Zymo Reagents

<h2>What are bisulfite conversion kits?</h2>
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Bisulfite conversion kits are all-in-one systems that bundle every reagent and column needed for the sodium bisulfite conversion workflow into a single, pre-optimized format, covering the denaturation and sulfonation steps, desulfonation with an alkali reagent, and a post-conversion cleanup step that removes the bisulfite and other reaction byproducts before the converted DNA is used in downstream analysis. This contrasts with standalone Bisulfite Conversion Reagents &amp; Buffers, which lets labs assemble their own optimized protocol from individual components.
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<h2 dir="ltr">What you will find:</h2>
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<ul>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Standard bisulfite conversion kits for routine DNA methylation analysis&nbsp;</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Combined transcriptomic and epigenetic studies with RNA and DNA methylation conversion kits</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">High-throughput 96-well bisulfite conversion kits for wider-scale screening applications</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Automation-compatible bisulfite kits for simplified workflow integration</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Magnetic bead-based bisulfite conversion kits for enhanced purification and recovery efficiency</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Direct bisulfite conversion kits for streamlined sample processing&nbsp;</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Rapid conversion kits for methylation analysis workflows that are time-sensitive&nbsp;</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Starter kits for validation and optimized setup of bisulfite conversion protocols</li>
</ul>
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<h2>How to choose a bisulfite conversion kit</h2>
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Match kit format to your downstream sequencing or PCR application
Kit versions optimized for WGBS work at larger input scales with library prep in mind, while RRBS-compatible kits often include restriction enzyme digestion components to enrich CpG-dense regions before conversion, and MSP-focused kits may include primers or protocol guidance for post-conversion methylation-specific PCR.
Check the kit's validated input DNA range against your sample type
Different bisulfite conversion kits are validated for different input DNA ranges, and kits validated for low-input or cell-free DNA samples specifically address the additional fragmentation and yield challenges that these sample types face during the harsh chemical conversion step.
Confirm the kit includes an unmethylated conversion control or specify one separately
A quality bisulfite conversion kit should provide, or clearly specify, an unmethylated control to run alongside samples, since tracking conversion efficiency across the kit's components helps catch kit-specific variability in conversion completeness between different lots or runs.
Consider kits with optimized FFPE protocols when working with formalin-fixed tissue
Formalin-fixed, paraffin-embedded tissue DNA is already fragmented before conversion; kits with FFPE-specific protocol variants include modifications like shortened incubation times and carrier reagents to minimize the further fragmentation this already-compromised input type would suffer under standard conversion conditions.
Evaluate throughput format options to match your sample volume
Some bisulfite conversion kits are available in spin column formats suited to individual sample processing, while plate-based or automation-compatible formats support higher-throughput sample sets, making format an important practical consideration beyond kit chemistry alone.
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<h2>Specifications context</h2>
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Bisulfite sequencing is widely regarded as the gold standard for DNA methylation analysis at single-base resolution, and a key advantage of using a complete kit over standalone reagents is that the included cleanup step reliably removes residual bisulfite and salt from the converted DNA, which would otherwise inhibit downstream PCR amplification and library preparation. As of 2026, enzymatic conversion kits (covered in Non-Bisulfite Kits &amp; Reagents) are increasingly positioned as an alternative that avoids the DNA damage introduced by chemical bisulfite treatment, though bisulfite conversion kits remain broadly used and well-validated across the largest range of downstream applications.
<a href="https://mbpinc.net/contact-us">Contact the expert team</a> at MBP and get high-quality bisulfite conversion kits for your lab.

Bisulfite Conversion Kits

D5001-MSDS

D5001-Protocol

D5001-App Note

EZ DNA Methylation™ Kit

D5001 by Zymo Research is the EZ DNA Methylation Kit — a 50-reaction bisulfite conversion system delivering &gt;99% cytosine conversion from 500 pg to 2 µg input DNA, with &gt;80% recovery and ≥10 µl elution volume. Validated for Illumina Infinium MethylationEPIC BeadChip, NGS bisulfite sequencing, MSP, and pyrosequencing. Requires a thermocycler with heated lid; total processing time 12–16 hours. Made in USA by Zymo Research.

