Epigenomics Profiling Services

Chromatin analysis ChIP-seq analysis: histone modifications or transcription factors Chromatin accessibility analysis (ATAC-seq) Single cell chromatin accessibility analysis (scATAC-seq)

DNA methylation analysis Methylation arrays (human and mouse) Reduced representation bisulfite sequencing (RRBS) Whole genome bisulfite sequencing (WGBS) Targeted methylation analysis MeDIP-seq/hMeDIP-seq analysis

RNA-seq analysis Whole transcriptome analysis (total RNA-seq) Messenger RNA analysis (mRNA-seq) Small non-coding RNA analysis (sncRNA-seq)

Bioinformatics analysis Standard analysis: read filtering, trimming, mapping and peak/methylation calling Advanced analysis: differential analysis, gene ontology and pathway enrichment Integrative analysis and linear regression Data mining and machine learning

Consulting with our experts Complete end-to-end customized service Dedicated team provides high touch communication Expertise and proven record with challenging samples Techniques Standard analysis Advanced analysis

 Differenrantial binding analysis (affinity and occupancy analysis)  ChIP-seq  Read filtering and trimming  Genomic annotation  Histone modifications  Read mapping to the genome  Gene ontology  Transcription factors  Peak calling  Pathway enrichment

 Specific genomic region visualization

 Differential accessibility analysis  Read filtering and trimming  Genomic annotation  Read mapping to the genome  ATAC-seq  Motif recognition  Identification of open  Gene ontology chromatin regions  Pathway enrichment

Chromatin analysis  Debarcoding  Cell clustering  Read mapping to the genome  Differential accessibility analysis  scATAC-seq  Bead filtration and deconvolution  Gene ontology  Identification of open chromatin regions  Pathway enrichment  Cells by peaks count matrix

 Raw β- values • Methylation arrays  Data normalization  Differential methylation analysis • Human and mouse  Probe filtering (probes) • 5mC and 5hmC analysis  Background correction

 Differential methylation analysis (CpGs and regions)  Read filtering and trimming  RRBS  Clustering analysis  Read mapping to the genome  WGBS  Genomic annotation  Methylation calling  Gene ontology  Pathway enrichment

 Read filtering and trimming • Targeted analysis  Read mapping to the genome  Differential methylation analysis  Methylation calling

DNA methylation analysis  Differential methylation or  Read filtering and trimming hydroxymethylation analysis (CpGs and regions)  Read mapping to the genome  MeDIP-seq/hMeDIP-seq  Genomic annotation  Methylation or hydroxymethylation  Gene ontology calling  Pathway enrichment  Specific genomic region visualization

 Read filtering and trimming  Differential expression analysis •  Read mapping to the genome  Gene ontology Total RNA-seq • mRNA-seq or transcriptome  Pathway enrichment

• sncRNA-seq  Gene and transcript  Alterntive splicing analysis quantification  Novel transcript identification RNA analysis

 Read filtering and trimming • Comparative analysis • Integrative analysis  Read mapping to the genome • Genomic annotation • Integration of two sets of omics data and linear regression or transcriptome  Outcome of interest • Gene ontology

• Feasibility study • Data mining and machine learning • Reporting • Training and testing • Probabilistic modelling • Model validation Bioinformatics • Data mining analysis • Deep learning approaches • Scientific support • Result interpretation

www.diagenode.com Please contact us for more information Europe Diagenode sa / LIEGE SCIENCE PARK // Rue Bois Saint-Jean, 3 // 4102 Seraing (Ougrée) // Belgium // Phone: (+32) 4 364 20 50 // E-mail: [email protected]

USA Diagenode Inc. / 400 Morris Avenue, Suite 101 // Denville, NJ 07834 // USA // Phone: (+1) 862 209-4680 // E-mail: [email protected] F-services_flyer-V2-10_18