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Overview

All apps

Every app on one page: what each is for, what it does and where to open it. Each line comes from the app's own product page, so this page stays complete as the suite grows.

Discovery

  • Drybench Protein.

    Interactive tool · Preview · v0.4.0

    Search a protein and see its experimental structure beside the AlphaFold model, and the drugs that act on it.

    Open AboutDocs

    What it does

    • Two views of each protein: a one-page dossier of its facts, map and evidence, or a workbench with both structures beside the sequence
    • One page per protein: names, function and location from UniProt, with the UniProt release shown
    • The default PDB entry beside the AlphaFold model, with every mapped entry to choose from
    • Loaded-file residue-level SIFTS correspondence for experimental chains, and unique exact residue correspondence for predicted-model focus
    • Sequence tracks for domains, sites, modifications, structural coverage, confidence, variants and AlphaMissense
    • Drugs and clinical candidates whose curated mechanism names the target, with stages and withdrawals
  • Drybench Molecule.

    Interactive tool · Preview · v0.3.1

    Draw or paste a molecule and see how drug-like it is, beside 2,197 approved drugs.

    Open AboutDocs

    What it does

    • Draw in a structure editor, paste a SMILES or type a drug name
    • Standard descriptors, and Lipinski's and Veber's rules with the reason for each result
    • QED with its eight inputs, and PAINS alerts with the matching atoms shaded
    • One 3D conformer, minimised with MMFF94s+, to turn and zoom
    • The ten most similar of 2,197 approved drugs from ChEMBL 37
    • A map of the approved drugs by nine properties, coloured by route of administration
  • Drybench Pipeline.

    Interactive tool · Preview · v0.2.0

    Trials for any condition from ClinicalTrials.gov, US approvals from openFDA, and the FDA precedent behind them.

    Open AboutDocs

    What it does

    • Search any condition and download its interventional drug, biologic and genetic trials, with progress shown
    • Filters for phase, status, sponsor class and start year, kept in the link and in saved research views, which rerun the search when reopened
    • The pipeline as Cards grouped by stage from Phase 1 to US approval, or as a Matrix with a phase by status matrix
    • US products whose FDA label names the condition, with sponsor, original approval date or NDC marketing start, and marketing status
    • FDA precedent: pathway, designations and review time for the condition's new molecular entities and new biologics, each cited to the FDA record
    • CSV exports with their scope stated: the full loaded trial result or the current list across every page, US products with each date's source, the filtered FDA precedent with a citation on every row, and three count tables

Bench & process

  • Drybench Calc.

    Interactive tool · Preview · v0.2.0

    Molarity, dilutions, serial plans, A280 and buffers with units on every field and the method beside each answer.

    Open AboutDocs

    What it does

    • Mass for a molarity, the volume for the mass you weighed, and C1V1 with units that convert as you change them
    • Salt form, hydrate and purity corrections, with the formula weight from the vial label overriding everything
    • A serial-dilution plan with volumes per tube, pipetting flags below 2 µL and the DMSO carried from the stock
    • Protein concentration from A280 with ε280 and the molecular weight computed from the sequence, tag on or off
    • A buffer's pKa at the working temperature from Goldberg et al. 2002, and a 75-reagent table with hydrate forms
    • Stock labels with a QR code drawn on your device, and stocks, plans and recipes kept as objects you can pin, send and study
  • Drybench Sequence.

    Interactive tool · Preview · v0.9.0

    Reverse complement, translation, ORFs, protein MW and pI, and primer checks from one paste, with the method named.

    Open AboutDocs

    What it does

    • Find and review a canonical protein sequence in UniProt, or paste raw, FASTA, multi-FASTA or GenBank input with the alphabet and ambiguity codes shown
    • Reverse complement, translation with the 27 NCBI genetic codes, six frames and open reading frames with every setting on the card
    • Protein molecular weight, isoelectric point and ε280, with tags and protease sites found and the numbers before and after cleavage
    • Oligo Tm by nearest neighbour under both concentration models, with the Owczarzy 2004 and 2008 corrections and the regime shown
    • Primer pair ΔTm and annealing temperature, hairpin and dimer ΔG at 37 °C, and binding sites on a template
    • Sequences and constructs kept as objects you can pin, send and study; a protein to the calculators, a peptide to the molecule app, an accession to the protein app
  • Drybench Assay.

    Interactive tool · Preview · v0.2.0

    Dose-response, standard curves and qPCR with explicit methods and retained research context.

