I0048

FASTA

Metadata

Reference

Data

identifier	I0048
alternative_identifiers	['HAL25']
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	K1a26
ychr_hg	G2a2a
year_from	-5210
year_to	-5002
date_detail	5210-5002 calBCE (6153±33 BP, MAMS-21482)
bp	6153±33
c14_lab_code	MAMS-21482
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:F3088:20813445G->A', 'G2a:L31:14028148C->A', 'G2a:P15:23244026C->T', 'G2:CTS2406:14294068C->T', 'G2:CTS10089:19248446G->A', 'G2:F1294:8545324T->A', 'G2:F3070:19493301A->G', 'G2:F3220:21637589G->C', 'G2:F3344:22697266G->A', 'G2:F3536:23768744C->T', 'G2:M3446:6685638A->C', 'G2:M3579:21147058A->G', 'G:CTS34:2681740G->A', 'G:CTS1283:7309873T->G', 'G:CTS2251:14235140C->T', 'G:CTS2271:14243137C->T', 'G:CTS2357:14273557C->T', 'G:CTS4761:15802681C->T', 'G:CTS7092:17281783G->A', 'G:CTS7674:17610571G->A', 'G:CTS10026:19215139A->T', 'G:CTS11185:22997377C->G', 'G:F1131:8240725C->T', 'G:L837:17853245A->G', 'G:M3432:23578115C->G', 'G:M3474:7930724C->A', 'G:M3485:8563874C->T', 'G:M3597:21865624G->A', 'G:M3599:21939157G->A', 'G:P257:14432928G->A', 'G:PF2918:13679469G->A', 'G:PF3134:15275200C->G', 'G:U21:15204710A->C', 'G2:CTS4413:15635425T->C', 'G2:CTS9885:19119067C->T', 'G:CTS373:6716150T->C', 'G:CTS2125:14190447A->G', 'G:CTS2215:14220356G->A', 'G:CTS4523:15693336G->A', 'G:CTS4749:15797043A->G', 'G:CTS6483:16929270C->T', 'G:CTS10721:22729194C->T', 'G:CTS11294:23059496G->A', 'G:CTS11907:23343857C->G', 'G:L402:15204708T->G', 'G:L836:16896148G->A', 'G:M3466:7614386G->A', 'G:Page94:2846401C->T', 'G:PF2958:15086183G->C', 'G:CTS5757:16469840A->G', 'G:CTS9707:19030998C->A', 'G2a2a:PF3168:17572142T->C', 'G2a2a:PF3181:21808944C->A', 'G2a2a:PF3185:22894488C->T', 'G2a:CTS1879:14108344G->A', 'G:CTS5658:16419934T->C', 'G:M3257:7991847G->A', 'G:CTS1613:13987899A->T', 'G:CTS1139:7231638A->G']
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': '11467G', 'position': 11467, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-ND4'], 'diseases': ['Altered brain pH / sCJD patients']}, {'allele': '12308G', 'position': 12308, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '+', 'locus': ['MT-TL2'], 'diseases': ['CPEO / Stroke / CM / Breast & Renal & Prostate Cancer Risk / Altered brain pH /sCJD']}, {'allele': '12372A', 'position': 12372, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-ND5'], 'diseases': ['Altered brain pH / sCJD patients']}, {'allele': '16093C', 'position': 16093, 'status': 'Reported', 'homoplasmy': '-', 'heteroplasmy': '+', 'locus': ['MT-CR'], 'diseases': ['Cyclic Vomiting Syndrome']}, {'allele': '195C', 'position': 195, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '+', 'locus': ['MT-CR'], 'diseases': ['BD-associated / melanoma pts']}, {'allele': '9055A', 'position': 9055, 'status': 'Reported', 'homoplasmy': '+', 'heteroplasmy': '-', 'locus': ['MT-ATP6'], 'diseases': ['PD protective factor']}]