NR
National Resource for Network Biology (NRNB)
Science and medicineDeveloping open source tools for network biology
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Links from the organization’s published listing (2026). Older contact links may have moved.
Proposal examples
Browse the proposal library →Outcomes are reported by the linked archives.
- 2021 · acceptedNRNB - 2021 - Pankaj Yadav ↗
- 2021 · acceptedSankha Das - SBML4Humans - Interactive SBML Report for Humans ↗
Programs & participation
14 records across 1 programIndexed project records; missing years are not zero. Coverage
2026Google Summer of CodeAnnual program · 7 projects indexed
- Direct Integration of PathVisio with WikiPathways GitHub
- Enhancing VCell AI Platform
- Evaluating and Improving Symbolic Regression Methods for Biological Network Dynamics
- Implement a Data-Driven Visual Attribute Mapping System in GraphSpace
- ML Models that use SBOL for DNA annotation by Shreeya
- openPIP 2 Modernizing the Open Source Protein Interaction Platform
- Proposal for the Unified App Registry for Cytoscape App Store
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2025Google Summer of CodeAnnual program · 8 projects indexed
- CySBML Reloaded: Smarter, Simpler, Automated
- Developing a Highly Efficient Numerical ODE Solver in the Systems Biology Simulation Core Library
- Enhancing SBOannotator with LLM Integration & Dynamic Term Retrieval
- Enhancing the Systems Biology Simulation Core Library (SBSCL) with a Solver-Agnostic Framework...
- LLM-Powered Interactive Chat Interface for CellMinerCDB with GraphRAG Integration
- SBOL2 SBOL3 Convertor Utility
- SeqTrainer - creating datasets from SynBioHub to aid researchers in creating machine learning models
- VCell-AI: AI Analysis & Querying Platform
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2024Google Summer of CodeAnnual program · 11 projects indexed
- ASCETIC Vision
- COBRAxy: COBRA and MaREA4Galaxy
- Cytoscape layout plugin to support Cytoscape.js layouts
- GPML support in Newt
- Implement AWS DevOps Pipeline for Image Deployment for Graphspace
- Improvement Of openPIP (Data upload & Visualization)
- Integration of complexity score functions into the iGEM DNA kit distribution workflow
- Integration of GRN inference algorithms using single cell multi-omics data to BEELINE
- Large Language Model-based creation of knowledge graph from a publication
- Machine Learning Support for Constructing Newt SBGN Maps
- Using Foundation Model: scGPT for Gene Regulatory Network Inference
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2023Google Summer of CodeAnnual program · 8 projects indexed
- Automate Cytoscape.js release process using GitHub Actions
- Convert CellBox Tensorflow code to Pytorch
- Develop new features for Cytoscape App-cyPlot
- Development of a Cytoscape App for microbe-microbe association networks
- Generate Example Dataset for PyTorch Geometric Based on Pathway Commons and Prototype
- Implement a R Shiny module for Network Analysis in CellMinerCDB
- Setting up the CI/CD Pipeline using Github Actions on GraphSpace
- Supporting Pathway Commons and ssGSEA in clusterProfiler
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2022Google Summer of CodeAnnual program · 8 projects indexed
- Adding visualization of protein-complex interaction to OpenPIP
- Conversion between GenBank and SBOL3
- Create a Pipeline from data extraction to execution of GNN based Drug Response Prediction
- Create Jupyter Notebooks showcasing COMBINE Standards
- High-throughput simulation for computational cell biology with Cloud-COPASI
- NetBoxR Updates
- SBML-MINERVA support in Newt
- Updates to the Enrichment Table App
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2021Google Summer of CodeAnnual program · 13 projects indexed
- Adding Multi-omics data support to ABioTrans Plus
- Develop a Cytoscape App for the Casual Path Algorithm
- Develop GUI for ImageJ groovy script calling VCell API
- Enhancing ABioTrans Plus using Gene Expression Omnibus database and adding analysis report
- Enhancing the admin panel of openPIP
- Expand ModelBricks.org and VCell API
- Implementing multiple clustering algorithms and dimensionality reduction techniques on clusterMaker2
- Local DB support for SBGN maps in Newt
- PD to AF conversion facility in Newt
- SBML Simulator in Rust
- SBML4Humans - Interactive SBML Report for Humans
- Simple Enrichment Tool for Analysis
- TumorComparer, updated version
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2020Google Summer of CodeAnnual program · 15 projects indexed
- Adding Bio-Statistical Machine Learning Models and Graphical visualization to ABioTrans V2
- Developing a tool for implementing clustering algorithms to Cytoscape app ClusterMaker2
- Development of a system that generates spatial SBML models using deep learning
- Enhance Web Interface for Natural-Language Processing Extracted Interaction Network
- Enhancing PathwayMapper in cBioPortal and PathwayMapper editor
- Generating detailed SBOL representation of genetic logic circuits along with improved designing capability, and Java-Python conversion.
