{"signature": "0xcea2af94aeaa46cae744a6d4dfeae081d8106079f2367f1011b3d8c78adbf8372477b275a91a9904f84d2c4ba94145b99c9f2a4aa475550137144cd56b1b48f91b", "application": {"round": "0x0c0412ddb846096ea1e37de717921ebf4fef9a39", "answers": [{"type": "email", "hidden": true, "question": "Email Address", "questionId": 0, "encryptedAnswer": {"ciphertext": "wjJ4GS1bz0mVvPb8pzk4x+dC3L9IPL0kiJkWwpJUTm1yN99U3F0Cu++wxsTahfeS", "encryptedSymmetricKey": "cebc2cbe92900e9e02d27251937aa16421968f43bb13175a7a1dfe121a7dd68a42d3f6ffa84b3d49d9d7c540aecb5604390545e58001a3359f2e162a6178cc25b6acd7b6e9c49c7ef70aa190b90e6ffcef82055e23eaa1c3d9b5b339d38097984fe667a17296d431fcdd0e1807395aea89a267b37342f0a6e89486af757828c40000000000000020db1607b61851149b93578397c4adf15bb2b6af8490b240be48f381e2eacec6d282567c1a1bb800e9dabc790ba4edd4b2"}}, {"type": "short-answer", "answer": "Gitcoin, Heales", "hidden": false, "question": "Funding Sources", "questionId": 1}, {"type": "number", "answer": "5", "hidden": false, "question": "Team Size", "questionId": 2}, {"type": "short-answer", "answer": "antonkulaga", "hidden": true, "question": "Telegram username", "questionId": 3}, {"type": "paragraph", "answer": "80000", "hidden": true, "question": "Total prior funding for project in USD", "questionId": 4}, {"type": "paragraph", "answer": "- [https://github.com/antonkulaga](https://github.com/antonkulaga)\n- [https://www.linkedin.com/in/olga-borysova-79390884/](https://www.linkedin.com/in/olga-borysova-79390884/)\n- [https://github.com/winternewt](https://github.com/winternewt)\n- [https://github.com/marfantyk](https://github.com/marfantyk)\n- [Alex Karmazin GitHub](https://github.com/Alex-Karmazin), [Alex Karmazin LinkedIn](https://www.linkedin.com/in/alex-karmazin-ua/)", "hidden": true, "question": "Profiles or socials of other main team members publicly associated with project", "questionId": 5}, {"type": "short-answer", "answer": "32", "hidden": true, "question": "How old is the project? (Months)", "questionId": 6}, {"type": "paragraph", "answer": "When you sequence your DNA or that of your loved ones, you're left wondering how your genetic code affects your health, intelligence, and other traits. Overall, our project addressed three fundamental problems: transparency and trust, explainability, and the requirements for personal expertise. We continue development in this direction. However, based on the user feedback from the previous gitcoin round, we identified two critical gaps, which we also plan to address in this round.\n\n### Limited Pharmacogenetic Insights for Longevity Interventions\n\nCurrent commercial genetic tests provide limited information on how an individual's genetic makeup may influence their response to potential lifespan-extending drugs like metformin and rapamycin. This leaves people uncertain about the efficacy and safety of these interventions for their specific genetic profile.\n\n### Lack of Open-Source Tools for Assessing Genetic Influences on Intelligence\n\nWhile recent research has made strides in understanding the genetic basis of intelligence, there are few transparent, open-source tools available for individuals to explore how their genes may impact cognitive abilities.\n\n## Solution\n\nTo address these additional problems, we are expanding our open-source platform in two key ways:\n\n### Expanding Pharmacogenetic Tests for Longevity Interventions\n\n- Incorporating recent findings on genetic variations affecting metformin response, including insights from new genome-wide association studies.\n- Developing tests for genes influencing rapamycin metabolism (CYP3A5, ABCB1) and efficacy (mTOR pathway genes, APOE).\n- Providing personalized insights on the potential benefits and risks of these interventions based on an individual's genetic profile.\n\n### Developing an Open-Source \"Genetic IQ Test\" Module\n\n- Creating a transparent tool to help individuals understand how their genetic makeup may influence cognitive abilities.\n- Leveraging recent research on polygenic scores that explain variability in intelligence.