Molecular Informatics Proposers Day. Agenda. 1:00pm - 1:30pm DARPA Defense Sciences Office (DSO) Overview. Dr. Tyler McQuade, Deputy Director, DSO

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1 Molecular Informatics Proposers Day Agenda 1:00pm - 1:30pm DARPA Defense Sciences Office (DSO) Overview Dr. Tyler McQuade, Deputy Director, DSO 1:30pm - 2:00pm Molecular Informatics Program Overview Dr. Anne Fischer, Program Manager, DSO 2:00pm - 2:15pm Contracts Management Office (CMO) Briefing Susan Shean, Contracting Officer, CMO 2:15pm - 3:00pm Break (2:30pm: Question submission deadline) 3:00pm - 3:30pm Q&A Distribution Statement A (Approved for Public Release, Distribution Unlimited) 1

2 Defense Sciences Office Dr. D. Tyler McQuade April 7, 2017 Distribution Statement A (Approved for Public Release, Distribution Unlimited)

3 Breakthrough Technologies for National Security Precision Guidance & Navigation IR Night Vision Communications/Networking Stealth Radar Arrays UAVs Precision Guidance & Navigation Microelectronics IR Night Vision Communications/Networking Internet Stealth Information Technology Radar Arrays UAVs Materials Science 1960s 1970s 1980s 1990s 2000s 2010s Microelectronics: VLSI, CAD, manufacturing, IR, RF, MEMS ARPAnet/Internet Information Technology: timesharing, client/server, graphics, GUI, RISC, speech recognition Materials Science: semiconductors, superalloys, carbon fibers, composites, thermoelectrics, ceramics New capabilities require a healthy ecosystem across Service S&T, universities, and industry DARPA s role: pivotal early investments that change what s possible 3 Public Release, Distribution Unlimited) Distribution Statement A (Approved for

4 Three Elements Drive DARPA s Magic Distribution Statement A (Approved for 4 Public Release, Distribution Unlimited)

5 DARPA Technical Offices BIOLOGICAL TECHNOLOGIES OFFICE DEFENSE SCIENCES OFFICE INFORMATION INNOVATION OFFICE MICROSYSTEMS TECHNOLOGY OFFICE STRATEGIC TECHNOLOGY OFFICE TACTICAL TECHNOLOGY OFFICE Biological Complexity at Scale Neurotechnologies Engineering Biology Restore, Maintain and Improve Warfighter Abilities Math, Modeling & Design Physical Systems Human-Machine Systems Social Systems Empower the Human within the Information Ecosystem Guarantee Trustworthy Computing and Information Electromagnetic Spectrum Tactical Information Extraction Globalization System of Systems (SoS) Battle Management/Comm and and Control (BMC2) Communications and Networks (C&N) Electronic Warfare (EW) System Focus Areas: Ground Maritime Air Space Crosscutting Themes: Agile development Cooperative Autonomy Unmanned Systems Power and Propulsion Intelligence Surveillance, and Reconnaissance (ISR) Positioning, Navigation, and Timing (PNT) Distribution Statement A (Approved for Public Release, Distribution Unlimited) 5

6 Program Managers Fariba Fahroo Mathematics Anne Fischer Chemical Systems James Gimlett Physics Jan Vandenbrande Math, Design, & Production Automation John Paschkewitz Systems, Design, & Materials Michael Fiddy Inverse Problems in Electromagnetics John Main Material System Innovation Adam Russell Behavioral/Social Sciences Ale Lukaszew Physics/Materials Predrag Milojkovic Reza Ghanadan Vincent Tang Imaging & Optics Complexity Science Applied Physics Distribution Statement A (Approved for Public Release, Distribution Unlimited) 5

7 Factors Shaping DARPA Investments Today Globalization of innovation Changing threat landscape New physical, mathematical and social phenomena Cost and inflexibility limit operational capabilities Powerful, globally available technologies set a fast pace Distribution Statement A (Approved for Public Release, Distribution Unlimited) 7

8 Framing The DSO Programs Key Questions Science Domains Physical and Natural Social and Behavioral Mathematical, Computational and Information Biological and Life Distribution Statement A (Approved for Public Release, Distribution Unlimited) 8

9 Heilmeier Catechism What are we trying to do? How does this get done, at present? What is new about our approach? If we succeed, what difference do we think it will make? How long do we think it will take? Can we transition? How much will it cost? Distribution Statement A (Approved for Public Release, Distribution Unlimited) 9