Applications

Conversion

Elution Volume

Equipment

Input

Processing Time

Recovery

Sample Source

Manufacturer

Shipping Condition

Storage Condition

EZ DNA Methylation™ Kit (50 Rxns.)

EZ DNA Methylation™ Kit (200 Rxns.)

<h2>What are ChIP kits?</h2>
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ChIP (chromatin immunoprecipitation) kits provide all the components needed to enrich a specific protein-DNA complex from fixed, sheared chromatin using an antibody against the protein of interest, whether a histone modification like H3K4me3 or a DNA-binding protein like a transcription factor. A complete ChIP kit covers: formaldehyde crosslinking of proteins to DNA in intact cells or tissue, cell lysis and nuclear extraction, chromatin shearing to appropriate fragment sizes, immunoprecipitation using an antibody pre-bound to protein A/G beads, sequential washing to remove non-specific binding, elution of the antibody-protein-DNA complex, de-crosslinking to release the DNA, and purification of the enriched DNA for downstream analysis.
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<h2 dir="ltr">What you will find:</h2>
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<ul>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" aria-level="1">
<a href="https://mbpinc.net/reagents/epigenetics/chip-kits/buffers">Buffers: </a>for immunoprecipitation, chromatin preparation, elution, and washing workflows. Includes Chromatin Shearing Buffer, MN Digestion Buffer, and Chromatin Wash Buffers, designed to support efficient chromatin cleanup, fragmentation, and recovery in ChIP assays
</li>
</ul>
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<h2>How to choose and use ChIP kits</h2>
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Decide between sonication-based and enzymatic chromatin shearing
Sonication shears chromatin mechanically into fragments typically 200&ndash;1000 bp through several optimized burst-and-cool cycles, while enzymatic kits use micrococcal nuclease (MNase) or similar enzymes to cleave chromatin at accessible linker regions. Each approach has different resolution characteristics and cell-type-specific optimization requirements.
Confirm your ChIP kit is compatible with your antibody and magnetic bead format
Most modern ChIP kits use magnetic protein A or protein G Dynabeads to capture the antibody-antigen complex during immunoprecipitation, and matching the bead type to the antibody species and isotype is important for efficient capture and low background.
Plan sonication optimization as a required step before your ChIP experiment
Fragment size after sonication, ideally 200&ndash;750 bp for most ChIP-seq applications, must be confirmed by gel electrophoresis or Bioanalyzer before proceeding, since fragment size directly affects both immunoprecipitation efficiency and the resolution of the resulting ChIP-seq data.
Include an input chromatin control and an isotype control antibody
Running an aliquot of the pre-immunoprecipitation chromatin as an input control normalizes for differences in chromatin accessibility across the genome, while an isotype-matched antibody control establishes background enrichment levels above which true binding sites can be distinguished.
Keep all steps after cell lysis cold to prevent protein degradation
Chromatin prepared for ChIP is sensitive to protease activity and non-specific interactions after formaldehyde fixation, and including protease inhibitors in all lysis and wash buffers, as well as keeping samples cold throughout, reduces background and preserves specificity of the immunoprecipitation.
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<h2>Specifications context</h2>
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Sonication requires careful optimization for each cell type and instrument, typically involving pilot experiments at varying pulse widths, total times, and rest intervals, with fragment size evaluated by gel electrophoresis after de-crosslinking to confirm the target range of 200&ndash;750 bp before a full ChIP experiment is run. As of 2026, low-input and ultra-low-input ChIP kits continue to expand access to ChIP experiments from limited cell numbers such as primary cell populations and rare clinical samples, while nano-ChIP and CUT&amp;RUN approaches provide complementary alternatives for very low cell inputs where classical ChIP requires too many cells.
<a href="https://mbpinc.net/contact-us">Contact the expert team</a> at Molecular Biology Products Inc. (MBP) to get premium-quality ChIP reagents and buffers for your lab.