\n\nThese additions complement our existing solutions by further enhancing transparency, explainability, and personalization in genetic analysis. By open-sourcing these tools, we enable scrutiny of our methods and empower individuals with more comprehensive insights into their genetic potential for longevity and cognitive function.\n\n## Roadmap\n\n### Q3-Q4 2024\n\n- Complete BioCypher knowledge graph integrations\n- Finalize integration of OpenTargets and additional genetic databases\n- Implement agent-based workflows for query optimization\n- Develop and launch expanded pharmacogenetics modules\n\n### Q1-Q2 2025\n\n- Release initial version of the Genetics of Intelligence module\n- Conduct PEFT (parameter efficient fine-tuning) if needed\n- Implement enhanced LLM integration features\n\n### Q3-Q4 2025\n\n- Refine and expand aging clock integration\n- Conduct user testing and gather feedback\n- Iterate on all new features based on community input", "hidden": false, "question": "Describe your project in a few paragraphs (ideally including a problem statement, solution, roadmap, and timeline for implementation)", "questionId": 7}, {"type": "paragraph", "answer": "Our project really ties into the DeSci goal of making science accessible to everyone from its very inception. We’ve built it on open-source tech so that anyone can get personalized genomic information easily and freely. This means users can get detailed genetic reports that touch on important health and longevity topics, all in line with DeSci’s values of openness and community collaboration. We're now working on making our tools even more user-friendly by adding explainable AI models and creating a helpful AI assistant. This will help everyone understand their genetics better and make informed health decisions, pushing forward the idea of science by and for the people.", "hidden": false, "question": "How does your project support the mission or goals of DeSci?", "questionId": 8}, {"type": "paragraph", "answer": "⅔ will be used to compensate for effort. ⅓ will be used on IT infrastructure and computation.", "hidden": false, "question": "Describe how funds from the grants program will be used for your project. ", "questionId": 9}, {"type": "paragraph", "answer": "", "hidden": true, "question": "If you participated in past grant rounds (i.e. DeSci GR15/ Beta) using a different project payout wallet address, please share it here.", "questionId": 10}, {"type": "paragraph", "answer": "Our project was initially funded by Longevity Round, which was very successful and let us develop multiple source code repositories ( see https://github.com/dna-seq ), publish 11 open-source Oak Var modules, and conduct several hack-your-own-genome workshops.\nThe previos DeSci gitcoin round was in April 2024 There we made a roadmap with 3 Phases and are implementing them as planed.\nPhase 1: Moving to LLAMA3 and other open-source models (Q2 2024):\nTransferring the code from ChatGPT actions to langchain actions (either directly with langchain or through CrewAI agent framework)\nSetting up open-source webintrafece and setting up interactions with open-source models\nEvaluating how it behaves with open-source models and tunning system instructions\nCurrent state: DONE. \nWe deployed at https://chat.longevity-genie.info/ chat UI with support of multiple models, including Llama 3.1 From our experience Llama 3.1 is not very good for multiple function calls so we switched to Mistral Large 2 instead. \nPhase 2: Adding knowledge graphs and additional databases (Q3 2024):\nAdding BioCypher knowledge graph integrations (see https://biocypher.org/ )\nAdding DBSNP, opentargets and other genetic databases (unless they are not already part of knowledge graphs)\nCurrent state: in progress. We are in the middle of Q3. So far, we contributed to Biocypher and managed to make the test use-case work. More funding is needed to continue. Opentargets and genetic database work are planned for September-October.