Make Cypher work the way you want using the AI Settings page. All AI tools rely on hidden instructions that shape how they respond.
CAMBRIDGE, MA · June 25, 2025
Make Cypher work the way you want using the AI Settings page. All AI tools rely on hidden instructions that shape how they respond. These instructions are often called a system prompt, and some companies write hundreds of lines to create a specific style; Cypher does this too. With the AI Settings page, you can write your own instructions to help the assistant respond in a way that fits your work.
We have been using the Analyses tool to create PowerPoint slides quickly, but the default formatting wasn't working for our needs. So, we turned to the custom AI Settings page to fine-tune the behavior. Now, the results feel polished and ready to present right away.
Find AI settings page in your Cypher app here.
Michael:
"One of the things I'm most excited about is AI's ability to help notes reflect what actually happened in the lab. It's common to tweak protocols mid-run (adjusting volumes, swapping out reagents, or reacting to mistakes) and those changes are often poorly documented. With AI tracking how protocols evolve during execution, we get a clearer picture of what really worked. This not only improves reproducibility but also creates a shared, accurate reference for future experiments."
Yaoyu:
"For years, coding felt like a barrier for many scientists. Now, AI lowers that barrier. With plain language prompts and flexible, browser-based tools, anyone can write Python code, analyze results, and share findings with no setup. This unlocks the entire Python ecosystem—from pandas and Biopython to rdkit and Bokeh—for researchers without a coding background."
Cynthia:
"I like that Cypher takes the friction out of routine lab work. I've seen scientists wait around for a software solution to a problem or worse, settle for manually doing a repetitive task day in and day out. Cypher lets them focus on the science and not on formatting a spreadsheet."
ChatGPT may use your data for training unless you opt out (for Free & Plus users), while API and Enterprise data is not used by default. Claude doesn't use conversation data for training by default, except for feedback, and fully protects API, Work, and Enterprise data.
Cypher keeps your data safe. Other paid AI services might not. You get enterprise-level protection without paying enterprise prices.
Using ChatGPT? We recommend unchecking the "Improve the model for everyone" toggle found in your user settings, under Data Controls.
Cypher is an AI-powered platform built for supercharging scientific research. Designed to streamline protocol creation, data analysis, visualization, and team collaboration, Cypher enables research groups to run better experiments and accelerate discovery. Whether you're in biotech, pharma, or academia, Cypher gives your team the tools to significantly reduce repetitive, low-scientific-value tasks and focus on what matters most to science. Built by scientists for scientists. Learn more at: https://cypherbio.ai