ChIP Kits

MSDS

Protocol

EZ Nucleosome DNA Prep Kit (20 Preps.)

D5220 by Zymo Research is the EZ Nucleosome DNA Prep Kit (20 preps) — isolates nucleosomal DNA from ≤10⁶ mammalian or yeast cells in under 45 minutes. Includes Micrococcal Nuclease, Atlantis dsDNase, and spin-column purification. Yield up to 25 µg; A260/A280 ≥1.8; 70–90% recovery for 75 bp–10 kb fragments.

Applicable For

Processing Volume

Purity

Sample Storage

Yield

EZ RNA Methylation™ Kit

EZ RNA Methylation™ Kit R5001 by Zymo Research combines RNA denaturation and bisulfite conversion in a single step, achieving &gt;99% cytosine conversion and &gt;80% RNA recovery from 0.5–1 µg input in 50 minutes. Converted RNA is compatible with RT-PCR, Sanger sequencing, next-generation sequencing library preparation, and microarray analysis for RNA m5C methylation profiling.

EZ RNA Methylation™ Kit (50 Preps.)

EZ RNA Methylation™ Kit (200 Preps.)

DataSheet

D5023-Protocol

EZ-96 DNA Methylation-Direct Kit

EZ-96 DNA Methylation-Direct Kit (D5022) by Zymo Research — 96-well shallow format, 192 total reactions. Direct bisulfite conversion from blood, tissue, cells, or FFPE without prior DNA extraction. Input: 10 cells to 10⁵ cells or 50 pg–2 µg DNA. Elutes in 30 µL. WGBS and targeted methylation ready.

Deep-well

EZ-96 DNA Methylation-Direct™ Kit (Shallow-well) (2 x 96 Rxns.)

EZ-96 DNA Methylation-Direct™ Kit (Deep-well) (2 x 96 Rxns.)

App Note with Tecan

EZ-96 DNA Methylation-Direct MagPrep

D5044 by Zymo Research — EZ-96 DNA Methylation-Direct MagPrep; 96-well magnetic bead bisulfite conversion; &gt;99.5% conversion; 50 pg–2 µg input; direct from blood, tissue, FFPE, LCM; ≥25 µL elution; ~4 hr; 4×96 rxns.

EZ-96 DNA Methylation-Direct™ MagPrep (4 x 96 Rxns.)

EZ-96 DNA Methylation-Direct™ MagPrep (8 x 96 Rxns.)

EZ-96 DNA Methylation-Gold MagPrep

D5042 by Zymo Research converts 96 DNA samples per plate to bisulfite form with &gt;99% efficiency using a two-stage protocol (98°C/10 min + 64°C/2.5 hrs) and magnetic bead cleanup. The EZ-96 DNA Methylation-Gold™ MagPrep (4×96 reactions) is validated for the Tecan Freedom EVO and compatible with Illumina EPIC arrays and WGBS. D5043 provides 8×96 reactions.

EZ-96 DNA Methylation-Gold™ MagPrep (4 x 96 Rxns.)

EZ-96 DNA Methylation-Gold™ MagPrep (8 x 96 Rxns.)

D5007-Protocol

D5008-Protocol

EZ-96 DNA Methylation-Gold™ Kit

D5007 by Zymo Research is a 2 × 96 reaction EZ-96 DNA Methylation-Gold Kit using one-step thermal denaturation + bisulfite conversion at 64°C for 2.5 hours—enabling same-day processing. Achieves &gt;99% conversion efficiency, &gt;75% DNA recovery, 30 µl elution. Accepts 500 pg–2 µg input DNA per well. Compatible with WGBS, RRBS, MSP, pyrosequencing, and Illumina methylation arrays.