\nPhase 3\nCurrent state: not started (as it is planned for Q4)", "hidden": false, "question": "If this project participated in past grant rounds, please share any new updates or milestones since the last round.", "questionId": 11}, {"type": "paragraph", "hidden": true, "question": "Is there any other information you would like to share about your project, previous work, other project affiliations, or potential conflicts of interest? (or anything not covered elsewhere in this application that you feel is relevant to share)", "questionId": 12}, {"type": "checkbox", "answer": ["Yes"], "hidden": false, "question": "Does 50% of your team reflect the diversity of the community your project serves with a particular emphasis on including women, Black, Indigenous, and People of Color (BIPoC), individuals with disabilities, and members of the LGBTQ+ community?", "questionId": 13}, {"type": "multiple-choice", "answer": "I already read the above exclusion criteria and understand those exclusion criteria are not permitted and will result in rejection or removal from the round.", "hidden": true, "question": "Please read the following exclusion criteria that are not permitted and will result in rejection or removal from the round.", "questionId": 14}], "project": {"id": "0x42214708589492950b00ddc6ecf98f3c4b0eda1d5dd0f59967dd8761ccc110a4", "title": "Just-DNA-Seq", "logoImg": "bafkreia3ei7wli3sstfcpwgivps4hmdeph6hdwwiio5jqvm765ae3wfuju", "metaPtr": {"pointer": "bafkreihbdbk2gnfqbjig52amugipbldsuvxfxjkgl3py4b4omuhnpgdgsq", "protocol": "undefined"}, "website": "https://dna-seq.github.io", "bannerImg": "bafkreiciyiho4d6xaxfuyo7zwn2xx6dd2332f2rqan3p5obwczmd74uoee", "createdAt": 1681763994346, "userGithub": "antonkulaga", "credentials": {"github": {"type": ["VerifiableCredential"], "proof": {"jws": "eyJhbGciOiJFZERTQSIsImNyaXQiOlsiYjY0Il0sImI2NCI6ZmFsc2V9..S4FEipoKOo0Ni89m8iIIZQRb4a0fXnLoHLZRpB3-7fBi_psjOVJ6dFWMo0U2JrUckxnF0V8B2M5viKtaO0akCw", "type": "Ed25519Signature2018", "created": "2024-08-07T07:54:07.471Z", "proofPurpose": "assertionMethod", "verificationMethod": "did:key:z6MkghvGHLobLEdj1bgRLhS4LPGJAvbMA1tn2zcRyqmYU5LC#z6MkghvGHLobLEdj1bgRLhS4LPGJAvbMA1tn2zcRyqmYU5LC"}, "issuer": "did:key:z6MkghvGHLobLEdj1bgRLhS4LPGJAvbMA1tn2zcRyqmYU5LC", "@context": ["https://www.w3.org/2018/credentials/v1"], "issuanceDate": "2024-08-07T07:54:07.471Z", "expirationDate": "2024-11-05T07:54:07.471Z", "credentialSubject": {"id": "did:pkh:eip155:1:0xBc7BeB2d44Eb0Cddf6c0F2560a21475c2E2aC19C", "hash": "v0.0.0:yOEQJ8CaYutz53Fi5GN0t+q+WBir1+mgRiN49hiLWDc=", "@context": [{"hash": "https://schema.org/Text", "provider": "https://schema.org/Text"}], "provider": "ClearTextGithubOrg#dna-seq#842436"}}, "twitter": {"type": ["VerifiableCredential"], "proof": {"jws": "eyJhbGciOiJFZERTQSIsImNyaXQiOlsiYjY0Il0sImI2NCI6ZmFsc2V9..YGSoT47SDWi-_iXOpF-lvHiuaUDCsY_CUg4ww74S-y22mTSvfW51MOdrQf1fIsWqBq1YYMPg1snbwvVD6QBfBA", "type": "Ed25519Signature2018", "created": "2024-08-07T07:53:31.572Z", "proofPurpose": "assertionMethod", "verificationMethod": "did:key:z6MkghvGHLobLEdj1bgRLhS4LPGJAvbMA1tn2zcRyqmYU5LC#z6MkghvGHLobLEdj1bgRLhS4LPGJAvbMA1tn2zcRyqmYU5LC"}, "issuer": "did:key:z6MkghvGHLobLEdj1bgRLhS4LPGJAvbMA1tn2zcRyqmYU5LC", "@context": ["https://www.w3.org/2018/credentials/v1"], "issuanceDate": "2024-08-07T07:53:31.572Z", "expirationDate": "2024-11-05T07:53:31.572Z", "credentialSubject": {"id": "did:pkh:eip155:1:0xBc7BeB2d44Eb0Cddf6c0F2560a21475c2E2aC19C", "hash": "v0.0.0:Qo4Bg8nrW2ixiW9DwaX6Sbom3mj/8YOSCvgmVDYVos0=", "@context": [{"hash": "https://schema.org/Text", "provider": "https://schema.org/Text"}], "provider": "ClearTextTwitter#just_dna_seq"}}}, "description": "[Just-DNA-Seq](http://dna-seq.github.io/) is an open-source personalized genomics platform designed to empower individuals with control over their genetic information. Building on our successful implementation of previous GitCoin-funded initiatives, we propose to expand and enhance our project in key areas to further advance personalized longevity genetics.\n\n### Achievements to Date:\n\n- **Source Code and Tools:** Developed 23 source code repositories ([GitHub](https://github.com/dna-seq)).\n- **Oak Var Modules:** Published 11 Oak Var modules focusing on longevity and disease risk.