ELN powers digital transformation in the lab—turning experimental data into the foundation for big data, automation, and AI
Keep expertise where it belongs—your ticket to the AI era
Paperless | Secure | Inheritable | Big Experimental Data | AI Scientist
Request a demoWhy use a electronic lab notebook?
Strengthen management, elevate data quality, and accelerate enterprise data accumulation—building the foundation for AI-driven R&D
Paper lab notebooks are plagued by illegible handwriting, reliance on memory-based recording, and difficult review processes—making it nearly impossible to reuse valuable expertise
Generate reports, patents, papers, and CTD documents automatically. Design and optimize experiments with AI—empower a Super AI Scientist to help 50 achieve what 100 can
AtomDeep vs traditional electronic lab notebook
Traditional ELN
- Limited to either chemistry or biology lab capabilities and cannot support both
- Developed by teams with IT, sales, or manufacturing backgrounds, lacking a deep understanding of scientific research needs
- Relies heavily on third-party plugins, making troubleshooting and customization difficult
- Permissions are managed only at the role level, resulting in a lack of fine-grained control
- Versioning is triggered only by manual action, leaving data vulnerable to loss and making compliance difficult
- Both on-premise and SaaS cloud deployment are supported, but the SaaS option does not allow data migration
- Custom-built system with limited configuration flexibility, suited only for a narrow industry segment and difficult to adapt across different fields
- Does not support upgrades to the latest version or has ceased continuous iteration, meaning the software may become obsolete within five years.
AtomDeep ELN
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Supports both chemistry and biology lab capabilities—combining the power of ChemDraw and SnapGene in one platform
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Designed and developed by scientists, with a deep understanding of first principles in scientific research
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Built with self-developed text editors, spreadsheets, multi-dimensional tables, and other essential components—enabling fast troubleshooting and customization
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Granular permissions—configurable at both role and individual user levels
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Regular feature updates with responsive technical support
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Supports both on-premise and SaaS cloud deployment—with data migration available for both
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A no-code platform that meets the experimental recording needs of diverse fields, including small molecule, biologics, cell and gene therapy, synthetic biology, chemical engineering, medical devices, new materials, cosmetics, and more
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Supports continuous upgrades—systems deployed a decade ago can be seamlessly upgraded to the latest version overnight without any data loss
Explore AtomDeep ELN features
Stoichiometry analyze
- Integrates a database of 4 million+ chemicals with essential data such as names and density
- Supports material calculation by both molar ratio and mass ratio
- Automatically inserts calculated amounts into experimental procedures
- Automatically generates overall reaction schemes for multi-step reactions and exports complete experiment reports
Design & visualize sequences
- Visualize and edit plasmid, antibody, and other sequences with automated GC content and melting temperature (Tm) calculation
- Support for annotating and editing features, primers, restriction sites, and open reading frames (ORFs)
- Intuitive visualization of alignment results, clearly displaying insertions, deletions, mismatches, and more
Automatically aggregate critical data
- Extract and consolidate critical fields from dozens or even hundreds of experiment records
- Quickly analyze data and generate reports with a single click
- Meet the need for different report formats based on the same experimental data
- Automatically deliver reports to relevant stakeholders for seamless collaboration
Full lifecycle instrument management
- Manage operation, calibration, and maintenance records—fully compliant with GMP requirements for instrument data management
- Easy-to-use calendar-based scheduling
- Seamlessly collect data from balances, HPLC, and other instruments
Sample assay
- Flexible Testing Request Creation: Two ways to create requests—create a new request or generate one directly from an experiment—adapting to different scenarios
- Automatic Data Mapping: Testing items in a request are automatically synced to the corresponding test experiment, eliminating duplicate entry
- One‑Click Result Push: Once testing is complete, results can be pushed back to the original request with a single click, forming a closed data loop from request to experiment to results—boosting efficiency
- LIMS Integration: Seamlessly connects with LIMS to meet diverse requirements
Cross-application connectivity
- Connects with project management, compound & sample management, instrument management, inventory management, and more
- Automatically aggregates experiment data by Atomdeep Project
- Register substances and samples directly from experiment pages, with seamless access to substance and sample data
- Material usage in experiments automatically deducts from inventory
Serving over 700 leading global customers
Loved by more than 1 million chemistry and biology scientists from enterprises, universities and research institutions.