10 Engaging DSO Requests for information (RFI s) RadioBio (RFI) Molecular Code and Compute (RFI) Rapid Screening Tech. in Organic Synthesis (RFI) State-of-the-art in experimentally observing, modeling and understanding communication between biosystems exploiting electromagnetic (EM) waves from low frequencies (khz) to high frequencies (THz) Exploring ideas coupling information storage and computation using nonnatural, sequence-controlled polymers in a generalizable, adaptable format leading to fundamentally new computational architectures in the future Research concepts or existing technologies that enable fully automated, rapid screening of reaction conditions across synthetic organic chemistry Released 10/17/2016 Released 12/5/2016 Released 1/31/2017 Seedlings Mitigating the Curse of Dimensionality Using Sparse Grids Ultrasonic Fourier Computing for Ultrafast Solver for the Vlasov Equation Biologically Inspired Automata Grants or Contracts via BAAs Gamifying the Search for Strategic Surprise (GS3) Agile Teams (A-Teams) RadioBio Combine online game and social media technologies to engage a large number of experts in a shared analytic process to identify, understand, and expand upon the implications and applications of emerging science and technology Discover and demonstrate mathematical abstractions for the design of agile human-machine teams and to provide predictive insight into team performance Establish if purposeful communication via electromagnetic waves between biological systems exists, and what mechanisms and information is being transferred Distribution Statement A (Approved for Public Release, Distribution Unlimited) SN release: 11/30/2016 BAA release: 12/5/2016 BAA coming soon 10

11 Questions? Distribution Statement A (Approved for Public Release, Distribution Unlimited) 11

12 Distribution Statement A (Approved for Public Release, Distribution Unlimited) 12

13 Molecular Informatics Anne Fischer, Ph.D. Program Manager, DSO Briefing prepared for Proposers Day April 7, 2017 Distribution Statement A (Approved for Public Release, Distribution Unlimited) 13

14 The most important thing you ll hear today READ THE BAA Distribution Statement A (Approved for Public Release, Distribution Unlimited) 14

15 Vision Explore new approaches to store and process information with molecules Distribution Statement A (Approved for Public Release, Distribution Unlimited) 15

16 Integrated data storage and processing approach Global data (zettabytes) Past and projected global data growth (1 ZB = bytes) 1% of global data New approaches should consider high density data storage that is computationally accessible Year Molecules may be one potential solution. For DNA: Ezziane et al. Nanotech., 2006, 17, R27-R39 Gantz and Reinsel (2012). The Digital Universe in Framingham, MA Projected storage densities of Projected processing speeds of bytes/mm 3 ~10 20 reactions/s Data Encode Write Synthesize Store Read Detect Decode Archival Storage Data Access Process Data Distribution Statement A (Approved for Public Release, Distribution Unlimited) 16

17 Rapid progress in DNA-based data storage Data Write Read (e.g., text, image and audio) ACTGCGATC Data (e.g., text, image and audio) Distribution Statement A (Approved for Public Release, Distribution Unlimited) 17

18 What information can molecules currently process? Beyond substantial efforts to mimic Si-based computational approaches (i.e., molecular electronics), there are few examples DNA-based computing on an NP-hard decision problem demonstrates it is conceptually possible to answer computational problems outside of a traditional logic-based approach Start End 1) Assign each node a unique code (address) 2) Incorporate connections (relationships) into code 3) Synthesize and combine all codes 4) Compute: Pairwise associations between nucleotides create DNA strands of various lengths 5) Detect strand lengths, start/end node to determine if a Hamiltonian path exists Adleman, L. Science, 1994, 66, Distribution Statement A (Approved for Public Release, Distribution Unlimited) 18

19 Molecular diversity offers new ways to represent and process information Millions of molecules exist with unique properties that could be utilized to enable simplified, more capable storage and processing strategies Structure, shape, size, charge, polarity, Potential advantages include: Denser data representation Tunable properties, reactivity and stability Choice of physical representation With a richer feature space for physically representing and querying data, what new operations could molecules enable? Graph analytics Boolean Satisfiability? or (a b c) ( b d a) or Distribution Statement A (Approved for Public Release, Distribution Unlimited) 19

20 New foundations for information processing Interdisciplinary teams will collectively explore the opportunity space for molecules to store and process information 1) How and what can we encode in molecules? 2) What types of operations can molecules execute? 3) What are the representational abstractions, mathematical or computational primitives, that can describe these operations? 4) What does computation mean in a molecular context? 5) What functions can be decided via molecular means and what equivalence might they have to traditional computing methods? 6) Can we design approaches to compute directly on and with molecular data? Distribution Statement A (Approved for Public Release, Distribution Unlimited) 20

