Best AI tools for< Protein Engineer >

Cradle is a protein engineering platform that uses machine learning to design improved protein sequences. It allows users to import assay data, generate new sequences, test them in the lab, and import the results to improve the model. Cradle can be used to optimize multiple properties of a protein simultaneously, and it has been used by leading biotech teams to accelerate new and ongoing projects.

The Institute for Protein Design is a research institute at the University of Washington that uses computational design to create new proteins that solve modern challenges in medicine, technology, and sustainability. The institute's research focuses on developing new protein therapeutics, vaccines, drug delivery systems, biological devices, self-assembling nanomaterials, and bioactive peptides. The institute also has a strong commitment to responsible AI development and has developed a set of principles to guide its use of AI in research.

Genesis Therapeutics is a cutting-edge platform that leverages molecular AI technology to discover and develop highly potent and selective medicines. Their proprietary Generative AI for Drug Discovery (GEMS) platform combines AI and physics research to identify drug candidates against challenging targets with unprecedented speed and accuracy. The company's innovative approach, powered by collaborative minds across AI and biotech, is revolutionizing the drug discovery process.

Google DeepMind is an AI research company that aims to develop artificial intelligence technologies to benefit the world. They focus on creating next-generation AI systems to solve complex scientific and engineering challenges. Their models like Gemini, Veo, Imagen 3, SynthID, and AlphaFold are at the forefront of AI innovation. DeepMind also emphasizes responsibility, safety, education, and career opportunities in the field of AI.

HUAWEI Cloud Pangu is an AI tool designed for accelerating drug discovery by optimizing drug molecules. It offers features such as Molecule Search, Molecule Optimizer, and Pocket Molecule Design. Users can submit molecules for optimization and view historical optimization results. The tool is based on the MindSpore framework and has been visited over 300,000 times since August 23, 2021.

AiPhoto.recipes is a web application that helps users create healthy meals using the ingredients they have on hand. Users simply take a photo of their ingredients and the app will provide them with three high-protein recipes that they can prepare. The app is integrated with Telegram, so users can access it without having to download any additional software. AiPhoto.recipes is a great tool for busy people who want to eat healthy meals without having to spend a lot of time planning and shopping.

Allchemy is a resource-aware AI platform for drug discovery. It combines state-of-the-art computational synthesis with AI algorithms to predict molecular properties. Within minutes, Allchemy creates thousands of synthesizable lead candidates meeting user-defined profiles of drug-likeness, affinity towards specific proteins, toxicity, and a range of other physical-chemical measures. Allchemy encompasses the entire resource-to-drug design process and has been used in academic, corporate and classified environments worldwide to: Design synthesizable leads targeting specific proteins Evolve scaffolds similar to desired drugs Design “circular” drug syntheses from renewable materials Interface with and instruct automated synthesis platforms and optimize pilot-scale processes Operate “iterative synthesis” schemes Predict side reactions and create forensic “synthetic signatures” of hazardous/toxic molecules Design synthetic degradation and recovery cycles for various types of feedstocks and functional target molecules

Scientific Large Language Models (Sci-LLMs) is a repository that collects papers on scientific large language models, focusing on biology and chemistry domains. It includes textual, molecular, protein, and genomic languages, as well as multimodal language. The repository covers various large language models for tasks such as molecule property prediction, interaction prediction, protein sequence representation, protein sequence generation/design, DNA-protein interaction prediction, and RNA prediction. It also provides datasets and benchmarks for evaluating these models. The repository aims to facilitate research and development in the field of scientific language modeling.

The 'awesome-AI4MolConformation-MD' repository focuses on protein conformations and molecular dynamics using generative artificial intelligence and deep learning. It provides resources, reviews, datasets, packages, and tools related to AI-driven molecular dynamics simulations. The repository covers a wide range of topics such as neural networks potentials, force fields, AI engines/frameworks, trajectory analysis, visualization tools, and various AI-based models for protein conformational sampling. It serves as a comprehensive guide for researchers and practitioners interested in leveraging AI for studying molecular structures and dynamics.

AI2BMD is a program for efficiently simulating protein molecular dynamics with ab initio accuracy. The repository contains datasets, simulation programs, and public materials related to AI2BMD. It provides a Docker image for easy deployment and a standalone launcher program. Users can run simulations by downloading the launcher script and specifying simulation parameters. The repository also includes ready-to-use protein structures for testing. AI2BMD is designed for x86-64 GNU/Linux systems with recommended hardware specifications. The related research includes model architectures like ViSNet, Geoformer, and fine-grained force metrics for MLFF. Citation information and contact details for the AI2BMD Team are provided.

This repository is a curated list of awesome large AI models in audio signal processing, focusing on the application of large language models to audio tasks. It includes survey papers, popular large audio models, automatic speech recognition, neural speech synthesis, speech translation, other speech applications, large audio models in music, and audio datasets. The repository aims to provide a comprehensive overview of recent advancements and challenges in applying large language models to audio signal processing, showcasing the efficacy of transformer-based architectures in various audio tasks.

PINNACLE is a flexible geometric deep learning approach that trains on contextualized protein interaction networks to generate context-aware protein representations. It provides protein representations split across various cell-type contexts from different tissues and organs. The tool can be fine-tuned to study the genomic effects of drugs and nominate promising protein targets and cell-type contexts for further investigation. PINNACLE exemplifies the paradigm of incorporating context-specific effects for studying biological systems, especially the impact of disease and therapeutics.

