Paste a sequence. Get answers here.

Vectors

Virtual cloning

Simulate a digest and ligation, and check the construct stays in frame

Vectors

Vector feature annotator

Detect promoters, tags, protease sites and recombination sites in a sequence

PCR

PCR master mix

A component table for any number of tubes, with presets for PCR, RT and colony PCR

PCR

PCR product size

Locate the primer binding sites on a template, size the amplicon and check specificity

PCR

PCR temperature gradient

Column temperatures from your primer Tm values, with a suggested range

Cell culture

Cell seeding and split ratio

Cells needed per vessel, suspension volume and passage arithmetic

Cell culture

Scaling between vessels

Convert a protocol written for one vessel to another by growth area

Cell culture

Cell counting

Concentration and total cells from a haemocytometer count or a known reading

Cell culture

Trypan blue viability

Per-cent viability and viable-cell yield from live and dead counts

Cell culture

Passage and population doublings

Population doublings, cumulative PDL and doubling time from seed and harvest

Cell culture

Transfection setup

DNA and reagent per well from a chosen ratio, scaled across a plate

Cell culture

Flow cytometry staining

Cells per tube, antibody per test from its titre, and acquisition time

Analysis

MTT viability assay

Per-cent viability from absorbance, with an interpolated IC50 for a dose series

Transcriptome

Count normalisation: CPM, TPM, FPKM

Turn a raw count matrix into normalised values, with library statistics

Transcriptome

Multiple testing and volcano plot

Adjust p-values by four methods and draw a volcano plot from DESeq2 or edgeR output

Transcriptome

Transcript anatomy

Find the CDS, measure the UTRs, translate the protein and judge the Kozak context

In vivo

Tumour volume from calipers

Volume, growth curves and doubling time from caliper measurements

In vivo

Dose and injection prep

From mg/kg to the volume for each animal and the stock and vehicle needed

In vivo

Animal age and unit conversion

Age from date of birth, planning to a target age, and unit conversion

Vectors

PCR master mix

A component table for any number of tubes, with presets for PCR, RT and colony PCR

Sequence

Reverse complement

Complement, reverse and RNA in one click

Sequence

Translate and ORFs

Six-frame translation and open reading frames

Sequence

Restriction sites

Virtual digest and simulated gel

Sequence

Primer and Tm

Dimers, hairpins and annealing temperature

Sequence

Codon optimiser

For E. coli, yeast, CHO and plants

Protein

Protein parameters

Weight, pI, extinction and stability

Protein

Hydropathy plot

Kyte-Doolittle with adjustable window

Protein

Concentration from A280

Absorbance to mg/ml and micromolar

Calculators

Dilution

C₁V₁ and serial dilution planner

Calculators

ng to pmol

For plasmids, inserts and oligos

Calculators

RCF and RPM

With radii for common rotors

Calculators

Buffer recipes

Tris, PBS, TAE and LB at any scale

Analysis

qPCR ΔΔCt

Upload a CSV, get fold change

Analysis

Standard curve

Linear and four-parameter fitting

Analysis

Gel band size

Semi-log interpolation from your ladder

Reference

Genetic code table

The standard codon table with start and stop codons, and the notable mitochondrial reassignments

Reference

Amino acid properties

The twenty amino acids with residue mass, hydropathy, side-chain pKa, class and codons

Reference

Restriction enzyme reference

A searchable list of common restriction enzymes with recognition sites, cut positions, overhang and type

Reference

Antibiotic reference

Stock and working concentrations, solvent and storage for common bacterial selection antibiotics

Protein

SDS-PAGE gel recipe

Component volumes for resolving and stacking gels from percentage, volume and number of gels

Protein

Western blot antibody dilution

Antibody and diluent volumes for primary and secondary incubations across several membranes

Protein

Protein yield

Total protein from concentration and volume, with recovery against a starting amount and yield per litre