Conventional cross-linked ChIP-seq typically uses formaldehyde crosslinking and sonication, followed by immunoprecipitation, to capture protein-bound chromatin. CUT&RUN tethers a nuclease to the antibody so that only bound DNA is cleaved and released, without crosslinking. CUT&RUN generally needs far fewer cells, produces lower background, and gives sharper peaks for histone marks and transcription factors.
Epigenetics research kits for DNA methylation, histone marks, and chromatin mapping
Each area needs a different class of tools, and the right starting point for you depends on whether you need global quantification, a locus-specific profile, or a biochemical substrate for your enzyme or drug-screening work.
DNA methylation workflows span global 5-mC colorimetric quantification, bisulfite conversion for downstream PCR or whole-genome sequencing, and antibody-guided enrichment for the targeted methylation profiling you need. Histone modification assays cover residue-specific ELISA-like quantification for acetylation, methylation, and phosphorylation marks, plus the enzyme activity kits you need for HAT, HDAC, HMT, and HDM functions.
Chromatin immunoprecipitation workflows include both traditional ChIP and antibody-tethered nuclease methods such as CUT&RUN and CUT&Tag, each offering different trade-offs for your resolution, cell number, and background-noise needs. Multiplex nuclear extract arrays let you profile your transcription factor binding activities in parallel, across dozens of factors from a single preparation. For your biochemical and drug-screening applications, chemically defined recombinant nucleosomes with verified site-specific modifications serve as substrates for enzyme kinetics, inhibitor profiling, and ChIP-seq or CUT&RUN normalisation controls.
Together these platforms cover the full epigenetics workflow you need, taking you from global profiling through locus-specific sequencing to mechanistic biochemistry.
Choosing the right epigenetics tool category
- If you need to quantify global or locus-specific cytosine methylation: go to DNA Methylation Analysis. Bisulfite conversion kits, global 5-mC ELISAs, and bisulfite-seq library prep kits are there.
- If you need to measure histone modification levels or enzyme activity (HAT, HDAC, HMT): go to Histone Modification Assays. ELISA-like colorimetric and fluorometric kits quantify the most important and well-characterized H3 and H4 marks from a variety of sample types, including cells, plasma, serum, and histone extracts.
- If you are mapping protein-DNA interactions or histone marks across the genome by sequencing: go to Chromatin Immunoprecipitation (ChIP). CUT&RUN reagents, ChIP-seq library kits, and spike-in normalisation panels are there.
- If you are studying m6A or 5-mC modifications in RNA: go to RNA Methylation Analysis. Colorimetric quantification kits and MeRIP-seq library prep kits are there.
- If you need to profile or screen transcription factor binding activity from nuclear extracts: go to Transcription Factor Analysis. Multiplex plate arrays covering 16 to 96 TFs are there.
- If you need chemically defined nucleosome substrates for enzyme kinetics or drug screening: go to Recombinant Nucleosomes. A wide range of modification states, FRET substrates, and dinucleosomes are there.
- If you need to induce a specific chromatin loop to study enhancer-promoter contact: go to Chromatin Loop Formation (dCas9). Lentivector-based dCas9 dimerizer systems with small-molecule-inducible looping are there.
Applications
Developmental epigenomics
Profiling dynamic histone PTMs and DNA methylation patterns as your cells commit from pluripotency to lineage-specific fates.
Cancer biomarker discovery
Measuring global 5-methylcytosine loss and focal hypermethylation at tumour-suppressor loci in your primary tissue, cell lines, and liquid biopsy material.
Genome-wide chromatin mapping
ChIP-seq and CUT&RUN experiments map histone marks like H3K27ac, H3K4me3, H3K9me3, and transcription factor occupancy.
Epitranscriptomics
Quantifying m6A abundance in mRNA and using MeRIP-seq to identify methylated transcripts that regulate splicing, translation, and mRNA stability.
Drug target validation
Recombinant modified nucleosomes can support chromatin-enzyme and reader-domain studies, including selected HDAC and bromodomain inhibitor assays. DNMT inhibitor studies generally require a DNA methylation or DNMT-specific activity readout.
Enhancer-promoter chromatin looping
Small-molecule-inducible dCas9 looping tools bring a chosen enhancer and promoter into contact to study 3D genome architecture and gene regulation.
Product Categories
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Chromatin Immunoprecipitation (ChIP)
ChIP-grade antibodies, crosslinking reagents, and pull-down kits for mapping protein-DNA interactions genome-wide.
View ProductsDNA Methylation Analysis
Bisulfite conversion kits, methylation-specific PCR reagents, and arrays for locus-specific and global methylation profiling.
View ProductsHistone Modification Assays
ELISA and fluorometric assays for quantifying acetylation, methylation, and phosphorylation states of histone proteins.
View ProductsRNA Methylation Analysis
MeRIP and m6A detection kits for profiling RNA methylation marks and their role in post-transcriptional gene regulation.
View ProductsRecombinant Nucleosomes
Defined nucleosome substrates carrying specific histone modifications for use in biochemical and drug discovery assays.
View ProductsTranscription Factor Analysis
DNA-binding assays, reporter systems, and ChIP tools for studying transcription factor activity and regulatory networks.
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Chromatin Loop Formation (dCas9)
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Frequently asked questions
Bisulfite conversion deaminates unmodified cytosines to uracil while leaving 5-methylcytosine intact. This enables base-resolution mapping after sequencing. Enzymatic methylation-sequencing workflows use enzyme-based chemistry, often combining protection or oxidation of modified cytosines with APOBEC-mediated deamination of unmodified cytosines. Compared with sodium-bisulfite workflows, selected enzymatic methods can preserve longer DNA fragments and improve coverage uniformity, particularly for low-input material. Performance and modification discrimination depend on the specific method.
For conventional ChIP-seq, an input control helps account for chromatin accessibility and sequencing bias. For CUT&RUN, appropriate controls commonly include no-antibody or IgG conditions and, where quantitative comparison is required, spike-in controls. The optimal control set depends on the assay design and target.
A global 5-mC ELISA is the right first step when you need a quick, low-cost readout of total methylation level across many samples, or when sequencing infrastructure is unavailable. Bisulfite sequencing is the follow-up choice when you need single-CpG resolution at specific loci or genome-wide maps.
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