I0821

FASTA

Metadata

Reference

Data

identifier	I0821
alternative_identifiers	['HAL24']
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	X2d1
ychr_hg	G2a2a1
year_from	-5201
year_to	-4850
date_detail	5201-4850 calBCE (6076±34 BP, KIA-40348)
bp	6076±34
c14_lab_code	KIA-40348
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	['G2a2:CTS4367:15615340C->G', 'G2a:F2274:16802506G->T', 'G2:CTS1900:14116322T->A', 'G2:CTS2406:14294068C->T', 'G2:F1294:8545324T->A', 'G2:F3198:21401188G->T', 'G2:L89:7978725C->T', 'G2:M3579:21147058A->G', 'G:CTS2271:14243137C->T', 'G:CTS2357:14273557C->T', 'G:CTS2506:14333087C->A', 'G:CTS4238:15504804C->T', 'G:CTS4761:15802681C->T', 'G:CTS6957:17210745C->T', 'G:CTS7092:17281783G->A', 'G:CTS7674:17610571G->A', 'G:CTS8023:17798903T->C', 'G:CTS8531:18070349G->C', 'G:CTS10026:19215139A->T', 'G:CTS11228:23023554C->A', 'G:CTS11529:23151673T->C', 'G:F1383:8700380C->T', 'G:F1551:9448354A->G', 'G:L382:14469411C->A', 'G:L522:17533325A->C', 'G:M3468:7744050T->C', 'G:M3473:7927218C->T', 'G:M3479:8231862G->C', 'G:M3485:8563874C->T', 'G:M3486:8600158A->T', 'G:M3599:21939157G->A', 'G:M3609:22651339C->T', 'G:M3628:23793740C->A', 'G:PF2920:13824120T->G', 'G:PF3134:15275200C->G', 'G:U21:15204710A->C', 'G2a:F2301:16861108G->A', 'G2:CTS4413:15635425T->C', 'G2:CTS6742:17088129G->C', 'G2:F1647:9907842G->T', 'G2:F2319:16903051A->T', 'G2:M3465:7571775G->T', 'G:CTS995:7132348G->C', 'G:CTS5504:16325291T->C', 'G:CTS5640:16408569G->A', 'G:CTS9894:19124322A->T', 'G:L402:15204708T->G', 'G:L836:16896148G->A', 'G:M3264:8318375G->T', 'G:M3266:8422993T->A', 'G:M3274:8865637G->A', 'G:M3466:7614386G->A', 'G:M3470:7830068T->C', 'G:M3471:7840218C->A', 'G:PF2956:14993358A->G', 'G:S1435:13658486C->G', 'G:CTS1010:7143549C->T', 'G:CTS4479:15667235G->A', 'G:CTS5757:16469840A->G', 'G:CTS12654:28658660G->T', 'G:M3477:8121059G->A', 'G:M3595:21671839C->T', 'G2a2a1:PF3155:14006343T->C', 'G2a2a1:PF3160:14926732C->T', 'G2a2a:PF3175:18962113C->T', 'G2a2a:Z6178:7245721G->A', 'G2a:CTS1879:14108344G->A', 'G2a:CTS11463:23122426G->A', 'G:M3257:7991847G->A', 'G2a2a:PF3166:16735582T->G', 'G:CTS10280:19369881T->C']
mitopathos	[{'allele': '12705T', 'position': 12705, 'status': 'Reported', 'homoplasmy': '<NA>', 'heteroplasmy': '<NA>', 'locus': ['MT-CO1'], 'diseases': ['Possible protective factor for normal tension glaucoma']}, {'allele': '13708A', 'position': 13708, 'status': 'Conflicting reports', 'homoplasmy': '+', 'heteroplasmy': '+', 'locus': ['MT-ND5'], 'diseases': ['LHON / Increased MS risk / higher freq in PD-ADS']}, {'allele': '16189C', 'position': 16189, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-CR'], 'diseases': ['Diabetes / Cardiomyopathy /cancer risk / mtDNA copy nbr / Metabolic Syndrome / Melanoma patients']}, {'allele': '195C', 'position': 195, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '+', 'locus': ['MT-CR'], 'diseases': ['BD-associated / melanoma pts']}]