ClassiX™ CleanUp
Magnetic bead–based DNA clean-up for PCR and NGS workflows
Reliable
Scalable
Cost-effective
ClassiX™ CleanUp is a magnetic bead–based solution for purification and size selection of double-stranded DNA following PCR amplification and next-generation sequencing (NGS) library preparation.
Part of the incoming ClassiX™ Toolbox, ClassiX™ CleanUp integrates seamlessly into standard SPRI (Solid Phase Reversible Immobilization) workflows.
Validated at ratios from 0.5× to 1.8×, it delivers predictable DNA recovery and size selection for high-throughput applications without adding protocol complexity.
Performance at a glance
ClassiX™ CleanUp is engineered for predictable SPRI-based DNA clean-up across a broad range of fragment sizes, input amounts, and buffer conditions.
ClassiX™ CleanUp: Core Performance Specifications
| Parameter | ClassiX™ CleanUp |
|---|---|
| Chemistry | SPRI-based magnetic bead DNA purification |
| Target nucleic acid | Double-stranded DNA |
| Fragment size range | ≥100 bp (≥200 bp optimal) |
| Size selection | Ratio-dependent (SPRI-standard behavior) |
| Bead-to-sample ratio | 0.5× – 1.8× (application-dependent)* |
| Input DNA amount | 5 ng – 200 ng |
| Input sample volume | 10 – 50 µL |
| Elution volume | 10 – 50 µL |
| Wash buffers | 70% or 80% ethanol |
| Elution buffers | Water, 10 mM Tris-Acetate pH 8.0, 10 mM Tris / 1 mM EDTA pH 8.0 |
| Time to result | ≤15 minutes |
| Workflow | Bind – wash – elute |
| Automation compatibility | Manual and semi-automated magnetic workflows |
| Intended use | Research Use Only (RUO) |
Performance values derived from internal validation using DNA ladders and PCR-derived fragments across multiple bead ratios and buffer conditions.
*For HMW DNA enrichment applications (e.g., long-read sequencing from tissue), lower bead-to-sample ratios (0.5×–0.8×) enable selective retention of large fragments. See application note for details.
Why DNA clean-up matters
DNA purification is a critical control point in PCR and NGS workflows. Inconsistent or suboptimal clean-up can result in:
- Variable DNA recovery
- Incomplete removal of primers, adapters, and enzymes
- Reduced library quality and complexity
- Increased variability between runs and operators
Reliable clean-up depends not only on chemistry, but on predictable size selection and recovery across bead ratios, input amounts, and buffer conditions. ClassiX™ CleanUp is designed to support reproducible downstream performance in both routine and high-throughput laboratory environments.
Size selection and bead ratio guidance
ClassiX Clean-up follows canonical SPRI size-selection behavior, enabling users to tune fragment retention by adjusting the bead-to-sample ratio.
Fragment retention characteristics as a function of bead-to-sample ratio. Higher bead ratios increase retention of smaller fragments with an expected trade-off in recovery efficiency, consistent with established SPRI chemistry behavior
Portfolio
ClassiX™ CleanUp (RUO) products are manufactured under controlled processes and verified for compatibility with standard SPRI-based purification workflows.
Validated performance highlights
FAST AND SIMPLE CLEAN-UP
Bind–wash–elute workflow completed in ≤ 15 minutes using standard laboratory equipment
REPRODUCIBLE DNA RECOVERY
Consistent performance across runs and operators supports reliable downstream analysis
WORKFLOW COMPATIBILITY
Compatible with standard magnetic racks, ethanol wash steps (70–80%), and commonly used elution buffers
NGS-READY PERFORMANCE
Suitable for PCR product purification and NGS library clean-up, including adapter and primer removal
Workflow compatibility
ClassiX™ CleanUp is designed for straightforward integration into existing laboratory protocols:
- No changes to standard SPRI-based procedures
- Compatible with manual and semi-automated workflows
- Suitable for low- and high-throughput applications
Validated working ranges:
- Input volumes: 10–50 µL
- Elution volumes: 10–50 µL
Applications
PCR product and NGS library clean-up
Application: DNA purification
Sample type: PCR products and NGS libraries
Target: Double-stranded DNA
Workflow: Bind – wash – elute
Use: RUO
In internal evaluations, ClassiX™ CleanUp were assessed using representative PCR products and DNA ladders. Recovery profiles and fragment integrity were comparable to established SPRI-based clean-up reagents across relevant bead-to-sample ratios.
These results confirm that ClassiX™ CleanUp supports routine DNA clean-up workflows without requiring protocol adjustments.
HMW DNA size selection for solid tumor genotyping
ClassiX CleanUp workflow for solid tumor DNA extraction. Just 5 steps. 13 to 16 minutes from tissue to sequencing-ready DNA.
Application: HMW DNA size selection for long-read sequencing
Sample type: Complex tissue matrices, including high-lipid tissues such as brain tumor biopsies
Target: High-molecular-weight double-stranded DNA (>1.5 kb)
Workflow: Lyse – bind (0.35×) – wash – elute | 5 hands-on pipetting steps
Use: RUO
ClassiX™ CleanUp replaces column-based cleanup with a magnetic-bead SPRI workflow, eliminating spin columns and reducing hands-on pipetting from 10–15 steps to approximately 5, a meaningful reduction in user-to-user variability for long-read sample preparation and POC use.
In internal evaluations, the workflow was benchmarked on brain tumor biopsies, a deliberately challenging high-lipid, RNA-rich matrix, for Oxford Nanopore sequencing. Performance on this demanding matrix supports transferability to other complex tissue types, including solid tumor biopsies, FFPE, and fibrotic samples.
ClassiX™ CleanUp is suitable for research applications where HMW DNA recovery and reduced operator variability are priorities. Tunable bead-to-sample ratios allow researchers to adapt fragment retention to their specific workflow requirements.
Consult full performance data | Try it today
Prices and accessories
ClassiX™ CleanUp is available directly from Xpedite Diagnostics and through authorized distribution partners.
XPure Beads™
CXCU-10mL
ClassiX™ CleanUp – 10 mL
Format is supplied as ready-to-use liquid magnetic bead suspensions.
109 €
Suggested accessories
All prices without logistics costs.
ClassiX™ CleanUp is manufactured under controlled processes and released based on predefined acceptance criteria, including DNA recovery consistency, magnetic response, and SPRI ratio performance verification using standardized DNA inputs. This ensures consistent performance across production lots and long-term workflow reliability.
Buffer and workflow robustness
ClassiX™ CleanUp was validated across commonly used wash and elution conditions to ensure seamless integration into existing laboratory protocols.
Parameter | Tested Conditions | Outcome |
Wash buffer | 70% ethanol | Equivalent recovery |
Wash buffer | 80% ethanol | Equivalent recovery |
Elution buffer | Water | No impact on recovery |
Elution buffer | 10 mM Tris-Acetate pH 8.0 | No impact on recovery |
Elution buffer | 10 mM Tris / 1 mM EDTA pH 8.0 | No impact on recovery |
(1) Thermo Scientific™ FastRuler™ Middle Range DNA Ladder (2) 70% Ethanol wash, 10mM Tris/Acetate elution (3) 80% Ethanol wash, 10mM Tris/Acetate elution (4) 70% Ethanol wash, 10mM Tris/EDTA elution (5) 80% Ethanol wash, 10mM Tris/EDTA elution (6) 70% Ethanol wash, H2O elution (7) 80% Ethanol wash, H2O elution
ClassiX™ CleanUp technical guides and resources
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