 0.079 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12360 M Argentina_MitrePeninsula_Haush_400BP 45JM Argentina Tierra del Fuego, Mitre Peninusula, Caleta Falsa -54.7 -65.35 C14 PSUAMS-6676 800 20 1460 1640 D1g+16189 tooth (molar) 1 1240K half ds diploid 115827 0.104881 0.041 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12363 M Argentina_NorthTierradelFuego_Selknam_500BP 48JM Argentina Tierra del Fuego (North), Puesto Pescador -53.28 -68.47 C14 AA-69652 335 35 1490 1660 D1g+16189 tooth (molar) 1 1240K half ds diploid 659984 1.21585 0.045 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12367 F Argentina_NorthTierradelFuego_Selknam_500BP 57JM Argentina Tierra del Fuego (North), Margen Sur -53.82 -67.65 C14 PSUAMS-6686 895 25 1200 1300 C1c8 tooth (molar) 1 1240K half ds diploid 379212 0.426958 0.038 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12941 M Argentina_BeagleChannel_Yamana_100BP 23JM Argentina Beagle Channel, Tierra del Fuego, Almanza -54.85 -67.57 C14 PSUAMS-6678 555 20 1560 1960 C1b tooth (molar) 1 1240K half ds diploid 824181 4.024405 0.018 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12943 F Argentina_BeagleChannel_Yamana_100BP 22JM Argentina Beagle Channel, Tierra del Fuego, Almanza -54.85 -67.57 C14 PSUAMS-6680 570 20 1550 1960 C1b tooth (premolar) 1 1240K half ds diploid 835203 3.669419 0.05 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12942 F Argentina_BeagleChannel_Yamana_100BP 27JM Argentina Beagle Channel, Tierra del Fuego, Acatushún -54.87 -67.33 C14 PSUAMS-6679 490 25 1810 1960 C1b tooth (molar) 1 1240K half ds diploid 284105 0.287915 0.031 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12356 M Argentina_MitrePeninsula_Haush_400BP 41JM Argentina Tierra del Fuego, Mitre Peninusula, Caleta Falsa -54.7 -65.35 C14 PSUAMS-6674 650 20 1450 1820 D1 tooth (molar) 1 1240K half ds diploid 620076 1.220655 0.049 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12362 F Argentina_NorthTierradelFuego_LaArcillosa2_5800BP 47JM Argentina Tierra del Fuego (North), La Arcillosa 2 -53.58 -68.02 C14 AA-60935 5205 58 -4040 -3710 C tooth (molar) 1 1240K half ds diploid 761032 3.619225 0.097 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12354 M Argentina_NorthTierradelFuego_Selknam_500BP 29JM Argentina Tierra del Fuego (North), Río Grande -53.78 -67.7 C14 PSUAMS-6672 520 30 1420 1630 D1g+16189 tooth (premolar) 13 1240K half ds diploid 897330 6.701622 0.1 PRJEB39010 NakatsukaLuisiNatureCommunications2020
I12358 M Argentina_MitrePeninsula_Haush_400BP 43JM Argentina Tierra del Fuego, Mitre Peninusula, Caleta Falsa -54.7 -65.35 C14 UGAMS-5151 820 40 1330 1650 C tooth (molar) 13 1240K half ds diploid 755292 1.663247 0.049 PRJEB39010 NakatsukaLuisiNatureCommunications2020
18 changes: 10 additions & 8 deletions 2020_Nakatsuka_SouthPatagonia/POSEIDON.yml
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Expand Up @@ -4,19 +4,21 @@ description: Ancient samples from South Patagonia.
contributor:
- name: Ayshin Ghalichi
email: [email protected]
packageVersion: 2.0.0
lastModified: 2022-01-28
- name: Dhananjaya Aththanayaka
email: [email protected]
packageVersion: 3.0.0
lastModified: 2022-10-11
genotypeData:
format: PLINK
genoFile: Nakatsuka_SouthPatagonia.bed
genoFileChkSum: 44a3d43c04cad943ae0cfe6b0e20ec90
genoFileChkSum: 279c1d4ae557fd7d16c16fc589b62e28
snpFile: Nakatsuka_SouthPatagonia.bim
snpFileChkSum: 1e2346f22af653b45f0320485ced3699
snpFileChkSum: 433fa85a23f3123bade02348e4628b75
indFile: Nakatsuka_SouthPatagonia.fam
indFileChkSum: 3a537caa5f74fc22c7baebee33ac5f27
indFileChkSum: 1e15f27b0428c9c1d7c35190a472be27
snpSet: 1240K
jannoFile: Nakatsuka_SouthPatagonia.janno
jannoFileChkSum: 529928ec41602fff1a6feccbfe86a5e4
bibFile: LITERATURE.bib
bibFileChkSum: d7ff8ee332d5ce11ea499d89d8d2616b
jannoFileChkSum: 21bc2b20372d61c4577a2ab67b1accd8
bibFile: Nakatsuka_SouthPatagonia.bib
bibFileChkSum: 307b80e4dc2e03e511e31fbb23cd49b0
changelogFile: CHANGELOG.md