OpenCRISPR is a set of free and open gene editing systems designed by Profluent Bio. The OpenCRISPR-1 protein maintains the prototypical architecture of a Type II Cas9 nuclease but is hundreds of mutations away from SpCas9 or any other known natural CRISPR-associated protein. You can view OpenCRISPR-1 as a drop-in replacement for many protocols that need a cas9-like protein with an NGG PAM and you can even use it with canonical SpCas9 gRNAs. OpenCRISPR-1 can be fused in a deactivated or nickase format for next generation gene editing techniques like base, prime, or epigenome editing.

AIRS is a collection of open-source software tools, datasets, and benchmarks focused on Artificial Intelligence for Science in Quantum, Atomistic, and Continuum Systems. The goal is to develop and maintain an integrated, open, reproducible, and sustainable set of resources to advance the field of AI for Science. The current resources include tools for Quantum Mechanics, Density Functional Theory, Small Molecules, Protein Science, Materials Science, Molecular Interactions, and Partial Differential Equations.

Colossal-AI is a deep learning system for large-scale parallel training. It provides a unified interface to scale sequential code of model training to distributed environments. Colossal-AI supports parallel training methods such as data, pipeline, tensor, and sequence parallelism and is integrated with heterogeneous training and zero redundancy optimizer.

This repository is dedicated to collecting and categorizing papers related to Retrieval-Augmented Generation (RAG) for AI-generated content. It serves as a survey repository based on the paper 'Retrieval-Augmented Generation for AI-Generated Content: A Survey'. The repository is continuously updated to keep up with the rapid growth in the field of RAG.

AI Summer is a repository focused on providing workshops and resources for developing foundational skills in generative AI models and transformer models. The repository offers practical applications for inferencing and training, with a specific emphasis on understanding and utilizing advanced AI chat models like BingGPT. Participants are encouraged to engage in interactive programming environments, decide on projects to work on, and actively participate in discussions and breakout rooms. The workshops cover topics such as generative AI models, retrieval-augmented generation, building AI solutions, and fine-tuning models. The goal is to equip individuals with the necessary skills to work with AI technologies effectively and securely, both locally and in the cloud.

Awesome-Colorful-LLM is a meticulously assembled anthology of vibrant multimodal research focusing on advancements propelled by large language models (LLMs) in domains such as Vision, Audio, Agent, Robotics, and Fundamental Sciences like Mathematics. The repository contains curated collections of works, datasets, benchmarks, projects, and tools related to LLMs and multimodal learning. It serves as a comprehensive resource for researchers and practitioners interested in exploring the intersection of language models and various modalities for tasks like image understanding, video pretraining, 3D modeling, document understanding, audio analysis, agent learning, robotic applications, and mathematical research.

The 'machine-learning-research' repository is a comprehensive collection of resources related to mathematics, machine learning, deep learning, artificial intelligence, data science, and various scientific fields. It includes materials such as courses, tutorials, books, podcasts, communities, online courses, papers, and dissertations. The repository covers topics ranging from fundamental math skills to advanced machine learning concepts, with a focus on applications in healthcare, genetics, computational biology, precision health, and AI in science. It serves as a valuable resource for individuals interested in learning and researching in the fields of machine learning and related disciplines.

KG-LLM-Papers is a repository that collects papers integrating knowledge graphs (KGs) and large language models (LLMs). It serves as a comprehensive resource for research on the role of KGs in the era of LLMs, covering surveys, methods, and resources related to this integration.

LLM4Opt is a collection of references and papers focusing on applying Large Language Models (LLMs) for diverse optimization tasks. The repository includes research papers, tutorials, workshops, competitions, and related collections related to LLMs in optimization. It covers a wide range of topics such as algorithm search, code generation, machine learning, science, industry, and more. The goal is to provide a comprehensive resource for researchers and practitioners interested in leveraging LLMs for optimization tasks.

PaperQA is a minimal package for question and answering from PDFs or text files, providing very good answers with in-text citations. It uses OpenAI Embeddings to embed and search documents, and includes a process of embedding docs, queries, searching for top passages, creating summaries, using an LLM to re-score and select relevant summaries, putting summaries into prompt, and generating answers. The tool can be used to answer specific questions related to scientific research by leveraging citations and relevant passages from documents.

The 'llms-tools' repository is a comprehensive collection of AI tools, open-source projects, and research related to Large Language Models (LLMs) and Chatbots. It covers a wide range of topics such as AI in various domains, open-source models, chats & assistants, visual language models, evaluation tools, libraries, devices, income models, text-to-image, computer vision, audio & speech, code & math, games, robotics, typography, bio & med, military, climate, finance, and presentation. The repository provides valuable resources for researchers, developers, and enthusiasts interested in exploring the capabilities of LLMs and related technologies.

Assists in evaluating protein engineering tools.

AI protein design assistant

A customized ChatGPT designed to excel in the field of synthetic biology, as a scientist, an engineer, and a business man

Nutritious smoothie recipe creator with a focus on high-protein, easily available ingredients.

Easily track protein, calories and fat by taking photos of your meals.

Gesunder und proteinreicher Ernährungsplaner mit umfassenden Rezeptanleitungen auf Deutsch.

Turbocharge your research and streamline your path to breakthrough findings. Leveraging the vast resources of PubChem, this GPT taps into a wealth of chemical data—from substances to proteins and patents—unleashing the full potential of your data for richer, more informed discoveries.