
Genomeast
GenomEast
PLATFORM LEADER
With over 20 years of experience, we offer a wide range of services to explore genomes, their expression and regulation, from quality control of starting samples to data analysis. These services are intended for the entire scientific community, national and international, public and private.
The platform is a member of the central core of the France Genomics National Research Infrastructure
The platform is IBISA certified.
Currently equipped with an Illumina NextSeq 2000 and a MGI DNBSEQ-G400 sequencers, we are carrying out projects to analyse :
of the transcriptome :
- RNA-seq
- Single cell RNA-seq (scRNA-seq)
- Spatial transcriptomics
of the epigenome :
- ChIP-seq
- Cut & Run
- MeDIP-seq
- We also have experience in sequencing your ATAC-seq or Cut & Tag libraries
of the genome :
- Targeted regions of the genome (exome, regions of interest)
- Full genome sequencing
multiomics :
- Single Cell Multiome ATAC + Gene Expression
For these projects, we prepare and sequence your libraries, performing quality controls at each step. We can also perform the bioinformatics analysis of your data. We have expertise in a wide variety of applications and have developed dedicated bioinformatics pipelines to analyze the corresponding results.
Alternatively, you can use our sequencing capabilityto sequence your own libraries as long as they are compatible with Illumina technology.
How to submit a project to GenomEast?
Via our web interface
All our services are governed by the general terms and conditions of sale, which take precedence over any conditions of purchase, unless otherwise agreed in writing by us. You can also consult our Data Management Plan.
We regularly share our knowledge and expertise through various courses and training sessions, including:
- The "High Throughput Approaches" course at the Ecole Supérieure de Biotechnologie de Strasbourg (ESBS)
- The "Omics 2" course of the Master 2 Biology-Health, Biomedicine Research course at the University of Strasbourg
- The PhD Program of the IMCBio University Research School in Strasbourg
- The DU "High-throughput sequencing and rare diseases" at the University of Dijon
- The AVIESAN IFB Inserm bioinformatics school
- The organisation of training courses in bioinformatics for high-throughput sequencing with Inserm and the CNRS
Other equipments:
- High-throughput sequencing: iSeq100 (Illumina)
- High-throughput nanofluidics: Chromium Controller (10X Genomics)
- Spatial transcriptomics: GeoMx Digital Spatial Profiler (NanoString)
- Quality control : Varioskan Flash Reader and Qubit Fluorometer (Thermo Fisher), 2100 Bioanalyzer and AATI Fragment Analyzer (Agilent)
- Sonicator : E220 AFA system (Covaris)
- IT Infrastructure : computing power (Dell): 304 cores, storage (Lenovo, GPFS): 750 TB
France Génomique
Our platform has been a partner of the France Genomics network since the initial selection of the project within the framework of the "Investissements d'avenir" in 2011. This network brings together and shares the resources of the main French genomics and bioinformatics platforms.
Fondation maladies rares
Since 2011, we have been one of the partner platforms of the Fondation maladies rares for the implementation of the "GenOmics: high throughput sequencing & rare diseases" programme, which aims to unravel the genetic and molecular basis of rare diseases using high throughput sequencing.
IBiSA and CoRTecS
Since 2008, we have been part of the national network of platforms and resource centers in biology, health, and agronomy of the GIS IBiSA, and since 2021, part of the regional CoRTecS network, which brings together the scientific research and service platforms of the University of Strasbourg.
New applications and technologies
Over the past years, we have gained a strong expertise in single-cell sequencing technologies (Research Expertise 2021 prize from the University of Strasbourg). We further implement new applications each year. At the same time, we are implementing two complementary technologies dedicated to spatial transcriptomics: Visium (10X Genomics) and GeoMx (NanoString).