- Implement a comment/discussion system in GraphSpace
- Implementation of SBML-JSON converter and SBML-JSON scheme
- Improving compmodelmatch.org
- Integrating RRPlugins with libRoadRunner
- Integration of sequence visualization into SynBioHub
- LACE-View : A Visualizer for Longitudinal Clonal Trees
- Redevelop Model Bricks code base architecture
- Simulation of systems biology models in Java: support for new features
- Spreadsheet Plug-in for SynBioHub
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2019Google Summer of CodeAnnual program · 11 projects indexed
- App Store for Cytoscape Apps
- BridgeDb Major Release
- CiSE layout as a Cytoscape.js extension and an automated layout web service for popular Cytoscape.js layout extensions
- Extending ModelPolisher to a universal model annotation tool
- GraphSpace: Diffs for graphs
- Implement a machine-readable graph legend interface
- Integrating RRPlugins with libRoadRunner and devloping Differential Evolution optimizer plugin
- New Build System for InSilico
- Simulator for Systems Biology
- Validation of spatial systems biology models in Java
- Web Interface for NLP Extracted Interaction Network
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2018Google Summer of CodeAnnual program · 10 projects indexed
- App Store for Cytoscape Apps
- Develop cyTRON/JS: a backend and a cytoscape.js visualizer for cancer progression models
- GraphSpace: Git for graphs
- Implement SBML Array Support in libRoadRunner
- Improvements for Newt, a Cytoscape.js based SBGN editor
- Integrating CAD and CAM tools for automating a synthetic biology workflow
- PathwayMapper Improvements and Integration into cBioPortal
- Rendering Complex Genetic Design with DNAplotlib for a Beautiful Visualization of Genetic Circuit
- Simulating systems biology models in Java
- Upgrading Ontology Tagging at WikiPathways
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2017Google Summer of CodeAnnual program · 20 projects indexed
- Adding support for PSIMI-TAB format to the Disease Variant Impact (DV-IMPACT) Database
- Cytoscape app for GraphSpace (CyGraphSpace)
- Cytoscape.js Extension for Querying Large Networks
- cyTRON: a Cytoscape app for the visualization of evolutionary trajectories in cancer progression
- Develop a Synthetic Biology Publication Workflow that Leverages the Synthetic Biology Open Language
- Develop a web service which provides simulation / steady state analysis / parameter estimation with SBML models
- Developing a Cluster Computing Framework for Dynamical Modeling
- Developing a web interface for DoMo-Pred
- Extending the IBW Biocompilation Interface with SBOL and SBML Import/Export Capabilities
- Implement GeneMANIA in Julia for High-performance Computing
- Implement Network Quantity Information measure in CentiScaPe #64
- Implementation of a Python Library for GraphSpace RESTful APIs
- Improvements in Tool for Curating Biological Maps in SBGN
- Interconversion of the SBML and SBGN Modelling Languages using Semantics of Logic
- libGPML library to read and write GPML files
- Notification system for GraphSpace
- OpenGL-accelerated Renderer for Cytoscape 3
- PiType: A Protein Interaction Prediction Cytoscape App
- Roadmap to create a WebApp for the Enrichment Map Using Cytoscape and RESTful services
- WikiPathways Pathway Presenter
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2016Google Summer of CodeAnnual program · 15 projects indexed
- Cytoscape command line scripting enhancements
- Enhance vignettes and plugin use for R package RCy3 for network manipulation using Cytoscape
- Extending Cytoscape.js: Addition of Clustering Algorithms
- GSoC: JSBML Validation System
- Import graphs in multiple formats and Cytoscape files into GraphSpace
- Improving Web Based SBGN Editor SBGNViz.js
- Interconversion between the systems biology modeling formats SBML and BioPAX
- Interconvertible Layout program for CellDesigner
- Java support for Deviser, a code generation system for SBML libraries
- Multithread Centiscape (#55)
- Principal Coordinate Analysis and t-Distributed Stochastic Neighbor Embedding in clusterMaker2
- SBGN-ML and SBML to Escher Converter
- The Online Resource for Interface Based Interaction Networks (TOR-IBIN) Web Interface
- Tutorials for Cytoscape.js
- Visualizing genomic alterations in TCGA cancer pathways in cBioPortal
Source checked Sep 28, 2026
Participation imported from the GSoC Organizations archive snapshot; this historical listing is not an application-status claim.
