Biochemist: the all-in-one AI plugin for your daily work

Skills for biochemists 17

• biochemical statistical analysis assistantCleans and analyzes biochemical datasets end to end, e.g. runs a mixed model on triplicate assay results and reports effect sizes.
• biochemical literature review assistantFinds and compares papers, spots gaps, and drafts review sections, e.g. builds a comparison table of five kinase inhibitor studies.
• protein function prediction assistantPredicts function, domains, and disease links from sequence, e.g. flags a novel missense variant as likely destabilizing.
• experimental design plannerTurns a hypothesis into a design with controls and sample size, e.g. plans a pilot with three doses and four replicates.
• agency statistical analystRuns quick significance tests and sample sizing, e.g. checks whether two assay batches really differ.
• protein structure visualization assistantRetrieves and visualizes 3D structures, e.g. loads a PDB file, highlights the active site, and exports a figure.

Plus a start-here assistant, the prompt library and the app builder, and for members the daily brief.

Ready-made prompts 259

• AI & ChatGPT for Molecular Structure Analysis18 prompts, like Interpret Mass Spectrometry Data
• Protein Function Prediction18 prompts, like Analyze Protein Sequences for Function
• Enzyme Kinetics Modeling22 prompts, like Enzyme Kinetics Parameter Analysis
• Metabolic Pathway Analysis22 prompts, like Metabolic Pathway Data Curation
• Drug Interaction Predictions19 prompts, like Collect Drug Interaction Data
• Biochemical Literature Review20 prompts, like Find Relevant Research Articles
• Experimental Design Assistance5 prompts, like Literature Review for Experimental Design

Apps you can build with AI 6

• Reviewed research evidence and writing workspaceWrite review sections where every claim links back to a saved source, cutting manual citation work. Demo included.
• Source-linked research writing and review workbenchDraft and revise manuscripts while keeping source accuracy and your original meaning intact. Demo included.
• Searchable research library and data stewardship consoleKeep saved papers, data, and review states findable so you stop re-reading the same material. Demo included.
• Source-linked document analysis and Q&A consoleAsk questions across long papers and get answers tied to the exact passage. Demo included.
• Multi-source research synthesis and reporting workspaceAssemble reports from many sources without losing track of which claim came from where. Demo included.
• Research feed curation and briefing workbenchScan new literature faster and get a short briefing with sources attached. Demo included.

AI agents 12

In the download. An agent runs a whole recurring task for you, step by step, and asks you before anything important. Ask your AI: "Run the Research Literature Update Agent". Each one also has a guided set-up with sample data on its page.

• Research Literature Update AgentAn up-to-date evidence map with every new study screened.
• Seed Lot and Sample Inventory Reconciliation AgentInventory records that match physical stock and cover every planned experiment before it starts.
• Plate Layout Design and Check AgentA plate layout that passes every assay rule check and can be loaded onto the plate without manual rework.
• Blot and Gel Quantification Check AgentConsistent normalized band values in which every lane passes quality checks or is flagged with a reason.
• Pathway Model Sanity Check AgentA model version that passes balance and behavior checks and has a clear change log.
• Screening Hit Triage AgentA ranked follow-up list with artifacts removed and borderline hits resolved by retest.
• Sequencing Result Review AgentEach clone is classified as correct, usable with a note or failed, with a next step for every failure.
• Grant Aim Progress Check AgentEvery funded aim has recent evidence of progress, and gaps become concrete experiments before a report is due.
• Freezer Excursion Impact AgentAfter any excursion, the affected samples are identified, assessed and decided on within a day.
• Enzyme Kinetics Fitting AgentReliable kinetic parameters with checked fits
• Protein Purification Run Review AgentPurification runs that meet yield and purity targets
• Plate Assay QC AgentOnly plates that pass QC go into analysis

Connections (MCP servers) 12

A guide in the download. A connection lets your AI work in an app you already use. You add only the ones you use: ask your AI "Which apps can you connect to?" and follow the steps on each connection's page.

• NCBI PubMed MCP serverSearch PubMed's millions of research articles and get summaries, authors, and related papers through your AI.
• Google Scholar MCP serverLets your AI search Google Scholar and pull ready-made citations for papers you find. No install needed.
• Scholar MCP serverYour AI can search academic papers, read them, map citations, and save them into a personal library.
• Mendeley MCP serverLets your AI search your Mendeley library, read your papers, and organize your folders for you.
• Research Hub MCP serverLets your AI search for papers, save them to Zotero, and write notes into your Obsidian vault for you.
• Zotero MCP server (Zoteus)Lets your AI search your Zotero library, pull PDF passages with page numbers, and format citations. No install needed.
• PubMed MCP serverLets your AI search medical and life sciences papers on PubMed and read their abstracts and full text.
• arXiv MCP serverLets your AI search arXiv for research papers and pull up their details and full text. No install needed.
• Semantic Scholar MCP serverSearch 200M+ academic papers, follow citations, and get author details right inside your AI chat.
• Annota MCP serverLet your AI read your Zotero papers, highlight key findings, explain formulas, and save reading notes back to your library.
• UniProt MCP serverLets your AI look up protein facts in UniProt and show where each answer came from.
• Zotero MCP server (zotio)Lets your AI read and safely update your Zotero library, check for retracted papers, and keep notes in sync.

Your Grok Bot team 12

• Literature ReviewConducts systematic literature reviews across scientific databases and produces formatted documents.
• Academic ResearcherSearches scholarly databases, analyzes papers, and writes structured findings to a markdown file.
• Scientific Critical ThinkingEvaluates scientific research rigor, methodology, and evidence quality for critical analysis.
• Hypothesis GenerationGenerates testable hypotheses from observations, designs experiments, and produces a structured LaTeX report.
• Scientific VisualizationCreate publication-ready scientific figures from data.
• Scientific SlidesBuild slide decks and presentations for research talks.
• RdkitPerforms molecular analysis and manipulation for cheminformatics research.
• BiopythonRuns Python molecular biology tasks using Biopython for sequence, structure, and database work.
• Opentrons IntegrationWrites Opentrons Protocol API v2 Python scripts for Flex/OT-2 liquid handling workflows.
• Labarchive IntegrationAutomate LabArchives electronic lab notebook operations via API.
• Research GrantsWrites competitive research proposals for NSF, NIH, DOE, and DARPA with agency-specific formatting and review criteria.
• Peer ReviewSystematically evaluate scientific manuscripts and grant proposals for rigor, reproducibility, and reporting standards.