ArticleBMC genetics2008
Analysis of genetic variation in Ashkenazi Jews by high density SNP genotyping.
Article in BMC genetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
25 citing papers in PubMed, 1 synthesis or guideline pooled it, 38 citations in OpenAlex.
- Position statement of the International Society for Gastrointestinal Hereditary Tumours (InSiGHT) onJournal of medical genetics · 2023Pooled it
- The use of shared haplotype length information for pedigree reconstruction in asexually propagated outbreeding crops, demonstrated for apple and sweet cherry.Horticulture research · 2021Article
- Consanguinity Rates Predict Long Runs of Homozygosity in Jewish Populations.Human heredity · 2016Article
- Echoes from Sepharad: signatures on the maternal gene pool of crypto-Jewish descendants.European journal of human genetics : EJHG · 2015Article
- Portuguese crypto-Jews: the genetic heritage of a complex history.Frontiers in genetics · 2015Review
- Sequencing an Ashkenazi reference panel supports population-targeted personal genomics and illuminates Jewish and European origins.Nature communications · 2014Article
- Article
- Pharmacogenetics in Jewish populations.Drug metabolism and drug interactions · 2014Review
- Haplotype structure in Ashkenazi Jewish BRCA1 and BRCA2 mutation carriers.Human genetics · 2011Article
- Genetics and morphology of Aedes aegypti (Diptera: Culicidae) in septic tanks in Puerto Rico.Journal of medical entomology · 2011Article
- Genetic architecture of prostate cancer in the Ashkenazi Jewish population.British journal of cancer · 2011Article
- Inference of relationships in population data using identity-by-descent and identity-by-state.PLoS genetics · 2011Article
- Population-genetic comparison of the Sorbian isolate population in Germany with the German KORA population using genome-wide SNP arrays.BMC genetics · 2011Article
- Common genetic variants and modification of penetrance of BRCA2-associated breast cancer.PLoS genetics · 2010Article
- Signatures of founder effects, admixture, and selection in the Ashkenazi Jewish population.Proceedings of the National Academy of Sciences of the United States of America · 2010Article
- The genome-wide structure of the Jewish people.Nature · 2010Article
- Abraham's children in the genome era: major Jewish diaspora populations comprise distinct genetic clusters with shared Middle Eastern Ancestry.American journal of human genetics · 2010Article
- Copy neutral loss of heterozygosity: a novel chromosomal lesion in myeloid malignancies.Blood · 2010Review
- Genomic microsatellites identify shared Jewish ancestry intermediate between Middle Eastern and European populations.BMC genetics · 2009Article
- Disparities in allele frequencies and population differentiation for 101 disease-associated single nucleotide polymorphisms between Puerto Ricans and non-Hispanic whites.BMC genetics · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
19 authors at 7 institutions in 2 countries.
Funding
Abstract
backgroundGenetic isolates such as the Ashkenazi Jews (AJ) potentially offer advantages in mapping novel loci in whole genome disease association studies. To analyze patterns of genetic variation in AJ, genotypes of 101 healthy individuals were determined using the Affymetrix EAv3 500 K SNP array and compared to 60 CEPH-derived HapMap (CEU) individuals. 435,632 SNPs overlapped and met annotation criteria in the two groups.
resultsA small but significant global difference in allele frequencies between AJ and CEU was demonstrated by a mean FST of 0.009 (P < 0.001); large regions that differed were found on chromosomes 2 and 6. Haplotype blocks inferred from pairwise linkage disequilibrium (LD) statistics (Haploview) as well as by expectation-maximization haplotype phase inference (HAP) showed a greater number of haplotype blocks in AJ compared to CEU by Haploview (50,397 vs. 44,169) or by HAP (59,269 vs. 54,457). Average haplotype blocks were smaller in AJ compared to CEU (e.g., 36.8 kb vs. 40.5 kb HAP). Analysis of global patterns of local LD decay for closely-spaced SNPs in CEU demonstrated more LD, while for SNPs further apart, LD was slightly greater in the AJ. A likelihood ratio approach showed that runs of homozygous SNPs were approximately 20% longer in AJ. A principal components analysis was sufficient to completely resolve the CEU from the AJ.
conclusionLD in the AJ versus was lower than expected by some measures and higher by others. Any putative advantage in whole genome association mapping using the AJ population will be highly dependent on regional LD structure.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.