21 Program overview Proposals will identify mathematical/computational problems to be addressed by the proposed molecular approach Phase 1 (18 mo): Prospects for molecular information storage and processing Encode, read and write: Validate approaches to represent data in molecular form Process: Validate molecular processing approaches against performer-defined problems Phase 2 (18 mo): Strategies to enable direct-access molecular informatics Molecular informatics: Integrate elements to directly process molecular data Anticipated outcomes include: 1) New approaches to represent information and execute computational operations in molecular form 2) Scalable strategies to extract and process information from large molecular data stores 3) Molecular computing concepts that provide capabilities beyond our conventional computational architectures Distribution Statement A (Approved for Public Release, Distribution Unlimited) 21

22 Specifically excluded are approaches that Mimic current computational architectures (e.g., molecular electronics, molecular logic gates, etc.) or miniaturize chip-based components Provide evolutionary enhancements to past molecular computing efforts Require RNA, enzymes and/or proteins (i.e., biomolecular computing) Utilize nanomaterials (unless as a scaffolding or other support to the molecular information) Cannot be justified as scalable NOTE: DNA-based approaches are within scope, but scalability must be clearly justified Distribution Statement A (Approved for Public Release, Distribution Unlimited) 22

23 Teams Interdisciplinary teams are viewed as critical to the success of Molecular Informatics efforts Relevant expertise is likely to include, but not limited to: Chemistry Computer Science Information Science Mathematics Chemical Engineering Electrical Engineering Collaboration between teams will be required Distribution Statement A (Approved for Public Release, Distribution Unlimited) 23

24 Schedule and milestones Scope: Proposals should provide technical and programmatic strategy that conforms to the entire program schedule and addresses all program goals, metrics, milestones and deliverables. Emphasis: Robust measurement and characterization is critical. Milestones associated with error characterization are incorporated to drive full characterization and understanding of capabilities/limitations. Projections: Based on results, performers will develop projections for ultimate capabilities of the approach to better define future opportunities for molecules in information storage and processing. Phase 1 (18 mo): Prospects for molecular information storage and processing Encode, read and write: Validate approaches to represent data in molecular form Process: Validate molecular processing approaches against performer-defined problems Phase 2 (18 mo): Strategies to enable direct-access molecular informatics Molecular informatics: Integrate elements to directly process molecular data Distribution Statement A (Approved for Public Release, Distribution Unlimited) 24

25 Program structure and schedule Phase 1 (18 mo): Prospects for molecular information storage and processing Encode, read and write: Validate approaches to represent data in molecular form Phase 2 (18 mo): Strategies to enable direct-access molecular informatics Molecular informatics: Integrate elements to directly process molecular data 0.5 GB bytes/mm 3 12 mo random access one file 1 GB bytes/mm 3 read/write 100 MB and random access three files in 24 h Process: Validate molecular processing approaches against performer-defined problems 8 mo Demonstrate processing on one problem class Characterize error sources 18 mo 24 mo Demonstrate operational store/process system Execute Phase 1 processing problem directly on 1 GB of molecular data Characterize error sources 30 mo Demonstrate repeatability Reduce error by 2x Provide comparison metrics to conventional methods 34 mo 12 mo Demonstrate processing on second problem class Characterize error sources Establish projections for data access speeds if fully automated 36 mo Demonstrate repeatability of one problem class Reduce error by 2x Provide comparison metrics to conventional methods 18 mo Establish projections for processing versatility and provide design modifications 36 mo Distribution Statement A (Approved for Public Release, Distribution Unlimited) 25

26 Review and oversight during the program Collaboration, communication and transparency is critical DARPA will organize quarterly review meetings 1) Biannual in-person Principal Investigator (PI) meetings in Washington, DC 2) Biannual one-on-one review calls with each team At least one site visit to each performer location will occur per program phase Performers will be evaluated against the program milestones The program will be evaluated against progress toward answering the six foundational questions Distribution Statement A (Approved for Public Release, Distribution Unlimited) 26

27 Some logistics Distribution Statement A (Approved for Public Release, Distribution Unlimited) 27

28 Teaming These instructions are in the SN and BAA Interested parties should submit a one-page profile including the following information: Contact information to include name, organization, , telephone number, mailing address, organization website (if applicable) A brief description of technical competencies Desired expertise from other teams, if applicable All profiles must be ed to MolecularInformatics@darpa.mil no later than 12:00pm on April 11, 2017 Following the deadline, the consolidated Proposer Profiles will be sent via to the individuals/organizations that submitted a valid profile Specific content, communications, networking, and team formation are the sole responsibility of the participants. Neither DARPA nor the DoD endorses the information and organizations contained in the consolidated teaming profile document, nor does DARPA or the DoD exercise any responsibility for improper dissemination of the teaming profiles. Distribution Statement A (Approved for Public Release, Distribution Unlimited) 28

