Molecular Biology Research Tools | NEB (2024)

HomeResourcesInteractive Tools

Product Selection

  • Competitor Cross-Reference Tools

    Use this tool to select another company's product and find out which NEB product is compatible. Choose either the competitor’s product name or catalog number from the available selections, and this tool will identify the recommended NEB product.

  • NEBcloner®

    Use this tool to find the right products and protocols for each step (digestion, end modification, ligation and transformation) of your next traditional cloning experiment. Also, find other relevant tools and resources to enable protocol optimization.

  • NEBNext Selector

    Use this tool to guide you through selection of NEBNext reagents for next generation sequencing sample preparation.

  • PCR Selector

    Use this tool to help select the right DNA polymerase for your PCR setup. Whether your amplicon is long, complex, GC-rich or present in a single copy, the PCR selection tool will identify the perfect DNA polymerase for your reaction.

  • Exo Selector

    Use this tool to simplify the process of selecting the appropriate exonucleases for use in your nucleic acid digestion workflows. The tool guides you to product recommendations based on your answers to a few simple questions.

  • PCR Fidelity Estimator

    Estimate the percentage of correct DNA copies (those without base substitution errors) per cycle of PCR for selected DNA polymerases.

Restriction Enzyme Tools

  • Double Digest Finder

    Part of NEBcloner, this tool will guide your reaction buffer selection when setting up double-digests, a common timesaving procedure. Choosing the right buffers will help you to avoid star activity and loss of product.

  • Enzyme Finder

    Use this tool to select restriction enzymes by name, sequence, overhang or type. Enter your sequence using single letter code nomenclature, and Enzyme Finder will identify the right enzyme for the job.

  • NEBcloner®

    Use this tool to find the right products and protocols for each step (digestion, end modification, ligation and transformation) of your next traditional cloning experiment. Also, find other relevant tools and resources to enable protocol optimization.

  • NEBcutter™ v3.0

    Use this tool to identify the restriction sites, indicate cut frequency and methylation state sensitivity within your DNA sequence. Choose between Type II and commercially available Type III restriction enzymes to digest your DNA. New features added with v3.0.

Primer Design Tools

  • NEBuilder® Assembly Tool

    NEBuilder Assembly Tool can be used to design primers for your NEBuilder® HiFi DNA Assembly or Gibson Assembly® reactions, based on the entered fragment sequences and the polymerase being used for amplification.

  • NEBridge® Golden Gate Assembly Tool

    Use this tool to assist with in silico DNA construct design for Golden Gate DNA assembly. It enables the accurate design of primers with appropriate type IIS restriction sites and overlaps, quick import of sequences in many formats and export of the final assembly, primers and settings.

  • NEB LAMP Primer Design Tool

    NEB LAMP Primer Design Tool can be used to design primers for your Loop-mediated Isothermal Amplification. Fixed primers can be specified for the design of LAMP primers, and subsequent Loop primers are then designed based on LAMP primer selection.

  • NEBaseChanger

    NEBaseChanger can be used to design primers specific to the mutagenesis experiment you are performing using the Q5 Site-Directed Mutagenesis Kit. This tool will also calculate a recommended custom annealing temperature based on the sequence of the primers by taking into account any mismatches.

Experimental Design

  • Glycan Analyzer

    Use this tool to interpret Ultra or High Pressure liquid chromatography (UPLC/HPLC) N-glycan profiles following exoglycosidase digestions.

  • NEBcloner®

    Use this tool to find the right products and protocols for each step (digestion, end modification, ligation and transformation) of your next traditional cloning experiment. Also, find other relevant tools and resources to enable protocol optimization.

  • DNA Sequences and Maps Tool

    Use this tool to find the nucleotide sequence files for commonly used molecular biology tools, including plasmid, viral and bacteriophage vectors.

  • EnGen sgRNA Template Oligo Designer

    EnGen sgRNA Template Oligo Designer can be used to design target-specific DNA oligos for use with the EnGen sgRNA Synthesis Kit, S. pyogenes (NEB #E3322).

  • Molecular Biology Research Tools | NEB (19)

    NEBNext Custom RNA Depletion Design Tool

    This tool designs probes to be used with the NEBNext RNA Depletion Core Reagent Set or to supplement an existing NEBNext Depletion Kit for the depletion of unwanted RNA species.

  • PCR Fidelity Estimator

    Estimate the percentage of correct DNA copies (those without base substitution errors) per cycle of PCR for selected DNA polymerases.

  • Molecular Biology Research Tools | NEB (21)

    NEBridge® Ligase Fidelity Tools

    Use this tool to design high fidelity Golden Gate Assemblies under various experimental conditions.

Calculators

  • NEBioCalculator®

    Use this tool for your scientific calculations and conversions for DNA and RNA. Options include conversion of mass to moles, ligation amounts, conversion of OD to concentration, dilution and molarity. Additional features include sgRNA Template Oligo Design and qPCR library quantification.

  • Thermostable Ligase Reaction Temperature Calculator

    This tool will estimate an optimal reaction temperature to minimize mismatch for thermostable ligation of two adjacent ssDNA probes annealed to a template.

  • Read Coverage Calculator

    This tool allows for easy calculation of values associated with read coverage in NGS protocols.

  • Molecular Biology Research Tools | NEB (25)

    Tm Calculator

    Use this tool when designing PCR reaction protocols to help determine the optimal annealing temperature for your amplicon. Simply input your DNA polymerase, primer concentration and your primer sequence and the Tm Calculator will guide you to successful reaction conditions.

  • Molecular Biology Research Tools | NEB (26)

    NEBuilder® Protocol Calculator

    Use this tool to calculate the optimal amounts of input DNA sequences for the NEBuilder® HiFi assembly reaction given the length and concentration of each input fragment.

Databases

  • REBASE®

    Use this tool as a guide to the ever-changing landscape of restriction enzymes. REBASE, the Restriction Enzyme DataBASE, is a dynamic, curated database of restriction enzymes and related proteins.

  • Molecular Biology Research Tools | NEB (28)

    Polbase

    Polbase is a repository of biochemical, genetic, and structural information about DNA Polymerases.

Additional Tools

  • NEBeta™ Tools

    View our selection of online tools currently in development. These tools are not yet optimized for design and usability – we are looking for feedback on functionality and utility to improve them for future use.

Molecular Biology Research Tools | NEB (2024)

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