Publications associées à Ensembl

Sulfurospirillum diekertiae sp. nov., a tetrachloroethene-respiring bacterium isolated from contaminated soil

Christof Holliger, Julien Maillard, Junxiong Wang

Two anaerobic, tetrachloroethene- (PCE-) respiring bacterial isolates, designated strain ACSDCE T and strain ACSTCE, were characterized using a polyphasic approach. Cells were Gram-stain-negative, motile, non-spore-forming and shared a vibrioid- to spirill ...

2023

Induction of a chromatin boundary in vivo upon insertion of a tad border

Denis Duboule, Lucille Delisle, Christopher Chase Bolt, Edgardo Rodriguez Carballo, Marie-Laure Gadolini

Author summary During development, enhancer sequences tightly regulate the spatio-temporal expression of target genes often located hundreds of kilobases away. This complex process is made possible by the folding of chromatin into domains, which are separa ...

PUBLIC LIBRARY SCIENCE2021

Metadata standards and tools in Life Sciences – an overview

Eliane Ninfa Blumer, Sitthida Samath

In 2020, EPFL Library conducted a study about Tools and Metadata Standards practice in EPFL School of Life Sciences. By standard, we mean: - terminological resources (vocabularies, terminologies, classifications, thesauri), - formats and data models / sche ...

2020

EPD in 2020: enhanced data visualization and extension to ncRNA promoters

Giovanna Ambrosini, Philipp Bucher, René Dreos, Romain Fernand Pietro Groux, Patrick Meylan

The Eukaryotic Promoter Database (EPD), available online at https://epd.epfl.ch, provides accurate transcription start site (TSS) information for promoters of 15 model organisms plus corresponding functional genomics data that can be viewed in a genome bro ...

2020

Rapid identification and interpretation of gene‐environment associations using the new R.SamBada landscape genomics pipeline

Stéphane Joost, Oliver Michele Selmoni, Estelle Rochat, Sylvie Stucki, Kevin Leempoel, Elia Vajana

Samβada is a genome‐environment association (GEA) software, designed to search for signatures of local adaptation. However, pre‐ and post‐processing of data can be labour‐intensive, preventing wider uptake of the method. We have now developed R.SamBada, an ...

2019

Predicting the Occurrence of Variants in RAG1 and RAG2

Jacques Fellay, Dylan Lawless, Flavia Aurelia Shoko Hodel

While widespread genome sequencing ushers in a new era of preventive medicine, the tools for predictive genomics are still lacking. Time and resource limitations mean that human diseases remain uncharacterized because of an inability to predict clinically ...

2019

GETPrime 2.0: gene- and transcript-specific qPCR primers for 13 species including polymorphisms

Bart Deplancke, Jacques Rougemont

GETPrime (http://bbcftools.epfl.ch/getprime) is a database with a web frontend providing geneand transcript-specific, pre-computed qPCR primer pairs. The primers have been optimized for genome-wide specificity and for allowing the selective amplification o ...

Oxford University Press2017

SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity

Giovanna Ambrosini, Philipp Bucher, Sunil Kumar

SNP2TFBS is a computational resource intended to support researchers investigating the molecular mechanisms underlying regulatory variation in the human genome. The database essentially consists of a collection of text files providing specific annotations ...

Oxford University Press2016

A privacy-preserving solution for compressed storage and selective retrieval of genomic data

Jean-Pierre Hubaux, Jacques Fellay, Zhi Ming Xu, Erman Ayday, Adam Molyneaux, Zhicong Huang, Huang Lin

In clinical genomics, the continuous evolution of bioinformatic algorithms and sequencing platforms makes it beneficial to store patients' complete aligned genomic data in addition to variant calls relative to a reference sequence. Due to the large size of ...

Cold Spring Harbor Laboratory2016

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Ensembl

Sulfurospirillum diekertiae sp. nov., a tetrachloroethene-respiring bacterium isolated from contaminated soil

Induction of a chromatin boundary in vivo upon insertion of a tad border

Metadata standards and tools in Life Sciences – an overview

EPD in 2020: enhanced data visualization and extension to ncRNA promoters

Biogeoinformatics for the management of Farm Animal Genetic Resources (FAnGR)

Rapid identification and interpretation of gene‐environment associations using the new R.SamBada landscape genomics pipeline

Predicting the Occurrence of Variants in RAG1 and RAG2

GETPrime 2.0: gene- and transcript-specific qPCR primers for 13 species including polymorphisms

SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity

A privacy-preserving solution for compressed storage and selective retrieval of genomic data

Graph Chatbot

Chattez avec Graph Search

EPD in 2020: enhanced data visualization and extension to ncRNA promoters

Induction of a chromatin boundary in vivo upon insertion of a tad border

Predicting the Occurrence of Variants in RAG1 and RAG2

SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity

Rapid identification and interpretation of gene‐environment associations using the new R.SamBada landscape genomics pipeline

Metadata standards and tools in Life Sciences – an overview

GETPrime 2.0: gene- and transcript-specific qPCR primers for 13 species including polymorphisms

Biogeoinformatics for the management of Farm Animal Genetic Resources (FAnGR)

A privacy-preserving solution for compressed storage and selective retrieval of genomic data