Methods to characterise genetic or transcriptomic differences other than the nucleotide composition, e.g. 3D conformation of chromatin or levels of methylation and other DNA/RNA base modifications.
NEBNext EM-Seq kit is an alternative to whole-genome bisulfite sequencing (WGBS). The enzymatic conversion of unmethylated cytosines in EM-seq is more gentle to DNA than WGBS and results in libraries with more even genome coverage and better coverage of CpG sites across the genome.
methylation epigenetics illumina CpG WGBS EM-seq library preparationA method to identify open chromatin regions, such as promotor areas, using a transposase.
ATAC open chromatin epigenetics illumina ATACseq ATAC-seq Omni-ATAC TN5Profiling of chromatin accessibility at the single cell level.
ATAC-seq dna chromium chromatin 10x Genomics ATAC library preparation epigenetics single cell illuminaProfiling of 3´gene expression and chromatin accessibility in the same cell.
transcriptomics single cell RNA mRNA illumina ATAC-seq RNA-Seq ATAC chromium library preparation 10x GenomicsA proximity-ligation protocol using a sequence-independent endonuclease, generating data for TAD identification and scaffolding.
chromatin scaffolding library preparation epigenetics TADs illumina de novoSPLAT is an in-house developed WGBS library preparation method. This approach enables quick and efficient preparation of WGBS libraries from low-input DNA
library preparation methylation epigenetics illumina CpG WGBS Bisulphite single-stranded DNA ssDNAAnalysis of multiple validated epigenetic marks simultaneously in a single workflow.
library preparation methylation epigenetics illumina dna histone ChIP modificationLibrary preparation for DNA, ideal for preparing libraries from small amounts of input material. Works well for shotgun libraries, ChIP DNA and FFPE samples, amongst others.
dna library preparation genome illumina WGSNanopore instruments can sequence very long continuous fragments of DNA. Sequencing native DNA allows detection of base modifications.
assembly long-read nanoporePacBio SMRT sequencing generates reads tens of kilobases in length enabling high quality genome assembly, structural variant analysis, amplicon resequencing, full-length transcript isoform sequencing, full-length 16S rRNA sequencing and amplification free epigenetic characterization.
hifi de novo iso seq sv revio smrt assembly pacbio methylation ampliconThe EPIC BeadChip array allows for the interrogation over 935,000 methylation sites quantitatively across the genome at single-nucleotide resolution.
methylation epigenetics illumina dna array infinium CpGBioinformatic analysis pipeline for ATAC-seq data
chromatin open chromatin ATACseq ATAC-seqRuns with methylation sequencing data. It pre-processes raw data from FastQ inputs, aligns the reads and performs extensive quality-control on the results, using either Bismark or bwa-meth/MethylDackel.
methylseq Methyl-Seq BS BisulfiteBasic quality-control monitoring of Illumina FastQ sequence data.
fastq screen checkqc QC fastqc