The largest database of trusted experimental protocols

Infinium omni 2.5 8 arrays

Manufactured by Illumina

The Infinium Omni 2.5–8 arrays are high-density genotyping arrays designed by Illumina. They provide comprehensive genome-wide coverage across multiple populations. The arrays enable researchers to perform efficient and cost-effective genome-wide association studies and other genomic research applications.

Automatically generated - may contain errors

2 protocols using infinium omni 2.5 8 arrays

1

Genomic Analysis of Peloponnese Rural Population

Check if the same lab product or an alternative is used in the 5 most similar protocols
The study has been reviewed by the Institutional Review Board of the University of Washington and the ethical committees of several provisional hospitals. We focused on the rural population. We analyzed a total of 241 samples genotyped with the Illumina Infinium Omni 2.5–8 arrays. This is a novel data set collected under the auspices of our study. Subjects were included in the study if all four grandparents originated from the same village or from villages that were <10 kilometers apart. The ages of most participants ranged between 70 and 90 years (the oldest subject was 107 years old); hence their grandparents were born between 1860 and 1880. In the 1861 census the population of Peloponnese was 578 598 individuals. At that time the economy of Peloponnese was exclusively agricultural and over 85% of the population was living in small villages and hamlets. We sampled all the districts of Peloponnese (Figure 1a and Supplementary Table 1) and also focused on two culturally distinct subpopulations, the Tsacones and the Maniots. To compare the Peloponneseans with other populations we analyzed samples from published data sets and data sets generated by our studies (Supplementary Table 2 and Supplementary Figure 1). Merging genotypes from different sources and quality control were done as described.11 (link)
+ Open protocol
+ Expand
2

Genotyping and Imputation of Non-Islet Tissue Samples

Check if the same lab product or an alternative is used in the 5 most similar protocols
Non-islet tissue was collected for seven samples during islet picking and used for genomic DNA extraction using the PureLink genomic DNA kit (Invitrogen). Genotyping was performed using Infinium Omni2.5–8 arrays (Illumina) at the UCSD Institute for Genomic Medicine. We called genotypes using GenomeStudio (v.2.0.4) with default settings. We then used PLINK [75 (link)] to filter out variants with 1) minor allele frequency (MAF) less than 0.01 in the Haplotype Reference Consortium (HRC) [76 (link)] panel r1.1 and 2) ambiguous A/T or G/C alleles with MAF greater than 0.4. For variants that passed these filters, we imputed genotypes into the HRC reference panel r1.1 using the Michigan Imputation Server with minimac4. Post imputation, we removed imputed genotypes with low imputation quality (R2 < .3).
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!