EZ-96 DNA Methylation-Gold™ Kit (2 x 96 Rxns.) - Shallow Well

EZ-96 DNA Methylation Gold™ Kit (2 x 96 Rxns.) - Deep Well

D5046/D5047-MSDS

D5046-E/D5047-E-MSDS

D5046/D5047-Protocol

D5046-E/D5047-E-Protocol

App Note with Hamilton

EZ-96 DNA Methylation-Lightning MagPrep

D5046 by Zymo Research processes 96 samples per plate via magnetic beads, achieving &gt;99.5% bisulfite conversion in ~68 minutes with 100 pg–2 µg DNA input. The EZ-96 DNA Methylation-Lightning™ MagPrep (4×96 reactions) is validated for the Tecan Freedom EVO and compatible with Illumina EPIC arrays, WGBS, and targeted BS-Seq. D5047 provides 8×96 reactions for larger cohorts.

EZ-96 DNA Methylation-Lightning™ MagPrep CE-IVD (4 x 96 Rxns.)

EZ-96 DNA Methylation-Lightning™ MagPrep (8 x 96 Rxns.)

EZ-96 DNA Methylation-Lightning™ MagPrep CE-IVD (8 x 96 Rxns.)

EZ-96 DNA Methylation-Lightning™ MagPrep (4 x 96 Rxns.)

D5032-Data Sheet

D5032-MSDS

D5032-Protocol

D5033-Protocol

D5032-App Note (Hamilton)

EZ-96 DNA Methylation-Lightning™ Kit

EZ-96 DNA Methylation-Lightning™ Kit (D5032) by Zymo Research converts 100 pg–2 µg DNA with &gt;99.5% bisulfite conversion efficiency in 1.5 hours across a 96-well plate format (2×96 rxns/kit). &gt;80% recovery, &gt;50 bp fragments, Hamilton-automation compatible. Available from MBP Inc.

EZ-96 DNA Methylation-Lightning™ Kit (Shallow-Well) (2 x 96 Rxns.)

EZ-96 DNA Methylation-Lightning™ Kit (Deep-Well) (2 x 96 Rxns.)

D5004-Protocol

D5003-Protocol

D5003-App Note

EZ-96 DNA Methylation™ Kit

D5003 by Zymo Research is a 2 × 96 reaction bisulfite conversion kit in shallow-well format for high-throughput DNA methylation analysis. Converts &gt;99% of unmethylated cytosines to uracil; protects &gt;99% of methylated cytosines; &gt;80% DNA recovery in ≥30 µl. Accepts 500 pg–2 µg input DNA per well. Compatible with MSP, WGBS, RRBS, pyrosequencing, and Illumina methylation arrays.

EZ-96 DNA Methylation™ Kit (Shallow-Well) (2 x 96 Rxns.)

EZ-96 DNA Methylation™ Kit (deep-well) (2 x 96 Rxns.)

App Note

EZ-96 DNA Methylation™ MagPrep

The EZ-96 DNA Methylation™ MagPrep (D5040) by Zymo Research performs 96-well magnetic bead-based bisulfite conversion of 500 pg–2 µg DNA with &gt;99% conversion efficiency and &gt;70% recovery. Processing time 12–16 hours; compatible with PCR, sequencing, microarrays, and NGS. Available in 4 × 96 and 8 × 96 reaction formats.

EZ-96 DNA Methylation™ MagPrep (4 x 96 Rxns.)

EZ-96 DNA Methylation™ MagPrep (8 x 96 Rxns.)

Devices & Instruments

EZ-Vac Vacuum Manifold

EZ-Vac Vacuum Manifold (S7000) by Zymo Research — processes 1–20 Zymo-Spin columns simultaneously under vacuum (&ge;400 mm Hg). Linear polyethylene body, one-way Luer-Lock stopcocks, polypropylene vacuum connector. Compatible with most Zymo nucleic acid purification kits.