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.
library preparation methylation epigenetics illumina CpG WGBS EM-seqA method to identify open chromatin regions, such as promotor areas, using a transposase.
ATACseq ATAC-seq Omni-ATAC TN5 ATAC open chromatin epigenetics illuminaProfiling of chromatin accessibility at the single cell level.
library preparation epigenetics single cell illumina ATAC-seq dna chromium chromatin 10x Genomics ATACProfiling of 3´gene expression and chromatin accessibility in the same cell.
illumina ATAC-seq RNA-Seq ATAC chromium library preparation 10x Genomics transcriptomics single cell RNA mRNAA proximity-ligation protocol using a sequence-independent endonuclease, generating data for TAD identification and scaffolding.
TADs illumina de novo chromatin scaffolding library preparation epigeneticsSPLAT is an in-house developed WGBS library preparation method. This approach enables quick and efficient preparation of WGBS libraries from low-input DNA
single-stranded DNA ssDNA library preparation methylation epigenetics illumina CpG WGBS BisulphiteLibrary 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.
WGS dna library preparation genome illuminaNanopore 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.
smrt assembly pacbio methylation amplicon hifi de novo iso seq sv reviomiRNA libraries from very low input total RNA samples & degraded total RNA.
illumina library preparation epigenetics RNAThe EPIC BeadChip array allows for the interrogation over 935,000 methylation sites quantitatively across the genome at single-nucleotide resolution.
dna array infinium CpG methylation epigenetics illuminaBioinformatic analysis pipeline for ATAC-seq data
ATACseq ATAC-seq chromatin open chromatinRuns 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 BisulfiteRuns with ChIP sequencing data. Pre-processes raw data from FastQ inputs, aligns the reads and performs peak calling and extensive quality-control on the results.
chipseq ChIP-SeqBasic quality-control monitoring of Illumina FastQ sequence data.
QC fastqc fastq screen checkqc