Use Workflow to Streamline CRO Data Management

April 9th, 2024

Collaboration between Pharma/Biotech companies and CRO's has become an essential component of the drug discovery process. Data sharing between collaborators poses significant challenges to the security and efficiency of joint projects. Scilligence will host a seminar to discuss these informatics challenges and present our out-of-the-box solutions to the data sharing problem. The presentation will feature a live demo of three typical example request workflows between the project owner and its CRO partner(s), powered by our scientific informatics platform.

This is a hybrid event, which will be hosted at the Scilligence office in Cambridge (625 Mount Auburn St Suite 203, Cambridge MA 02138. Parking is free.) A Zoom link will be sent to respondents who opt for virtual attendance.

Register Now

ELN 7.2 External Release Notes

March 15th, 2024


  • Admin level Instruments page and the Materials page: The count function is optimized
  • Additional API documentation added to Swagger page
  • Added ability to use special characters (@, #, &, etc.) in Project names
  • Improvements in Project Shared Folder functionality


  • The layout of pages with navigation trees is enhanced by aligning tree and table headers
  • Improvements in the readability of Information and Error messages
  • The placement of menus and dropdown menus will auto adjust to the screen space
  • Improvements to page navigation by scroll bar
  • Improvements to table filtering options
  • Improvements to Small Card view on Main page
  • Improvements in ELN labels translation to Chinese characters
  • General icon fixes


  • Improvements to the Choose Availability connection between SSR form and Inventory
  • Single Dose Screening form: Improvements to Plate naming in ELN form and name tracking in RegMol Assay database


  • Enhanced login functionality for users with multiple accounts on page time-out
  • The Copy Experiment icon in the Main List page can be hidden (with addition of a configuration key) upon request
  • Project security is added by default for Co-Author feature

Experimental Templates

  • My Reagents feature improvements: can process and display larger Macromolecules and Polymers
  • Protein Expression: improved disulfide bond addition and display
  • Weigh Station connection improvements
  • In pre-formatted text Free-Form templates, the option to clear text  in “yellow text” area has been enabled
  • Time stamp added to experiment creation date
  • Decimal points for density calculation can be adjusted
  • Single Step Reaction: Can now capture temperature and time ranges in procedures 
  • Flex form: Table of contents added
  • Added Audit Trail information to PDF downloads
  • In text areas where checkboxes are added, a preferred checkbox indicator can be customized


  • Improvements to searching within nested experiments for non-admin users
  • Added ability for searching titles with special characters
  • Improvements to Fuzzy search capabilities
  • Improvements for searching with Chinese characters

Inventory 7.2.0 External Release Notes

March 11th, 2024


  • Location types are now dictionary defined and can be editable for admins from the settings menu.
  • Location changes can be reverted.
  • UIUX improvements to Location tree display (OK Button).
  • Location Page should only show containers with location (when clicking root location).

Products, Lots, and Containers

  • Added expired days filter on lot level.
  • Low amount indicator on locations page now supports mass units.
  • Streamlined Plasmid form, removing unnecessary fields.
  • Improved messaging to indicate when there is insufficient quantity to perform a split
  • Allow multiple packages in one grid cell location.
  • SDS field changed to upload file type by default.
  • Chemical Lab Safety link can be enabled on request with a configuration.


  • Added workflow counts indicator.


  • First row in containers table is automatically selected if there is only one item.
  • Show Progress animation on Container table in all pages besides Products page.


  • RegMol and Inventory integration improvements- Actions in one app are mirrored in the other.
  • History pulls from RegMol to Inventory when apps are integrated.

Exploring the Versatility of Lipid Nanoparticles in Drug Discovery

February 21, 2024

Lipid nanoparticles (LNPs) have emerged as a compelling drug delivery system, offering significant advantages. Today, we'll delve into what makes LNPs so intriguing and explore why they are gaining traction in the pharmaceutical industry.

Advantages of Lipid Nanoparticles:

  1. Targeted Delivery: Surface motifs allow for targeting specific cells and with this targeting capability you can reduce off-targeting effects so there'll be less side effects to your drug and less drug would be needed.
  2. Great Half-Life: Oftentimes the nanoparticles will have a polyethylene glycol (PEG) serface modification which will allow for immune cell evasion.
  3. Payload Versatility: LNPs are able to carry multiple types of payload, including mRNA which often undergoes degradation in the body. Nanoparticles can protect this cargo from degradation, allowing for a therapeutic that would usually be challenging to use.
  4. Enhanced Cell Uptake: They have improved cell uptake, and with that you can control when the drug is released so you can allow the nanoparticle to be uptaken by the cell and then release the cargo once it's in the cell

Moreover, the endorsement of LNPs by the FDA is exemplified by the successful deployment of COVID-19 vaccines developed by Moderna and BioNTech/Pfizer.

LNP Experimental Workflow Captured in ELN:

  • LNP Components: LNPs are composed of a lipid mix. Most commonly is nucleic acid payload. The lipid mix can include an ionizable lipid, phospholipid, helper lipid, and stabilizer lipid. Several include cholesterol, or a modified cholesterol, but doesn't necessarily have to include all those.
  • Preparation Methods: LNPs are very modular and so they can be mixed, matched, and modified. You can have the same components but adjust how the formulation is made and it’ll result in a very different nanoparticle that may have different characteristics that you're looking for. You could adjust the size, the surface potential, any motifs on the surface of the nanoparticle, all to try to meet your need and provide a good drug delivery system.