29 Proposal Abstracts Proposers are highly encouraged to submit an abstract in advance of a full proposal DARPA will respond to abstracts with a statement as to whether DARPA is interested in the idea Regardless of DARPA s response to an abstract, proposers may submit a full proposal DARPA will review all full proposals submitted using the published evaluation criteria and without regard to any comments resulting from the review of an abstract Distribution Statement A (Approved for Public Release, Distribution Unlimited) 29

30 Key dates (Optional) Proposer Profiles Due: April 11, 2017 at 12:00pm eastern time Abstracts Due: April 17 Question deadline: June 5 Final FAQ response published: June 7 Proposals Due: June 12 Distribution Statement A (Approved for Public Release, Distribution Unlimited) 30

31 Q&A Instructions Questions can be submitted until 2:30pm to Any questions submitted outside of will not be answered The government team will compile questions and provide answers to select questions beginning at 3:00pm Note that ALL questions will be answered and posted online in an FAQ document on under the Molecular Informatics BAA on the DARPA/DSO Opportunities website at After today Questions may be submitted to at any time (until June 5, 2017) and will be answered via the FAQ on Distribution Statement A (Approved for Public Release, Distribution Unlimited) 31

32 Distribution Statement A (Approved for Public Release, Distribution Unlimited) 32

33 DARPA BAA PROCESS Susan Shean DARPA Contract Management Office Molecular Informatics Proposers Day April 7, 2017 Distribution Statement A (Approved for Public Release, Distribution Unlimited)

34 BAA PROCESS READ THE BAA DRAFTING THE BAA Words are Meaningful Must and Shall Should Teaming is strongly encouraged (cross-disciplinary teams are anticipated per BAA Section I.B.) See Proposer Profile List (BAA Section VIII.B.) Technical vs Administrative Proposal sections (See templates referenced in BAA Section IV.B.2) Technical section leads to Selectable (described in BAA Section V.B.) - note particular proposal requirements in BAA Sections I.C-I.G Technical and Management Proposal (Volume 1) (BAA Section IV.B.2) BAA Attachments 2 and 3 Administrative sections lead to Award Cost Proposal (Proposal Volume 2) (BAA Section IV. B.2) BAA Attachment 4 Admin and National Policy Requirements (Proposal Volume 3)(IV.B.2) BAA Attachment 5 Distribution Statement A (Approved for Public Release, Distribution Unlimited) 34

35 BAA PROCESS PROPOSAL PREPARATION/SUBMISSION Instructions are detailed in the BAA and its attachments as posted on FBO.gov (HR001117S0027) (Follow closely) ALL questions ED to FAQ (including today s) available on the DARPA/DSO Opportunities website identified in Section VIII.A. of the BAA (Read Regularly) Funding instruments = procurement contracts, cooperative agreements, grants, and OTs Abstracts are strongly encouraged (BAA Section IV). See mandatory template (BAA attachment 1) referenced in BAA Section IV.B.1. Assert rights to all technical data & computer software generated, developed, and/or delivered to which the Government will receive less than Unlimited Rights - BAA Section VI.B.4. Assertions apply to Prime and Subs Justify Basis of Assertion Distribution Statement A (Approved for Public Release, Distribution Unlimited) 35

36 Abstract is due no later than April 17, :00 pm Proposal is due no later than June 12, :00 pm EVALUATION/AWARD Read Evaluation Criteria Carefully (BAA Section V) Criteria in Descending Order of Importance: Overall Scientific and Technical Merit Potential Contribution and Relevance to the DARPA Mission Cost Realism BAA PROCESS Government reserves the right to select for award all, one, some, or none of the proposals received. Government anticipates making multiple awards No common Statement of Work - Proposals evaluated on individual merit and relevance as it relates to the stated research goals/objectives Distribution Statement A (Approved for Public Release, Distribution Unlimited) 36

37 READ Distribution Statement A (Approved for Public Release, Distribution Unlimited) 37

38 THE Distribution Statement A (Approved for Public Release, Distribution Unlimited) 38

39 BAA! Distribution Statement A (Approved for Public Release, Distribution Unlimited) 39

40 Distribution Statement A (Approved for Public Release, Distribution Unlimited) 40