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View article: PRIVET: Privacy Metric Based on Extreme Value Theory
PRIVET: Privacy Metric Based on Extreme Value Theory Open
Deep generative models are often trained on sensitive data, such as genetic sequences, health data, or more broadly, any copyrighted, licensed or protected content. This raises critical concerns around privacy-preserving synthetic data, an…
View article: Diffusion-based artificial genomes and their usefulness for local ancestry inference
Diffusion-based artificial genomes and their usefulness for local ancestry inference Open
The creation of synthetic data through generative modeling has emerged as a significant area of research in genomics, offering versatile applications from tailoring functional sequences with specific attributes to generating high-quality, …
View article: Latent generative modeling of long genetic sequences with GANs
Latent generative modeling of long genetic sequences with GANs Open
Synthetic data generation via generative modeling has recently become a prominent research field in genomics, with applications ranging from functional sequence design to high-quality, privacy-preserving artificial in silico genomes. Follo…
View article: Interpreting artificial neural networks to detect genome-wide association signals for complex traits
Interpreting artificial neural networks to detect genome-wide association signals for complex traits Open
Investigating the genetic architecture of complex diseases is challenging due to the multifactorial and interactive landscape of genomic and environmental influences. Although genome-wide association studies (GWAS) have identified thousand…
View article: Towards creating longer genetic sequences with GANs: Generation in principal component space
Towards creating longer genetic sequences with GANs: Generation in principal component space Open
International audience
View article: Deep convolutional and conditional neural networks for large-scale genomic data generation
Deep convolutional and conditional neural networks for large-scale genomic data generation Open
Applications of generative models for genomic data have gained significant momentum in the past few years, with scopes ranging from data characterization to generation of genomic segments and functional sequences. In our previous study, we…
View article: An Overview of Deep Generative Models in Functional and Evolutionary Genomics
An Overview of Deep Generative Models in Functional and Evolutionary Genomics Open
Following the widespread use of deep learning for genomics, deep generative modeling is also becoming a viable methodology for the broad field. Deep generative models (DGMs) can learn the complex structure of genomic data and allow researc…
View article: Deep convolutional and conditional neural networks for large-scale genomic data generation
Deep convolutional and conditional neural networks for large-scale genomic data generation Open
Applications of generative models for genomic data have gained significant momentum in the past few years, with scopes ranging from data characterization to generation of genomic segments and functional sequences. In our previous study, we…
View article: Improving Selection Detection with Population Branch Statistic on Admixed Populations
Improving Selection Detection with Population Branch Statistic on Admixed Populations Open
Detecting natural selection signals in admixed populations can be problematic since the source of the signal typically dates back prior to the admixture event. On one hand, it is now possible to study various source populations before a pa…
View article: A Chromosome-Painting-Based Pipeline to Infer Local Ancestry under Limited Source Availability
A Chromosome-Painting-Based Pipeline to Infer Local Ancestry under Limited Source Availability Open
Contemporary individuals are the combination of genetic fragments inherited from ancestors belonging to multiple populations, as the result of migration and admixture. Isolating and characterizing these layers are crucial to the understand…
View article: Creating artificial human genomes using generative neural networks
Creating artificial human genomes using generative neural networks Open
Generative models have shown breakthroughs in a wide spectrum of domains due to recent advancements in machine learning algorithms and increased computational power. Despite these impressive achievements, the ability of generative models t…
View article: Revisiting the Out of Africa event with a novel Deep Learning approach
Revisiting the Out of Africa event with a novel Deep Learning approach Open
Anatomically modern humans evolved around 300 thousand years ago in Africa 1 . Modern humans started to appear in the fossil record outside of Africa about 100 thousand years ago though other hominins existed throughout Eurasia much earlie…
View article: Impact of biased sex ratio on the genetic diversity, structure, and differentiation of <i>Populus nigra</i> (European black poplar)
Impact of biased sex ratio on the genetic diversity, structure, and differentiation of <i>Populus nigra</i> (European black poplar) Open
Effective population size is a crucial concept of conservation biology. It is reduced by biased sex ratio, consequently causing loss of genetic variation. To evaluate genetic diversity related to gender, and investigate the possible effect…
View article: Creating Artificial Human Genomes Using Generative Models
Creating Artificial Human Genomes Using Generative Models Open
Generative models have shown breakthroughs in a wide spectrum of domains due to recent advancements in machine learning algorithms and increased computational power. Despite these impressive achievements, the ability of generative models t…
View article: Ancestry-Specific Analyses Reveal Differential Demographic Histories and Opposite Selective Pressures in Modern South Asian Populations
Ancestry-Specific Analyses Reveal Differential Demographic Histories and Opposite Selective Pressures in Modern South Asian Populations Open
Genetic variation in contemporary South Asian populations follows a northwest to southeast decreasing cline of shared West Eurasian ancestry. A growing body of ancient DNA evidence is being used to build increasingly more realistic models …