Publications related to Comparative genomics

De-anonymizing Genomic Databases Using Phenotypic Traits

Jean-Pierre Hubaux, Mathias Jacques Jean-Marc Humbert, Joachim Ludovic Hugonot, Kévin Clément Huguenin, Erman Ayday

People increasingly have their genomes sequenced and some of them share their genomic data online. They do so for various purposes, including to find relatives and to help advance genomic research. An individual's genome carries very sensitive, private inf ...

2015

Systematic Reduction of Genome Scale Metabolic Reconstructions - redGEM

Vassily Hatzimanikatis, Meriç Ataman, Georgios Fengos, Keng Cher Soh, Daniel Federico Hernandez Gardiol

Genome-scale metabolic reconstructions (GEMs) are valuable resources for understanding and redesigning cellular networks as they encapsulate all the known biochemistry of the organisms from genes to proteins to their functions. Complexity of these large me ...

2015

Insight into the evolution and origin of leprosy bacilli from the genome sequence of Mycobacterium lepromatosis

Stewart Cole, Andrej Benjak, Charlotte Avanzi, Philippe Busso, Pushpendra Singh

Mycobacterium lepromatosis is an uncultured human pathogen associated with diffuse lepromatous leprosy and a reactional state known as Lucio's phenomenon. By using deep sequencing with and without DNA enrichment, we obtained the near-complete genome sequen ...

National Academy of Sciences2015

Quantifying Genomic Privacy via Inference Attack with High-Order SNV Correlations

Jean-Pierre Hubaux, Jacques Fellay, Erman Ayday, Zhicong Huang, Sahel Shariati Samani

As genomic data becomes widely used, the problem of genomic data privacy becomes a hot interdisciplinary research topic among geneticists, bioinformaticians and security and privacy experts. Practical attacks have been identified on genomic data, and thus ...

2015

On Non-cooperative Genomic Privacy

Jean-Pierre Hubaux, Mathias Jacques Jean-Marc Humbert, Amalio Telenti, Erman Ayday

Over the last few years, the vast progress in genome sequencing has highly increased the availability of genomic data. Today, individuals can obtain their digital genomic sequences at reasonable prices from many online service providers. Individuals can st ...

2015

Interdependent Privacy Games: The Case of Genomics

Jean-Pierre Hubaux, Mathias Jacques Jean-Marc Humbert, Amalio Telenti, Erman Ayday

2015

Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load

Jacques Fellay, Amalio Telenti, Istvan Bartha

Previous genome-wide association studies (GWAS) of HIV-1-infected populations have been underpowered to detect common variants with moderate impact on disease outcome and have not assessed the phenotypic variance explained by genome-wide additive effects. ...

Natl Acad Sciences2015

Genomic diversity and Population Structure of Ugandan Taurine and Zebuine Cattle Breeds

Stéphane Joost, Sylvie Stucki, Elia Vajana, Pierre Taberlet

An extensive sampling of Ugandan cattle was carried out in the course of the European project Nextgen to identify possible associations between genotypes, livestock endemic diseases and environmental variables. As a prior to the GWAS and selection signatur ...

2015

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Comparative genomics

De-anonymizing Genomic Databases Using Phenotypic Traits

Systematic Reduction of Genome Scale Metabolic Reconstructions - redGEM

Insight into the evolution and origin of leprosy bacilli from the genome sequence of Mycobacterium lepromatosis

Quantifying Genomic Privacy via Inference Attack with High-Order SNV Correlations

On Non-cooperative Genomic Privacy

Interdependent Privacy Games: The Case of Genomics

Adaptation on a genomic scale

Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load

Very high-resolution digital elevation models for multi-scale analysis in landscape genomics (GENESCALE)

Genomic diversity and Population Structure of Ugandan Taurine and Zebuine Cattle Breeds

Graph Chatbot

Chat with Graph Search

De-anonymizing Genomic Databases Using Phenotypic Traits

Systematic Reduction of Genome Scale Metabolic Reconstructions - redGEM

Quantifying Genomic Privacy via Inference Attack with High-Order SNV Correlations

On Non-cooperative Genomic Privacy

Interdependent Privacy Games: The Case of Genomics

Adaptation on a genomic scale

Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load

Very high-resolution digital elevation models for multi-scale analysis in landscape genomics (GENESCALE)

Genomic diversity and Population Structure of Ugandan Taurine and Zebuine Cattle Breeds

Insight into the evolution and origin of leprosy bacilli from the genome sequence of Mycobacterium lepromatosis