Publications
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2024
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The AMPK-related kinase NUAK1 controls cortical axons branching by locally modulating mitochondrial metabolic functions
- Marine Lanfranchi
- Sozerko Yandiev
- Géraldine Meyer-Dilhet
- Salma Ellouze
- Martijn Kerkhofs
- Raphael dos Reis
- Audrey Garcia
- Camille Blondet
- Alizée Amar
- Anita Kneppers
- Hélène Polvèche
- Damien Plassard
- Marc Foretz
- Benoit Viollet
- Kei Sakamoto
- Rémi Mounier
- Cyril F Bourgeois
- Olivier Raineteau
- Evelyne Goillot
- Julien Courchet
Nature Communications ; Volume: 15 ; Page: 2487
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Protein aggregates containing wild-type and mutant NOTCH3 are major drivers of arterial pathology in CADASIL Authors
- Nicolas Dupré
- Florian Gueniot
- Valérie Domenga-Denier
- Virginie Dubosclard
- Christelle Nilles
- David Hill-Eubanks
- Christelle Morgenthaler-Roth
- Mark Nelson
- Céline Keime
- Lydia Danglot
- Anne Joutel
The Journal of clinical investigation
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Inhibition of topoisomerase 2 catalytic activity impacts the integrity of heterochromatin and repetitive DNA and leads to interlinks between clustered repeats
- Michalis Amoiridis
- John Verigos
- Karen Meaburn
- William H Gittens
- Tao Ye
- Matthew J Neale
- Evi Soutoglou
Nature Communications ; Volume: 15 ; Page: 5727
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2023
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Immune response of BV-2 microglial cells is impacted by peroxisomal beta-oxidation
- Ali Tawbeh
- Quentin Raas
- Mounia Tahri-Joutey
- Céline Keime
- Romain Kaiser
- Doriane Trompier
- Boubker Nasser
- Emma Bellanger
- Marie Dessard
- Yannick Hamon
- Alexandre Benani
- Francesca Di Cara
- Tânia Cunha Alves
- Johannes Berger
- Isabelle Weinhofer
- Stéphane Mandard
- Mustapha Cherkaoui-Malki
- Pierre Andreoletti
- Catherine Gondcaille
- Stéphane Savary
Frontiers in Molecular Neuroscience ; Volume: 16 ; Page: 1299314
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MBD4 loss results in global reactivation of promoters and retroelements with low methylated CpG density
- Christophe Papin
- Abdulkhaleg Ibrahim
- Jamal Sabir
- Stéphanie Le Gras
- Isabelle Stoll
- Raed Albiheyri
- Ali Zari
- Ahmed Bahieldin
- Alfonso Bellacosa
- Christian Bronner
- Ali Hamiche
Journal of experimental & clinical cancer research ; Volume: 42 ; Page: 301
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Molecular consequences of PQBP1 deficiency, involved in the X-linked Renpenning syndrome
- Jérémie Courraud
- Camille Engel
- Angélique Quartier
- Nathalie Drouot
- Ursula Houessou
- Damien Plassard
- Arthur Sorlin
- Elise Brischoux-Boucher
- Evan Gouy
- Lionel Van Maldergem
- Massimiliano Rossi
- Gaetan Lesca
- Patrick Edery
- Audrey Putoux
- Frederic Bilan
- Brigitte Gilbert-Dussardier
- Isis Atallah
- Vera M. Kalscheuer
- Jean-Louis Mandel
- Amélie Piton
Molecular Psychiatry
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Super-enhancer-driven expression of BAHCC1 promotes melanoma cell proliferation and genome stability
- Pietro Berico
- Maguelone Nogaret
- Max Cigrang
- Antonin Lallement
- Fatemeh Vand-Rajabpour
- Amanda Flores-Yanke
- Giovanni Gambi
- Guillaume Davidson
- Leane Seno
- Julian Obid
- Bujamin Vokshi
- Stephanie Le Gras
- Gabrielle Mengus
- Tao Ye
- Carlos Fernandez Cordero
- Mélanie Dalmasso
- Emmanuel Compe
- Corine Bertolotto
- Eva Hernando
- Irwin Davidson
- ...
Cell Reports ; Volume: 42 ; Page: 113363
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Dihydrofolate reductase activity controls neurogenic transitions in the developing neocortex
- Sulov Saha
- Thomas Jungas
- David Ohayon
- Christophe Audouard
- Tao Ye
- Mohamad-Ali Fawal
- Alice Davy
Development (Cambridge, England) ; Volume: 150 ; Page: dev201696
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Mesenchymal-like Tumor Cells and Myofibroblastic Cancer-Associated Fibroblasts Are Associated with Progression and Immunotherapy Response of Clear Cell Renal Cell Carcinoma
- Guillaume Davidson
- Alexandra Helleux
- Yann Vano
- Veronique Lindner
- Antonin Fattori
- Marie Cerciat
- Reza T. Elaidi
- Virginie Verkarre
- Cheng-Ming Sun
- Christine Chevreau
- Mostefa Bennamoun
- Hervé Lang
- Thibault Tricard
- Wolf H. Fridman
- Catherine Sautes-Fridman
- Xiaoping Su
- Damien Plassard
- Céline Keime
- Christelle Thibault-Carpentier
- Philippe Barthelemy
- ...
Cancer Research ; Volume: 83 ; Page: 2952-2969
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Mutant FUS induces chromatin reorganization in the hippocampus and alters memory processes
- Laura Tzeplaeff
- Jonathan Seguin
- Stéphanie Le Gras
- Salim Megat
- Brigitte Cosquer
- Damien Plassard
- Stéphane Dieterlé
- Isabel Paiva
- Gina Picchiarelli
- Charles Decraene
- Rafael Alcalá-Vida
- Jean-Christophe Cassel
- Karine Merienne
- Luc Dupuis
- Anne-Laurence Boutillier
Progress in Neurobiology ; Volume: 227 ; Page: 102483
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