CLIP Genomics ****************************************************************************************** * Childhood Leukaemia Investigation Prague ****************************************************************************************** # Genomics # Immunodeficiency, cytometry # Bioinformatics # Leukemia # CLIP ****************************************************************************************** * Offer ****************************************************************************************** *========================================================================================= * NGS Data Analysis Service *========================================================================================= - We offer bioinformatic analysis of next generation sequencing data from all current NGS - Amplicon/exome sequencing – variant analysis - DNA sequencing of selected parts of the genome (amplicons) or all exons of protein-codin - Transcriptome sequencing (mRNA-Seq) for gene expression analysis - Methylome sequencing (RRBS) of GpG-rich areas and their neighbourhood for the assessment methylation - Chromatin immunoprecipitation sequencing (ChIP-Seq) – for the DNA-protein analysis *========================================================================================= * NGS Data Analysis Courses *========================================================================================= We organize regular NGS data analysis courses for both academy and industry participants c process including data interpretation. ****************************************************************************************** * Know-how & Technologies ****************************************************************************************** - Our working group has an adequate hardware for the analysis of large-scale NGS data. - Our specialists have both mathematical and biological education which ensures a comprehe the results. - The group has a broad expertise in the diagnostics and research of childhood hematologic bone marrow failure syndromes and immunodeficiencies. - The strongest part of the group is a tight connection to the clinical department resulti application of developed methods into the diagnostic and treatment algorithms (e.g. the mi disease (MRD) monitoring or flow cytometry diagnostics). - Our bioinformatics team develops and maintains data analysis pipelines for various appli "From your primary data we will create well-ordered and easily accessible results." ****************************************************************************************** * Research Area & Excellence ****************************************************************************************** The CLIP Genomics is a part of Childhood Leukaemia Investigation Prague (CLIP), which has in 1996 to promote the research and diagnostics of childhood leukaemia in the Czech Republ Genomics group was formed in 2013 in response to the rapid development of high-throughput mainly the next generation sequencing (NGS) technologies. - We have a broad expertise in various high-throughput methods, including whole-exome, tra amplicon or methylome NGS and whole-genome SNP analysis. - We analyse leukaemia samples in treatment-refractory patients to discover actionable tar personalised therapy. - We also use NGS to discover underlying mutations in patients with immunodeficiencies, au bone marrow failure syndromes. - The crucial part of all high-throughput methods is the bioinformatics analysis. ****************************************************************************************** * Team Members ****************************************************************************************** - Mgr. Alena Dobiášová - Mgr. Karel Fišer, Ph.D. - MUDr. Eva Froňková, Ph.D. - MUDr. Michaela Kotrová - MUDr. Markéta Kubričanová-Žaliová, Ph.D. - Mgr. Martina Slámová - Mgr. Jan Stuchlý - prof. MUDr. Jan Trka, Ph.D ****************************************************************************************** * Key Research Equipment ****************************************************************************************** We have a high-throughput NextSeq500 (Illumina) sequencer for large-scale projects and a d Torrent PGM (Thermo Fisher) machine for projects analysing amplicon sequencing for mutatio analysis in cancer. ****************************************************************************************** * Achievements ****************************************************************************************** - Publications in peer-reviewed and high-impact journals (Blood, Leukaemia, Journal of Cli Haematologica, Journal of Immunology etc.). - Results are regularly presented as lectures on leading conferences in the field American Haematology meeting, European Haematology Association meeting. - We are members of the Euroclonality-NGS Consortium which cooperates in the development o for antigen receptor repertoire analysis and minimal residual disease detection in lymphop disorders. - We are also members of International Berlin-Frankfurt-Münster Group, leading community i acute lymphoblastic leukaemia treatment. "We facilitate the direct transfer of new technologies into the diagnostic and stratificat childhood all." ****************************************************************************************** * Are you interested in this expertise? ****************************************************************************************** Please contact CPPT UK Web: www.cppt.cuni.cz/ [ URL "https://cppt.cuni.cz/"] Mail: transfer@cuni.cz Phone: +420 224 491 255 ****************************************************************************************** * Experts and their Department ****************************************************************************************** Prof. MUDr. Jan Trka, Ph.D Department of Paediatric Haematology and Oncology ****************************************************************************************** * Klíčová slova ****************************************************************************************** # Genomika # Immunodeficience, cytometrie # Bioinformatika # Leukemie # CLIP