Building a mobile reaction lab notebook
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1 Building a mobile reaction lab notebook Alex M. Clark, Ph.D. March Molecular Materials Informatics, Inc.!
2 !2 Electronic Lab Notebooks Many shapes & sizes: big, small, hosted, desktop, mobile Domains: chemistry, biology, instrumentation Many ELNs are generic: functionally equivalent to a Word document This talk is about chemical reactions
3 !3 Data Capture Reactions normally drawn for chemists rather than computers.
4 !3 Data Capture Reactions normally drawn for chemists rather than computers.
5 !4 Digitally Friendly
6 !4 Digitally Friendly primary! reactant catalyst intermediate secondary! reactants solvent byproducts reagent final! product
7 !5 Functionality Priorities: 1. computer-friendly datastructures 2. human-friendly workflow Because people are flexible! We can do better than the tired paper notebook metaphor balancing atom mapping green metrics quantity calculation sustainable feedstocks solvent lookup byproduct datasheets reaction transforms wizards
8 !6 Yield101 Prior art: designed originally for education Fancy reaction quantity calculator Simple & cheap All quantities mapped to structure: stoichiometry, molecular weight, mass, volume, density, concentration, moles, yield
9 !7 Green Lab Notebook Under construction as an ios app (phones & tablets) Superset of Yield101 core functionality General purpose reaction lab notebook, with supplementary green chemistry features Start with experiment drawing
10 !8 A New Experiment Start with a fresh slate: select the reactant placeholder Select the draw icon Sketch the reactant structure Apply the change: display shows reaction in progress Note molecular formula & molecular weight
11 !8 A New Experiment Start with a fresh slate: select the reactant placeholder Select the draw icon Sketch the reactant structure Apply the change: display shows reaction in progress Note molecular formula & molecular weight
12 !8 A New Experiment Start with a fresh slate: select the reactant placeholder Select the draw icon Sketch the reactant structure Apply the change: display shows reaction in progress Note molecular formula & molecular weight
13 !8 A New Experiment Start with a fresh slate: select the reactant placeholder Select the draw icon Sketch the reactant structure Apply the change: display shows reaction in progress Note molecular formula & molecular weight
14 !9 The First Step Draw product Draw stoichiometric reactants Draw reagents Balance
15 !9 The First Step Draw product Draw stoichiometric reactants Draw reagents Balance
16 !9 The First Step Draw product Draw stoichiometric reactants Draw reagents Balance
17 MOLECULAR MATERIALS INFORMATICS The First Step Draw product Draw stoichiometric reactants Draw reagents Balance!9
18 Quantities!10 Classify primary reactants & waste products
19 Quantities!10 Classify primary reactants & waste products
20 !11 The Second Step Append step Draw second product Balance: byproducts Stoichiometric reagent For step 2: any nonwaste product from step 1 is a primary reactant
21 !12 Quantities Fill in all available measurements All possible mappings autocalculated Cross-fertilised with stoichiometry & molarity Molecular weight really matters step 1 products reactants step 2 products reagents
22 !12 Quantities Fill in all available measurements All possible mappings autocalculated Cross-fertilised with stoichiometry & molarity Molecular weight really matters step 1 products reactants step 2 products reagents
23 !13 Green Metrics Process Mass Intensity (PMI) = mass of all reactants mass of products E-factor = mass of waste mass of products Atom Economy = Σ molecular weight products Σ molecular weight reactants Trivial calculations if the information is available.
24 !14 Green Metrics Totals for reactants, products & waste For each non-waste product: PMI, E-factor, Atom-E Always calculated, always recorded
25 !15 Green Solvents Environmental data from ACS GCI & GSK
26 !16 Feedstocks Reference collection: - info about supply chain - encourage renewable use sic Link lab-available quantities to experiment records Could synchronise with inventory software Lookup in vendor catalogs...
27 !17 Reaction Transforms Provide a pre-curated list of "green" reaction transforms Promote user entered experiments into transforms (numbering, clipping) Associate with: - reagents, catalysts & solvents - stoichiometry & quantities - yield & experimental conditions - literature & green reference data
28 !18 Further Work Work in progress: minimum viable product is close Experiment definition extensions to include preparation details, free text, spectra, references, pictures, etc. Synchronisation with centralised databases Automated structure lookup of problem-compounds: curation required Curation of sustainable feedstocks & green reaction transforms Facile promotion of experiment-to-transform: ultra convenient reuse
29 Acknowledgments Sean Ekins (Green Solvents) Eidogen-Sertanty (Yield101) Inquiries to
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