Scilligence ELN Approach:

At Scilligence, our Electronic Laboratory Notebook (ELN) offers comprehensive support for LNP design and development:

  1. Capability to design empty and loaded lipid nanoparticles
  2. Our system offers two distinct calculation approaches and they vary based off of the values that the user would have to enter
  3. Ability to handle multiple ionizable lipids and APIs in the nanoparticle design
  4. Retrieve component information directly from your Scilligence RegMol. Just like with the ADC you can register your components so all of your lipids and your RNA using HELM and being able to pull that into ELN to design your lipid nanoparticle
  5. Ability to register your lipid nanoparticle directly from ELN - Available in Version 7.3
  6. Track assays and stability with our suite of apps (ELN, RegMol, and Inventory) - Available in version 7.3

Here is a short ELN demo showcasing the LNP mole% form:

If you have any inquiries regarding how we can enhance support for your scientific workflows or any of our modules, please don't hesitate to reach out to us at [email protected].

Spring Informatics Workshop (In-Person Event)

April 15, 2024
Catalyst Restaurant

We invite you to join us for an exclusive event at the Catalyst restaurant in Cambridge, MA, for our Spring Informatics Workshop on April 15th, from 10:00 am to 1:00 pm.

At this workshop, we will delve deep into the latest updates on the Scilligence informatics platform, designed to support all drug modalities, including drug conjugates and LNP.

Whether you're a seasoned researcher, scientist, or industry professional, this event is tailored to provide valuable insights and practical knowledge to enhance your workflows.

Here are some highlights you can expect:

  • Updates on the latest features and enhancements in RegMol, our unified entity registration system.
  • Exploration of advanced registration capabilities for various modalities.
  • Partner presentations by industry leaders from Certara and Zifo. 

(Stay tuned for the full agenda!)

Connect with peers, learn from industry experts, and discover how the Scilligence informatics platform can streamline and optimize your research processes.

Space is limited, so secure your spot today by clicking this link or the button below. 


Intuitive Data Analysis

FOCUS allows users to analyze complex sets of chemistry and biology data interactively, identify lead molecules, visualize gaps in Structure-Activity Relationships (SAR), and accelerate drug discovery.

Data import and Charting

Within FOCUS, users can effortlessly import data from files, expanding the range of data sources you can utilize. Visualize chemical and biological data with chemically-aware charting and graphing tools, gaining a deeper understanding of your research.

Collaboration and Security

Collaborate securely in real-time, share findings, and maintain data integrity with robust security and compliance features. FOCUS ensures data privacy and regulatory compliance, while its adaptable framework allows for quick identification of lead molecules, gaps in SAR, and pathways for accelerating drug discovery and research.

 Seamless Data Integration

FOCUS is fully integrated with the rest of the Scilligence suite, allowing users to centralize chemical structures, biological assays, and experimental results from various sources, enabling easy access and unified analysis. FOCUS effortlessly brings together diverse data types, simplifying data management and facilitating cross-functional collaboration among research teams.



Elevate your research with the Scilligence FOCUS module, which provides an intuitive and interactive solution for streamlined chemical and biological data analysis. The FOCUS module utilizes an adaptable framework that helps for quick identification of lead molecules. This allows FOCUS to help accelerate drug discovery by helping research teams to collaborate efficiently and make informed decisions.


Project life cycle management

PMF is the central planning and control function for project management, defining how a project should be planned, implemented, monitored and closed.

Build and design custom workflows

PMF is an intelligent workflow design engine that provides you with a customizable solution for creating, managing and tracking your company’s business processes.

Make project plan online and track project progress

Project task templates streamline every aspect of planning and executing projects, while changes to the project plan can be controlled and approved by multiple users at any time.

Build enterprise internal knowledge base

Powerful indexing tool to search documents, emails, and notes.



The Scilligence Project Management Framework (PMF) empowers organizations to manage workflow and project timeline effectively. It is an easy-to-deploy collaboration platform with crucial security control, cogent document sharing, and powerful data mining technology (structure and biosequence search). PMF will help manage your timeline efficiently and integrate workflow seamlessly (ELN, Registration, Inventory, ERP, Outlook).

Enable Cheminformatics and Bioinformatics in Microsoft Office

Cambridge, MA: Scilligence, a leading innovator of scientific software solutions, is thrilled to unveil HELM technology in TouchMol4Office (TM4O). 

TM4O represents an advancement in the realm of cheminformatics and bioinformatics within the Microsoft Office suite, providing researchers and professionals with a comprehensive platform for interfacing with internal and external databases while working seamlessly in applications like Excel, Word, and PowerPoint.

TM4O empowers users with powerful structure search capabilities, advanced informatics for biologics and conjugates, and now HELM support making it an indispensable tool for professionals working in the fields of chemistry, biology, and pharmaceuticals.

Empowering Chem-Bioinformatics within MS Office
Unleash the potential of MS Office with seamless integration of advanced chem-bioinformatics capabilities. This groundbreaking enhancement opens up a world of possibilities for professionals in the scientific and research communities.

Harnessing Macromolecules through HELM 
Embrace the future of scientific research with MS Office’s built-in support for macromolecules by utilizing HELM. Additionally, you have the option to integrate, unlocking access to exclusive HELM monomer libraries and taking your research to new heights.

Effortless Integration with Back-End Databases
Breakdown data silos and improve your research efficiency with TM4O’s ability to seamlessly connect with back-end databases. Now, you can effortlessly convert CAS numbers and registration IDs into molecular structures from diverse data sources, streamlining your workflow like never before.

With the enablement of HELM in TM4O, Scilligence aims to allow scientists to easily and quickly create complex macromolecules by using an industry-standard notation, making it an indispensable asset for researchers, scientists, and professionals across various industries.

“TouchMol4Office with the enablement of HELM technology will empower scientists to explore a wide variety of therapeutics modalities right inside Microsoft Office applications, a daily staple in research environments”, says Jinbo Lee, PhD, CEO at Scilligence Corporation.