Why teams choose AtomDeep
Guided by scientists, driven by digital & AI expertise
By scientists, for scientists: Designed and shaped by scientists who work directly with customers, we truly understand the needs of researchers in the lab. With over 13 years of dedicated focus on digital and AI solutions for R&D, we help scientists unlock internal and external data—empowering customers to build their own Super AI Scientist.
Global digital & AI consulting expertise: Serving 700+ customers worldwide (including China, the US, Korea, Singapore, France, Germany, Japan, and more) and supporting 100+ publicly listed companies through their digital and AI transformation journeys, we have accumulated extensive best practices from leading global innovators—helping enterprises achieve internationally competitive digital and AI capabilities.
Built on hard tech, driven by AI for science
Mastering core chemistry technologies: Powered by our self-developed InDraw Office, integrating world-leading AI-powered chemical structure image recognition.
Mastering core biology technologies: Powered by InSequence, our self-developed biological sequence editor, supporting antibody design, gene editing, and protein analysis.
AI that works for scientists: Researchers can use AI to instantly generate professional drafts—weekly and monthly reports, experiment reports, patents, papers, CTD submission documents, and more. With our Bayesian optimization agent, formulation design becomes effortless—no learning curve required.
Flexible and configurable for chemistry, biology, and diverse industries
Fully customizable experiment templates: Supporting text, tables, images, files, chemical structures, biological sequences, comments, and more—our templates adapt to any type of experiment, whether in chemistry or biology. Eliminate repetitive recording and standardize experiment formats quickly.
Zero-code, modular platform: Build like building blocks. Configure workflows and leverage API services to meet personalized needs—all without coding. Ideal for a wide range of R&D fields, including biopharma, chemical engineering, synthetic biology, new materials, new energy, cosmetics, food, medical devices/IVD, agriculture, and more.
Scalable & easy to use: Supports both small labs and enterprise‑level organizations. So intuitive that even beginners can use it with ease.
Self-seveloped technology, fully controlled services
All modules—including InDraw, InSequence, InText, InTable, and InForm—are developed entirely in‑house, giving us full control over our services. By eliminating reliance on third‑party software, we can quickly fix bugs and deliver upgrades without constraints. We never use pirated plugins, avoiding intellectual property risks entirely. This enables continuous iteration and optimization, ensuring faster, more responsive support.
Comprehensive security protection
Achieving ISO27001 international certification, the platform is built on a secure Linux architecture with HTTPS protocols, robust encryption algorithms, local encryption tools, and strictly configured firewalls. It enforces granular permission management, IP access restrictions, and MFA (multi-factor authentication) to ensure every access event is fully traceable. A globally unique “6-second auto-save with modification traceability” feature captures every change, while flexible deployment options—both on-premise and secure SaaS cloud services—are supported. Comprehensive real-time system security monitoring, logging, and multi-layered backup strategies together ensure business continuity, data security, and full recoverability.
Frequently asked questions
Cloud-based SaaS services provided by vendors;
Third-party cloud platforms purchased by the client, such as Huawei Cloud, Amazon Web Services (AWS), and Alibaba Cloud;
The client’s own on-site physical servers.
Private On-Premises Deployment: Approximately twice the annual cost per user of the SaaS model, plus a one-time upfront deployment fee;
Perpetual License Model (One-Time Purchase) for Private Deployment: The total price generally starts from 500,000 RMB."
The core advantages of a standardized ELN lie in continuous upgrades and controllable costs. Its R&D costs are shared by hundreds or even thousands of customers, allowing you to obtain a massively validated, stable and feature-rich product at a cost dozens of times lower than custom development.