    Open AboutDocs

    What it does

    • qPCR relative expression with reviewed Cq tables, explicit biological samples and calibrators, multiple references, and declared amplification efficiencies
    • Plate exports read by recognised layouts at 96 and 384 wells with the header discarded, or a table with units in its headers
    • A plate map assigned by keyboard, mouse or touch, filled as a series, saved as a template, or placed from a dilution plan sent by the calculators
    • Four-parameter logistic fits in batch, any parameter fixable, unweighted or 1/Y², with unweighted profile extra-sum-of-squares intervals by default and Wald as the named alternative; relative IRLS intervals are unavailable until validated
    • Six rules that show a C50 or withhold it with the reason, a relative or absolute C50, Z′ per plate and model comparison by F-test or AICc
    • A citable method block, a CSV for GraphPad Prism (XY table) and an R snippet (drc::drm), so the fit can be reproduced elsewhere, with structures beside potencies when a SMILES column is present
  • Drybench Plasmid.

    Interactive tool · Preview · v0.18.0

    What is in this plasmid, and which digest proves it: annotated maps, a schematic gel and sequencing-primer sites.

    Open AboutDocs

    What it does

    • Paste, FASTA, GenBank and read-only SnapGene .dna files, the pUC19 and pBR322 examples, and public records fetched from NCBI when you ask, up to 50,000 bp
    • Circular and linear maps drawn as SVG, operable by keyboard, with the 90 parts of the annotation library found on both strands and across the origin
    • Evidence on every feature: identity, coverage, mismatches and gaps, with the word that follows from them
    • The sites of 223 commercially available enzymes, with Type IIS cuts, sites across the origin and dam and dcm methylation as you set it
    • A diagnostic digest picker that finds the digests telling a correct construct from an empty or reversed one, with a schematic gel and its band table
    • Sequencing-primer sites, the plasmid's own weight and the ng, pmol, copies and ligation amounts that follow from it
  • Drybench Bioreactor.

    Interactive tool · Preview · v0.7.0

    Batch, fed-batch and chemostat runs with cited presets, showing when oxygen runs out and what would rescue it.

    Open AboutDocs

    What it does

    • Batch, fed-batch and chemostat runs from versioned presets: E. coli, S. cerevisiae glucose-limited, Pichia on methanol, a chemostat and a custom start
    • Dissolved oxygen by its own balance, with C* from the exhaust gas, solved by a stiff solver in a Web Worker
    • An oxygen rescue within the agitation, gas-flow and enrichment limits you enter, then a feed cap, with each step as text
    • Your measured kLa, your readings at several rpm, or Van 't Riet's correlation with its range stated
    • A pump sheet, CSV and chart exports, a printed bench sheet and a method paragraph; a run is a link carrying the preset by id and version and the parameters you changed, never results
    • A growth curve reviewed in Assay beside a run, and two measured runs compared on elapsed time from an event you declare, each response on its own axis and never converted
  • Drybench Virtual Wet Lab.

    Interactive tool · Alpha · v0.1.2

    Rehearse liquid transfers, inspect each well and compare a change before you prepare it.

    Open AboutDocs

    What it does

    • Inspect nominal volume, concentration and material origins at each action
    • Edit a supported transfer plan while retaining its original
    • Check all channels before a transfer is accepted
    • Bring a prepared serial-dilution recipe from the calculators
    • Save a private protocol and reopen its versioned project file

Papers & patents

  • Drybench Patent.

    Interactive tool · Alpha · v0.3.1

    Listed patents and exclusivities for a US product, each date traced to its Orange Book or Purple Book rule.

    Open AboutDocs

    What it does

    • Search a brand, ingredient or application number and read the captured patent and exclusivity rows with its date and rule
    • The range of listed protection: latest substance patent, latest listed patent and latest exclusivity, each cited to its row
    • Candidate ANDA matches for the same ingredient and form, with listed therapeutic-equivalence codes, and the Paragraph IV row as the FDA lists it
    • Listed dates in a window, grouped by product and rule; these are not entry dates
    • What changed in the FDA's files between two captures, and cited CSV exports

Learn

  • Drybench Cell.

    Educational tool · Preview · v0.1.0

    From gene to working protein, in eight real human structures.

    Open AboutDocs

    What it does

    • Eight steps from chromatin to haemoglobin, each a real structure from the Protein Data Bank with its primary paper
    • A rendered still at once, and a live Mol* 3D view with the same colours and cutaway when you ask for it
    • A colour key, labels and plain text for what each step shows
    • All eight structures on one nanometre scale
    • An address for every step, and the whole tour as text for reading straight through
    • Keyboard control and a text description of every picture

Shared across the apps

Two tools no single app owns, reached from every workspace.

  • Bench.

    In Bench, a Study holds the question, the work you did, the results it produced and the materials and sources behind them, ready for the next time you return.

    Open Bench

  • Literature.

    Find papers, follow citations and bring source-linked findings into your Study.

    Open Literature

Built for research and education. The tools have not been validated for regulated use. Read the regulatory position