Archive for the 'SciLit' Category

Lattice protein folding with QAnnealing

April 13, 2023

Fast and accurate Bayesian polygenic risk modeling with variational inference: The American Journal of Human Genetics

April 13, 2023

Quantitative GWAS & QTL studies

February 25, 2023

Published: 25 January 2023

Molecular quantitative trait loci

François Aguet, Kaur Alasoo, Yang I. Li, Alexis Battle, Hae Kyung Im, Stephen B. Montgomery & Tuuli Lappalainen

Nature Reviews Methods Primers volume 3, Article number: 4 (2023)

Related to the discussion about quantitative GWAS and QTL, this primer review (and in particular box 1) is helpful in clarifying the (non) difference between the two types of studies:

The statistics behind quantitative GWAS and QTL studies is the same, the only main difference might be the multiple testing correction procedure.
In general, it’s more a nomenclature distinction, as the term “QTL” is often used specifically for molecular traits.

BioGPT: generative pre-trained transformer for biomedical text generation and mining | Briefings in Bioinformatics | Oxford Academic

February 22, 2023

Gencode De novo birth of functional microproteins in the human lineage: Cell Reports

December 21, 2022

APOE4 impairs myelination via cholesterol dysregulation in oligodendrocytes | Nature

December 9, 2022

Genetics goes to Hollywood | Nature Genetics

November 25, 2022

Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution – ScienceDirect

November 25, 2022

Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution
Author links open overlay panelCharles A.Herring1210Rebecca
B.Vargas-Landin12OlivierClément12Enrique GoñiEcheverría1Gavin J.Sutton3AlbaAlvarez-Franco4RuiHou1ChristianPflueger12KerrieMcDonald5Jose M.Polo67Alistair R.R.Forrest1Anna K.Nowak8…RyanLister1211

VOC(volatile organic compounds) in mask

November 20, 2022

Interesting article that implies one should “air out” a mask prior to wearing it (to get rid of toxic VOCs). For an N95, this requires 6 hrs.

Highly Time-Resolved and Nontargeted Characterization of Volatile Organic Compound Emissions from Face Masks

voc emission from a mask:

Uncovering motif interactions from convolutional-attention networks for genomics

November 20, 2022

An interesting work that improves the interpretability of TF binding predictors with minimal network design.