Evidence · Replicated

What the research found

In the cited research, the C allele at rs3925584 was associated with lower serum magnesium concentrations in the studied cohorts.

TT: Higher average
CT: Middle
CC: Lower average

Slight effect

What the study found

In the study, each copy went with serum magnesium about 0.01 mmol/L lower on average.

European-ancestry adults (CHARGE discovery cohorts and four replication cohorts) · Table 2

Evidence: Genome-wide association with independent replication
Who was studied: European-ancestry discovery and replication cohorts

1000 Genomes Project

How common each genotype is

How common each genotype is in the 1000 Genomes Project, by region
Region	TTHigher average	CTMiddle	CCLower average
All regions2,504 people	54%	35%	11%
Africa661 people	87%	12%	<1%
The Americas347 people	35%	46%	18%
East Asia504 people	47%	41%	13%
Europe503 people	26%	50%	24%
South Asia489 people	56%	36%	8%

Among the 2,504 people of the 1000 Genomes Project, in five world regions. These percentages describe groups of people, never anyone’s chance of having a trait.

Ancient genomes

Through time

How often the studied letter was read in ancient people, era by era, in the region chosen.

Region

Through time: Europe
Before farmingbefore 6500 BC	56%27 of 48 copies read
First farmers6500 to 3000 BC	61%388 of 639 copies read
Bronze Age3000 to 1200 BC	56%292 of 524 copies read
Iron Age and Antiquity1200 BC to AD 600	53%382 of 719 copies read
Middle AgesAD 600 to 1500	48%236 of 495 copies read
Today1000 Genomes	49%493 of 1,006 copies

Neanderthal and Denisovan genomes

Altai Neanderthal: No copies
Vindija Neanderthal: No copies
Chagyrskaya Neanderthal: No copies
Denisovan: No copies

Neanderthals and Denisovans carried the other letter, so this letter is younger than our split with them.

For most ancient people only one of their two copies can be read, so these counts are copies read, not people. Close relatives, repeated samples and samples the archive marks as unreliable are left out. Damage in old DNA can fake this letter, so it is counted only from samples treated to remove that damage and from high-quality genomes. Ancient genomes from the Allen Ancient DNA Resource (AADR v66): 15,136 people.

rs3925584

The marker

Gene or region: DCDC5 / MPPED2 region
Marker: rs3925584
Location: Chromosome 11 · GRCh37 30,760,335 · GRCh38 30,738,788
Letters studied: C and T, with C as the studied allele

A DNA Traits report reads this marker in your raw DNA file and shows which of the three genotypes is yours, with how common it is. It counts the copies of the studied allele; it does not measure the trait itself.

Marker: DCDC5 / MPPED2 region · rs3925584
Location: Chromosome 11 · GRCh37 30,760,335 · GRCh38 30,738,788
Studied allele: C
Published statistic: beta -0.006 mmol/L per C (SE 0.001), P 5.20e-16, 0.25% of variance, discovery 15,366 plus replication 8,463 (Table 2); OR 1.18 (95% CI 1.08 to 1.29) per C for magnesium below 0.7 mmol/L (Table 3); eGFR-adjusted beta -0.006, P 6.3e-12 (Results) (Table 2)
1000 Genomes Project phase 3, people with 0, 1 and 2 copies: All regions 1343 / 875 / 286 · Africa 578 / 82 / 1 · The Americas 123 / 160 / 64 · East Asia 236 / 205 / 63 · Europe 130 / 253 / 120 · South Asia 276 / 175 / 38

See this card in the sample report

Limits

What it cannot tell you

The per-copy difference in magnesium is very small. The same marker is also linked with kidney filtration measures.

Genome-Wide Association Studies of Serum Magnesium, Potassium, and Sodium Concentrations Identify Six Loci Influencing Serum Magnesium Levels (Meyer et al., 2010)

The same topic

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