\n- **Genetics of Aging and Disease Report:** Open-source reports detailing health risks and personalized longevity recommendations ([example report](https://dna-seq.github.io/report_example/)).\n- **VO2 max trainability module**.\n- **Genetics Genie GPT** ([Chat with Genetics Genie](https://chat.longevity-genie.info/)) to help people answer genetic questions.\n- **User Education and Community Engagement:** Created a YouTube channel ([YouTube](https://www.youtube.com/channel/UCKJPXRJgi4Rxh9Lb1G_9SZw)) with workshops and lectures about Genetics and LLM.\n- **Research and Publications:** Published a scientific article preprint ([arXiv](https://arxiv.org/abs/2403.19087)).\n- **Standalone [AI assistant](https://chat.longevity-genie.info/)** with genetics knowledge supporting Llama3.1 and other open-source models (most recent achievement).\n\nWhen you sequence your DNA or that of your loved ones, you're left wondering how your genetic code affects your health, intelligence, and other traits. The problem lies in three key areas:\n\n### Transparency and trust\n\nCommercial companies often use proprietary algorithms and databases, making it impossible to understand how they arrive at their conclusions. It's like trying to decipher a code without the key. And, to make matters worse, different companies may give you conflicting results.\n\nThe solution for the lack of transparency and trust is already deployed. Our open-source platform ([Just-DNA-Seq](https://dna-seq.github.io/)) is available for anyone to use, and you can run it on your laptop instead of our server. You can also check our code and trace how each prediction was made. All the code and databases are open-source and available on our [GitHub](https://github.com/dna-seq). You can even put your own filters and explore your genome in detail instead of just reading our reports. However, our output is still somewhat technical for non-professionals and we need to improve it and add more tutorials and documentation.\n\n### Explainability\n\nTraditional tools struggle to make sense of the vast amounts of genetic data. It's like trying to find a needle in a haystack. New machine learning models can handle this complexity. However, these models often come as 'black boxes'—mighty yet impenetrable, offering little to no insight into which biological processes are involved.\n\nThe solution for the lack of explainability is already in progress. We've started implementing [GenNet](https://doi.org/10.1038/s42003-021-02622-z), an interpretable neural network model designed for genomic data, into our personalized genomic service. We've also gained access to the UK Biobank, which we plan to use to train new models. To continue our efforts, we need your support.\n\n### Requirements for personal expertise\n\nWhile you may know much about yourself and your relatives, you're not a geneticist. Interpreting the results of your genetic testing requires specialized knowledge. Even when the results are transparent, it's like trying to read a foreign language without a translator.\n\nThe solution to the lack of personal expertise is underway. We've already developed Genetics Genie. It is available as standalone chat with Llama3.1 and other open-source models ([Chat with Genetics Genie](https://chat.longevity-genie.info/)) and also as custom GPT ([Genetics Genie on OpenAI](https://chat.openai.com/g/g-HnvTUyFeq-genetics-genie)). However, we want to increase the number of genetics databases it knows and improve its explanations. With your support, we can continue to develop AI assistants that provide clear and concise explanations, making genetic knowledge accessible to everyone.\n\nBy supporting our open-source project, you'll be helping to create a more transparent, explainable, and accessible way to understand the secrets of your genome. Join us in democratizing personalized genomics and empowering individuals to take control of their health.", "lastUpdated": 0, "projectGithub": "dna-seq", "projectTwitter": "just_dna_seq"}, "recipient": "0x0C5B77597A614ff750b754910b8A226639b262C5"}}