Xyna.bio

Overview

xyna.bio is a pioneering bioinformatics platform developed as part of the XOLLX FutureLab initiative by GIP AG under the xyna.ai Saturn program.

The core vision is to transform computational biosciences through AI-driven hyperautomation, enhancing the efficiency and accessibility of complex analytical analyses. The integration of neurosymbolic AI agents allows users to generate and customize pipelines with minimal effort, through a fully graphical, no-code/low-code interface. Streamlining the process from data to discovery, we support bioscientists in focusing on conducting high-quality, reproducible research without the need for extensive computational skills.

For a first glance into the vision visit https://www.youtube.com/watch?v=liRJIFymaqY

Features

  • Graphical User Interface: xyna.bio offers a fully graphical, intuitive, no-code interface. This allows users to construct and manipulate data workflows visually.
  • Data Integration: Easily integrate data from various -omics datasets.
  • Interactive Visualizations: Dynamic tools for data visualization to aid in the interpretation of results.
  • Custome pipeline design: Users can easily customize pipelines and develop new ones to meet specific research needs.
  • Community-Driven Development: xyna.bio encourages participation from the global scientific community through hackathons and collaborative projects, constantly evolving based on user feedback and emerging research needs.

Coming soon ...

  • AI-Agent for pipeline search and generation: Search and generate pipelines in seconds with the help of AI Large Language Models.
  • Auto-saving pipelines: Auto-save your pipelines for easier, faster, and more productive analyses.
  • Reusing previous node results: Directly reuse the results of previous node-executions for higher efficiency.
  • Host and Share your Tools: Easily integrate third-party tools and extensions, enhancing the utility and accessibility of xyna.bio to a broad scientific community.

Research Areas

The latest version of xyna.bio focuses on protein engineering and single-cell RNA-sequencing.

Protein Engineering

One of the current main functionalities of xyna.bio is the integration of protein engineering tools.

Protein engineering is a powerful field of biotechnology focused on designing, modifying, and optimizing proteins for various applications, including industrial processes, medicine, and research. By understanding and manipulating the structure and function of proteins, desirable traits, such as stability, binding affinity, and activity, can be enhanced. The development of protein engineering has been significantly aided by advances in computational tools and biotechnological techniques, allowing for precise modifications at the molecular level.

Recognizing the importance of these advancements, xyna.bio integrates various computational protein engineering tools, allowing users an easy and intuitive pipeline setup. The tools cover protein stability, protein ligand binding affinity, protein structure prediction (AlphaFold, AlphaFold Multimer, OmegaFold), protein docking, and sequence manipulation. Read more about the integrated tools in the Structure and Sequence node descriptions.

Citations:

Tobin PH, Richards DH, Callender RA, Wilson CJ. Protein engineering: a new frontier for biological therapeutics. Curr Drug Metab. 2014;15(7):743-56. doi: 10.2174/1389200216666141208151524. PMID: 25495737; PMCID: PMC4931902.

Single-Cell RNA-Sequencing

The analysis of single-cell RNA-sequencing (scRNA-seq) data is another focus of the current xyna.bio version.

Single-cell RNA-sequencing (scRNA-seq) is a technology that allows scientists to analyze gene expression at the individual cell level. Unlike bulk RNA sequencing, which averages the gene expression of many cells, scRNA-seq captures the transcriptome of single cells, enabling the identification of cellular heterogeneity withing complex tissues or populations. This technology is essential for understanding diverse cell types, developmental processes, and responses to diseases at a more granular level.

Experimentally, individual cells are isolated, and their RNA is extracted and converted into cDNA for sequencing. The resulting data provide insight into which genes are active in each cell, helping to identify subpopulations, track cell lineage, and study cellular responses in different conditions.

Xyna.bio integrates a range of tools for the analysis of scRNA-seq data, allowing an easy setup of an analysis pipeline. Click here for more details on the integrated tools.

Got curious?

For a first impression, take a look at the tech demo

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