Although a custom-developed ELN can fit 100% of your current workflows, any future business changes will require time-consuming and labor-intensive secondary development, making it difficult to adapt to shifts in R&D innovation and regulatory requirements.
In the era of AI-driven R&D, standardized ELNs are the optimal path to access cutting-edge intelligent ecosystems. For example, AtomDeep InAI integrates the DeepSeek large model—standard products can quickly incorporate universal AI capabilities, while custom systems often become data silos that fail to leverage industry-wide technological dividends.
Therefore, unless your workflow is extremely specialized and permanently fixed, you should prioritize a standardized ELN. It secures your initiative in data security, compliance and future intelligent expansion, and represents a strategic choice to invest funds in core R&D rather than repetitive IT infrastructure development."
On-Premises Deployment
The software is installed on servers controlled by the enterprise, enabling physical data isolation. Before deployment, the enterprise’s IT department must prepare qualified servers and network environments. The cycle is longer, generally 1 to 3 months, depending mainly on the complexity of IT environment preparation, installation & debugging, and integration with internal systems (e.g., domain controllers, LIMS).
Typical scenarios: Early drug discovery, new material synthesis, synthetic biology, process route development, formulation research.
Core needs: Flexible recording of experimental ideas and procedures, management of chemical structures (via InDraw) and biological sequences (via InSequence), data analysis (e.g., IC50 calculation), and application of data to AI-assisted design (via InAI).
Recommendation: What you truly need is an ELN (AtomDeep InELN). It is purpose-built for these R&D scenarios.
If your work focuses on standard execution and quality assurance:
Typical scenarios: Quality inspection of raw materials/finished products, stability testing, clinical sample analysis, environmental monitoring.
Core needs: Efficient receipt, assignment and tracking of large volumes of test samples, strict implementation of SOPs, automatic instrument data capture, and one-click generation of regulatory-compliant test reports.
Recommendation: You should select a professional LIMS solution.
If you require both:
Many enterprises have both R&D centers and quality control (QC) departments. A fully digital laboratory typically requires the collaboration of ELN and LIMS:
The R&D team (using ELN) documents experimental workflows, and instructions for sample testing protocols can be transmitted to the analytical testing team (using LIMS).
LIMS feeds back data or trends identified during analytical testing to ELN, providing input for the next round of R&D optimization.
The Interlab Ecosystem: Its SIMS platform is ELN-centric, and can seamlessly connect with third-party LIMS via standard APIs to enable seamless data flow.
Conclusion
In summary, ELN serves the creativity and flexibility of research and development, while LIMS serves the repeatability and compliance of quality control analysis.
If your core objective is to enhance R&D efficiency and intelligence, Interlab InELN and its integrated platform (InWMS, InCMS, etc.) are the more direct and in-depth choice. If your core requirement is quality control process management, you should focus on evaluating professional LIMS products."