2014Google Summer of CodeAnnual program · 17 projects indexed
- ADAM Variation Services and Visualizations for Cytoscape 3 Variation App
- Connect PathVisio and WikiPathways to Expression Atlas!
- Connecting Neo4j and Cytoscape
- Developing An Interface For The Cancer Network Altering Variant Database
- Hierarchical Models in Segway
- IDEA #12: New Features for Interference App
- Idea 14: Graph Analysis Algorithms for Cytoscape.js
- Idea 15: Work on the Pathway Database Converters for the Expansion of Pathw
- Idea 26: Porting Interference App to Cytoscape 3
- Idea 38: Network Analysis Enhancements
- Implementation of new clustering techniques into Cytoscape
- Implementing TieDIE algorithm as a CYTOSCAPE App ( IDEA- 43 )
- PathVisio Plugin to Load Additional Information about Data Nodes
- Pathvisiojs Diff Viewer
- Porting Pesca App to Cytoscape 3 with new features (Idea: 27)
- PSFC: a Cytoscape app for calculating pathway signal flows
- Virtual Cell iPhone App Enhancements
Source checked Oct 2, 2026
Community mirror of the 2009–2015 Google Melange project archive. Original Melange project links may now redirect; the participation source retains the mirrored records. Organizations without indexed projects may be absent. Imported and normalized from Vaibhav Gupta / GSoC-Data-Analyser, MIT.
2013Google Summer of CodeAnnual program · 14 projects indexed
- Automated pathway-creation plugin for PathVisio
- Bird's eye view pan control for Cytoscape.js
- Idea 24: Compound Graph Layout Algorithm for Cytoscape.js
- IDEA 25: Specialized Layout Algorithm for SBGN Process Description Diagrams
- Idea 26: CentiScaPe Development and addition of extra Centrality parameter called Eigenvector Centrality.
- Idea 27: Modeling and Visualizing Cell Signaling Networks with SigViz
- Idea 31 : Visualization of Dynamic Graphs in Cytoscape
- Identifier Mapping App for Cytoscape 3.0
- Implementation of Fuzzy Clusters in Cytoscape
- Implementing a Cytoscape 3.0 app for the HyperModules algorithm
- iPhone application for viewing of public/private results in the Virtual Cell
- Multiplication of nodes and directed graphs in Cytoscape 3
- SBML Importer Plugin for PathVisio
- WikiPathways client plugin for PathVisio
Source checked Oct 2, 2026
Community mirror of the 2009–2015 Google Melange project archive. Original Melange project links may now redirect; the participation source retains the mirrored records. Organizations without indexed projects may be absent. Imported and normalized from Vaibhav Gupta / GSoC-Data-Analyser, MIT.
2012Google Summer of CodeAnnual program · 16 projects indexed
- A Direct Interface Between R and Cytoscape
- Cytoscape App Manager, Cytoscape Web WebGL Renderer and Layouts, Presentation API Testing
- Cytoscape Plugin for importing cancer genomic data and drug-target interaction data from cBio Cancer Genomic Portal
- Extend PathVisio with a plugin to create , modify and visualize data on biological pathways from scripting languages
- GeneMANIA plugin for MedSavant
- Idea 3: Interactive path explorer through networks and biological pathways for Cytoscape
- IDEA 30: Pathway Comparison in PathVisio
- IDEA 36: Data summary of tables in Cytoscape
- IDEA-25: SBGN-Complaint Views for Cancer Genomics Networks
- Layout Algorithms for New Cytoscape Web
- Loading and visualization of dynamical networks in Cytoscape 3.0
- Ontology-based Network Visualization and Analysis
- Plugin for metabolite information in Pathvisio
- Porting HOPACH cluster algorithm into clusterMaker
- Understanding Complex Pathways using User Data and Web Services in PathVisio
- Visualizing Semantic Data Landscapes with Cytoscape 3.0
Source checked Oct 2, 2026
Community mirror of the 2009–2015 Google Melange project archive. Original Melange project links may now redirect; the participation source retains the mirrored records. Organizations without indexed projects may be absent. Imported and normalized from Vaibhav Gupta / GSoC-Data-Analyser, MIT.