Laboratory of Bioinformatics Analyses for Genomics and Metabolism
Two unrelated bugs have recently been fixed concerning BLAST results. The first was missing results in some workflows (e.g. Virulome). This concerned very few results when identical HSPs were detected. The second one affected the output of the BLAST search
The v3.14.1 of the platform is now deployed: The features (starts, compositional features) and experimental data (gene essentiality, SNP, In/Dels, etc.) of a Genomic Object are now presented in a dedicated section in the Gene Annotation window (instead of being
The v3.14.0 of the platform is now deployed: The main new functionality is the that the request to update your genomes, previously transmitted by email, can now be made online via the Delivery of Service Management page in your user
The v3.13.5 of the platform is now deployed. As announced the new address of MicroScope is now https://mage.genoscope.cns.fr. The main changes are: More characters are allowed in the gene annotation page and invalid characters are better detected before validation. The
Dear MicroScope users, For technical reasons, we will soon change the address used to access MicroScope from your web browser: the current address will be replaced by https://mage.genoscope.cns.fr/microscope on Wednesday February 26th at 2:00PM CEST. At this date, the current
We are pleased to inform you about MicroScope professional training courses in 2020. Two sessions of the «Annotation and analysis of prokaryotic genomes using the MicroScope platform» course are planned at the University of Evry.
A new MicroScope paper has just been published in the 2020 Database issue of Nucleic Acids Res. journal. This paper focuses on some major improvements since 2017.
The secondary metabolite gene cluster prediction tool antiSMASH has been updated to version 5 on the MicroScope platform. This new version includes updated and extended cluster identification profiles, and allows to detect 52 types of Biosynthetic Gene Clusters (BGCs).
CRISPR (clustered regularly interspaced short palindromic repeats) arrays and their associated (Cas) proteins confer bacteria and archaea adaptive immunity against exogenous mobile genetic elements, such as phages or plasmids. CRISPRCasFinder a program that allows the identification of both CRISPR arrays and Cas proteins has been integrated into MicroScope.
Discover the novel contextual menus added in the genome browser to ease the navigation and exploration of genomic objects or genomic regions.
Genome-resolved metagenomics have profoundly reshaped our understanding of the distribution, functionalities and roles of Archaea. Within the domain, major supergroups are Euryarchaeota, which includes many methanogens, the TACK, which includes Thaumarchaeaota that impact ammonia oxidation in soils and the ocean,
Horizontal gene transfer (HGT) is a major source of variability in prokaryotic genomes. Regions of Genome Plasticity (RGPs) are clusters of genes located in highly variable genomic regions. Most of them arise from HGT and correspond to Genomic Islands (GIs).