Egyptref: An integrated personal and population-based Egyptian genome reference

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001006034	This is the PacBio long read data used for performing de novo assembly of the EGYPT individual (mapped against GRCh38).	Sequel	1
EGAD00001006035	10x Genomics linked read data used in variant phasing and de novo assembly scaffolding for the EGYPT individual (mapped against GRCh38).	HiSeq X Ten	1
EGAD00001006036	This is the blood RNA-Seq read data used for expression analysis such as haplotypic expression (mapped against GRCh38).	Illumina NovaSeq 6000	1
EGAD00001006037	High-coverage WGS	HiSeq X Ten	9
EGAD00001006038	This data set contains for 10 Egyptian individuals the WGS reads mapping to chrM. These were subsequently used for haplogroup assignment.	HiSeq X Ten	10
EGAD00001006039	This data set comprises WGS small variants and structural variants called in a cohort of 110 Egyptian individuals (10 individuals have been sequenced as part of this study and 100 are from EGAD00001001372/EGAD00001001380).		10
EGAD00001006040	This data set contains for 217 Egyptian individuals the amplicon sequencing reads mapping to chrM. These were subsequently used for haplogroup assignment.	Illumina MiSeq	217

Publications	Citations
An integrated personal and population-based Egyptian genome reference. Wohlers I, Künstner A, Munz M, Olbrich M, Fähnrich A, Calonga-Solís V, Ma C, Hirose M, El-Mosallamy S, Salama M, Busch H, Ibrahim S. Nat Commun 11: 2020 4719	18
Genetic analysis of CFH and MCP in Egyptian patients with immune-complex proliferative glomerulonephritis. Gouda HR, Talaat IM, Bouzid A, El-Assi H, Nabil A, Venkatachalam T, Manasa Bhamidimarri P, Wohlers I, Mahdami A, El-Gendi S, ElKoraie A, Busch H, Saber-Ayad M, Hamoudi R, Baddour N. Front Immunol 13: 2022 960068	1
Population Genome Programs across the Middle East and North Africa: Successes, Challenges, and Future Directions. Ateia H, Ogrodzki P, Wilson HV, Ganesan S, Halwani R, Koshy A, Zaher WA. Biomed Hub 8: 2023 60-71	0
A comprehensive analysis of genetic risk for metabolic syndrome in the Egyptian population via allele frequency investigation and Missense3D predictions. Bassyouni M, Mysara M, Wohlers I, Busch H, Saber-Ayad M, El-Hadidi M. Sci Rep 13: 2023 20517	2