I0659

FASTA

Metadata

Reference

Data

identifier	I0659
alternative_identifiers	['HAL2']
country	Germany
continent	Europe
region	central Europe
culture	Linear Pottery
epoch	Neolithic
group	LBK
comment	-
latitude	51.900001525878906
longitude	11.050000190734863
sex	M
site	Halberstadt-Sonntagsfeld
site_detail	-
mt_hg	N1a1a2
ychr_hg	G2a2a
year_from	-5211
year_to	-4963
date_detail	5211-4963 calBCE (6130±40 BP, KIA-40350)
bp	6130±40
c14_lab_code	KIA-40350
c14_sample_tag	True
c14_layer_tag	-
avg_coverage	-
sequence_source	bam
reference	Lipson et al. 2017. Parallel palaeogenomic transects reveal complex genetic history of early European farmers. Nature, 551(7680), 368-372. (link)
data_link	https://www.ebi.ac.uk/ena/data/view/PRJEB22629
ychr_snps	['G2a:CTS6630:17022002C->T', 'G2a:F2529:17571517A->G', 'G2a:F4086:7727677C->T', 'G2a:L31:14028148C->A', 'G2a:M3393:21493984G->T', 'G2a:P15:23244026C->T', 'G2a:PF3141:23973594T->G', 'G2:CTS1900:14116322T->A', 'G2:F1239:8482393C->T', 'G2:F1294:8545324T->A', 'G2:F3198:21401188G->T', 'G2:F3220:21637589G->C', 'G2:F3344:22697266G->A', 'G2:F3536:23768744C->T', 'G:CTS692:6955839A->G', 'G:CTS1013:7145960C->T', 'G:CTS1283:7309873T->G', 'G:CTS2271:14243137C->T', 'G:CTS2506:14333087C->A', 'G:CTS4238:15504804C->T', 'G:CTS4887:15888550C->T', 'G:CTS6957:17210745C->T', 'G:CTS7674:17610571G->A', 'G:CTS8023:17798903T->C', 'G:CTS8531:18070349G->C', 'G:CTS9011:18615020A->T', 'G:CTS10723:22730922C->G', 'G:CTS11911:23346582A->C', 'G:F1131:8240725C->T', 'G:F1551:9448354A->G', 'G:L116:14989721C->G', 'G:L382:14469411C->A', 'G:L522:17533325A->C', 'G:L837:17853245A->G', 'G:M3450:6931141C->G', 'G:M3468:7744050T->C', 'G:M3480:8327892T->A', 'G:M3486:8600158A->T', 'G:P257:14432928G->A', 'G:PF3045:20823823C->T', 'G:U21:15204710A->C', 'G:Z3262:13676268G->A', 'G2a:Z3240:10060449A->G', 'G2:F2319:16903051A->T', 'G2:F3226:21663882C->A', 'G2:M3488:8687693T->A', 'G:CTS2215:14220356G->A', 'G:CTS5317:16203361G->C', 'G:CTS9894:19124322A->T', 'G:CTS10721:22729194C->T', 'G:L402:15204708T->G', 'G:M3266:8422993T->A', 'G:M3464:7537950C->T', 'G:M3466:7614386G->A', 'G:M3470:7830068T->C', 'G:M3580:21162869C->G', 'G:M3586:21447363A->G', 'G:S1435:13658486C->G', 'G2a:CTS6026:16620480C->T', 'G:CTS4479:15667235G->A', 'G2a2a:PF3184:22576860C->T', 'G2a2a:PF3185:22894488C->T', 'G2a2a:PF3175:18962113C->T', 'G2a:F1975:15588776A->C', 'G2a2a:PF3150:8476569T->C', 'G2a2a:PF3151:9785736A->G', 'G:M3257:7991847G->A', 'G:M3476:8064458A->G', 'G:CTS10280:19369881T->C', 'G2a2a:PF3161:15702713A->C', 'G:CTS2624:14393739T->C', 'G:M3583:21362016T->C']
mitopathos	[{'allele': '10398G', 'position': 10398, 'status': 'Reported / lineage L & M marker / also hg IJK', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-ND3'], 'diseases': ['PD protective factor / longevity / altered cell pH / metabolic syndrome / breast cancer risk / Leigh Syndrome risk / ADHD / cognitive decline / SCA2 age of onset / Fuchs endothelial corneal dystrophy']}, {'allele': '12705T', 'position': 12705, 'status': 'Reported', 'homoplasmy': '<NA>', 'heteroplasmy': '<NA>', 'locus': ['MT-CO1'], 'diseases': ['Possible protective factor for normal tension glaucoma']}, {'allele': '15043A', 'position': 15043, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-CYB'], 'diseases': ['MDD-associated']}, {'allele': '3336C', 'position': 3336, 'status': 'Reported', 'homoplasmy': '-', 'heteroplasmy': '+', 'locus': ['MT-ND1'], 'diseases': ['Carotid atherosclerosis risk']}, {'allele': '669C', 'position': 669, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-RNR1'], 'diseases': ['DEAF']}]