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Haky Im

@hakyim.bsky.social

1.4K followers 2.2K following 29 posts

Statistician doing genomic data science, faculty the University of Chicago, Korean, Argentinean, American. Love kimchi, math, science, books with beautiful prose.

Posts Replies Media

Haky Im @hakyim.bsky.social · 12/09/2025

I'm hiring a computational biologist interested in complex trait genetics using deep learning approaches. Reach out to me, if interested.

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Haky Im @hakyim.bsky.social · 14/02/2025

Need a break from doomscrolling? Do you study the genetics of disease subtypes? Have you ever wondered how to efficiently run gene-based associations with multicategorical outcomes? Join us for the IGES Journal Club on Wednesday, February 26, 2025! 11AM ET.

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Haky Im @hakyim.bsky.social · 18/10/2023

Back to the effect of precision Precision of prediction improves power, or equivalently prediction error reduces power but doesn’t increase inflation under the null

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Haky Im @hakyim.bsky.social · 18/10/2023

How well does your formula work under the alternative with finite N? Pretty well

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Haky Im @hakyim.bsky.social · 18/10/2023

What happens under the alternative? See figure for formula under the alternative τ2 is the precision of the prediction

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Haky Im @hakyim.bsky.social · 18/10/2023

Can you estimate Φ? Yes See figure: most of the Φ are around 10e-5

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Haky Im @hakyim.bsky.social · 18/10/2023

Does it matter for TWAS in practice? Yes See inflation in figure when using UK Biobank genotype data and null traits Y. It will continue growing as N grows.

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Haky Im @hakyim.bsky.social · 18/10/2023

How we does your formula match with finite N? Quite well

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Haky Im @hakyim.bsky.social · 18/10/2023

Does prediction error drive inflation? No, it’s not the prediction error See figure Eχ2 does not depend on the precision consistent with established error in variable literature It’s the polygenicity of Y since Eχ2 = 1 + N h2 Φ. The inflation is 0 when the polygenic component of Y = 0

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Haky Im @hakyim.bsky.social · 18/10/2023

Does this matter? Yes See example in figure 1, pink area is much larger than the negligible blue area in this example

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Haky Im @hakyim.bsky.social · 18/10/2023

Under the null, the Eχ2 should be 1, but it’s larger than 1 when Y is polygenic

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Haky Im @hakyim.bsky.social · 18/10/2023

Yes TWAS yields inflated p-values when the target trait is polygenic

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