| Comparison Dimension | Core Positioning | Electronic Lab Notebook (ELN) | Laboratory Information Management System (LIMS) |
|---|---|---|---|
| Comparison Dimension | Core Positioning | R&D Innovation Platform: Focuses on non-standardized scientific research processes. |
Production Quality Inspection Platform: Focuses on standardized sample testing and quality control processes. |
| Main Users | R&D scientists, process development personnel (chemists, biologists, etc.). | Quality Control (QC) | analysts, sample managers. |
| Management Objects | Experimental processes, ideas, observations, trial-and-error data (such as reaction condition exploration, formula research), innovation data. | Laboratory Informatics | Test samples, standard methods, compliance reports. |
| Process Characteristics | Flexible, variable, exploratory, processes are customized by scientists, supporting trial and error and adjustments. | Fixed, standardized, highly repetitive, procedures to ensure result consistency. | Test samples, standard methods, compliance reports. |
| Data Characteristics | Unstructured or semi-structured data (rich in text, chemicals, reactions, reaction formulas, sequence diagrams, experimental operations, etc.). | Fixed, standardized, highly structured data (sample numbers, test items, instrument readings, pass/fail results). | Highly structured data (sample items, instrument readings, pass/fail results). |
| Core Objectives | Improve R&D efficiency, accelerate knowledge precipitation, promote team collaboration and innovation, ensure data compliance, and protect intellectual property. | Ensure result consistency and data integrity through standardized processes. | Increase testing throughput, ensure data compliance (e.g., GMP/GLP), control and achieve full lifecycle traceability of samples. |
| ELN Efficiency Enhancement Capabilities | Core Problems Solved | Efficiency Improvement |
|---|---|---|
| Put an end to inefficient records and enable second-level data search | Handwritten records are illegible, scattered, and hard to find like 'searching for a needle in a haystack' | Through full-text search and unique chemical structure and biological sequence search, any historical experiment and data synchronization |
| Break down collaboration silos and enable real-time team synchronization | Team collaboration relies on emails, version confusion, and remote management difficulties | Using InDraw compatible with ChemDraw to draw formulas with image recognition, and data can be located in seconds. The template function allows one-click reuse of calculation methods, eliminating repetitive work |
| Online drawing of chemical structures and reaction formulas, calculation of molecular weight, chemical naming, and material proportioning | Hand-drawn structures, manual calculation of molecular weight and naming inability to name chemicals, and time-consuming processes | Supports real-time multi-person collaboration, third-party reaction calculations with a 10-fold efficiency improvement |
| Visual design of DNA/RNA/protein biological sequences | Handwritten description of biological sequences is error-prone and time-consuming | Automatically collect instrument data such as balance and HPLC, directly filling into records based on protocols, sequence alignment, BLAST, consensus, and enzyme groups and inventory (IVMS), saving time and effort |
| Automate tedious operations to connect instruments with humans | Manual transcription of instrument data, error-prone manual liquid preparation calculations, and process break paint | By connecting to the InAI scientific research model, you can directly ask questions, gain insights, automatic collaborate work, weekly report and patent drafts, and even optimize experimental conditions |
| Introduce AI to drive innovation with data | Data is dormant, report writing is time-difficult to precipitate and optimize | Dialogue, directly transforming data in decision-making and innovation |
| Your Usage Scenario & Compliance Objective | Is CSV/3Q Validation Required? | Rationale & Explanation |
|---|---|---|
| In the R&D phase, with the goal of Innovation and discovery | Not mandatory, 3Q recommended | The core objective at this stage is rapid innovation, improving R&D efficiency and collaboration. Some data may be used for patent applications or drug submissions; a simplified 3Q validation is recommended. |
| Data to be submitted to authorities such as the FDA/NMPA/Patent Office (e.g., IND, NDA, patents) | Mandatory, 3Q recommended | The FDA, NMPA, and other authorities will review the ELN system for authenticity, accuracy, completeness, and traceability. |
| In a GLP toxicology study, GMP, or GCP environment | Strictly mandatory, 3Q or CSV recommended | This is a regulatory requirement. Software systems under the GxP framework must undergo 3Q or CSV validation to demonstrate the authenticity, accuracy, completeness, and traceability of their data. |
Data Migration & Integration: Historical data migration, docking & debugging of third-party systems (ERP, PLM, etc.);
Compliance & Security Setup: VPN debugging, access control, and local security configuration (permissions, encryption, vulnerability fixes);
Fault Diagnosis: Troubleshooting and repair of hard disk shortages, hardware failures, OS/software/database compatibility issues;
Customization & Training: Configuration of experiment templates & approval workflows, admin O&M training and end-user training;
Testing & Acceptance: Independent functional & performance testing, go-live support and project acceptance.
Exclusions: Server procurement, lab construction, and the enterprise’s long-term in-house O&M costs.
It is a personalized service requiring collaboration between O&M engineers, developers, business managers, testers, after-sales and product teams, focused on end-to-end problem resolution."