
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
- small 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.
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.
CORTECS
Starting 2021, we belong to the CORTECS network, which groups together the Scientific Research and Services Platforms of the University of Strasbourg in partnership with SATT Conectus Alsace and the services of the CNRS and INSERM.
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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2021
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Ultrasound and Transcriptomics Identify a Differential Impact of Cisplatin and Histone Deacetylation on Tumor Structure and Microenvironment in a Patient-Derived In Vivo Model of Gastric Cancer
- Aina Venkatasamy
- Eric Guerin
- Anais Blanchet
- Christophe Orvain
- Véronique Devignot
- Matthieu Jung
- Alain C. Jung
- Marie-Pierre Chenard
- Benoit Romain
- Christian Gaiddon
- Georg Mellitzer
MDPI AG ; Volume: 13 ; Page: 1485
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Sequential actions of EOMES and T-BET promote stepwise maturation of natural killer cells
- Jiang Zhang
- Stéphanie Le Gras
- Kevin Pouxvielh
- Fabrice Faure
- Lucie Fallone
- Nicolas Kern
- Marion Moreews
- Anne-Laure Mathieu
- Raphaël Schneider
- Quentin Marliac
- Mathieu Jung
- Aurore Berton
- Simon Hayek
- Pierre-Olivier Vidalain
- Antoine Marçais
- Garvin Dodard
- Anne Dejean
- Laurent Brossay
- Yad Ghavi-Helm
- Thierry Walzer
Nature Communications ; Volume: 12 ; Page: 5446
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CDK7 and MITF repress a transcription program involved in survival and drug tolerance in melanoma
- Pietro Berico
- Max Cigrang
- Guillaume Davidson
- Cathy Braun
- Jeremy Sandoz
- Stephanie Legras
- Bujamin Hektor Vokshi
- Nevena Slovic
- François Peyresaubes
- Carlos Mario Gene Robles
- Jean‐marc Egly
- Emmanuel Compe
- Irwin Davidson
- Frédéric Coin
EMBO Reports ; Volume: 22 ; Page: e51683
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Ultrasound and Transcriptomics Identify a Differential Impact of Cisplatin and Histone Deacetylation on Tumor Structure and Microenvironment in a Patient-Derived In Vivo Model of Gastric Cancer
- Aina Venkatasamy
- Eric Guerin
- Anais Blanchet
- Christophe Orvain
- Véronique Devignot
- Matthieu Jung
- Alain Jung
- Marie-Pierre Chenard
- Benoit Romain
- Christian Gaiddon
- Georg Mellitzer
Pharmaceutics ; Volume: 13 ; Page: 1485
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Adhesion receptor ADGRG2/GPR64 is in the GI-tract selectively expressed in mature intestinal tuft cells
- Kaare V. Grunddal
- Sarah Tonack
- Kristoffer L. Egerod
- Jonanthan James Thompson
- Natalia Petersen
- Maja S. Engelstoft
- Constance Vagne
- Céline Keime
- Gerard Gradwohl
- Stefan Offermanns
- Thue W. Schwartz
Molecular metabolism ; Volume: 51
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Photoreceptor cKO of OTX2 Enhances OTX2 Intercellular Transfer in the Retina and Causes Photophobia
- Pasquale Pensieri
- Annabelle Mantilleri
- Damien Plassard
- Takahisa Furukawa
- Kenneth L Moya
- Alain Prochiantz
- Thomas Lamonerie
eNeuro ; Volume: 8 ; Page: 1-22
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The related coactivator complexes SAGA and ATAC control embryonic stem cell self-renewal through acetyltransferase-independent mechanisms
- Veronique Fischer
- Damien Plassard
- Tao Ye
- Bernardo Reina-San-Martin
- Matthieu Stierle
- Laszlo Tora
- Didier Devys
Cell Reports ; Volume: 36
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Single-cell analyses unravel cell type–specific responses to a vitamin D analog in prostatic precancerous lesions
- Mohamed Abu El Maaty
- Elise Grelet
- Céline Keime
- Anna-Isavella Rerra
- Justine Gantzer
- Camille Emprou
- Julie Terzic
- Régis Lutzing
- Jean-Marc Bornert
- Gilles Laverny
- Daniel Metzger
Science Advances ; Volume: 7
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MeCP2 is a microsatellite binding protein that protects CA repeats from nucleosome invasion
- Abdulkhaleg Ibrahim
- Christophe Papin
- Kareem Mohideen-Abdul
- Stéphanie Le Gras
- Isabelle Stoll
- Christian Bronner
- Stefan Dimitrov
- Bruno Klaholz
- Ali Hamiche
Science ; Volume: 372
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SCA7 Mouse Cerebellar Pathology Reveals Preferential Downregulation of Key Purkinje Cell-Identity Genes and Shared Disease Signature with SCA1 and SCA2
- Anna Niewiadomska-Cimicka
- Frédéric Doussau
- Jean-Baptiste Perot
- Michel Roux
- Celine Keime
- Antoine Hache
- Françoise Piguet
- Ariana Novati
- Chantal Weber
- Binnaz Yalcin
- Hamid Meziane
- Marie-France Champy
- Erwan Grandgirard
- Alice Karam
- Nadia Messaddeq
- Aurélie Eisenmann
- Emmanuel Brouillet
- Hoa Huu Phuc Nguyen
- Julien Flament
- Philippe Isope
- ...
Journal of Neuroscience ; Volume: 41 ; Page: 4910-4936
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