Connecting the Dots in Early Drug Discovery at Novartis
By Jocelyn Hoppa
June 20, 2018 20 mins read
Editor’s Note: This presentation was given by Stephan Reiling at GraphConnect San Francisco in October 2016. Presentation Summary In this talk, Senior Scientist Stephan Reiling describes some of the ways that a major pharmaceutical company conducts the search for medical… Read more →
Keywords: association rule mining • Big Data • biological knowledge • biomedical research • drug discovery • graph technology • graphconnect • heterogeneous data • Novartis • PubMed
Using Neo4j to Investigate Connections in the U.S. Healthcare System
By Jocelyn Hoppa
June 13, 2018 6 mins read
Editor’s Note: This presentation was given by Yaqi Shi at GraphConnect San Francisco in 2016. Presentation Summary In this presentation, Yaqi Shi describes the process of developing Health-Graph, a model of how some of the key elements in the healthcare… Read more →
Keywords: APOC • data integration • data modeling • graphconnect • healthcare industry • healthcare system • open data • pharmaceutical research • RxNorm • U.S. healthcare
Network Science: The Hidden Field behind Machine Learning, Economics and Genetics That You’ve (Probably) Never Heard of – An Interview with Dr. Aaron Clauset [Part 2]
By Bryce Merkl Sasaki
February 22, 2018 7 mins read
Last week, in part one of my interview with Dr. Aaron Clauset, we reviewed how network science was evolving and how it’s dismantling preconceived notions about networks in general. Clauset also stressed the crucial role of interdisciplinary collaboration when it… Read more →
Keywords: computational biology • computational social science • Connected Data • deep learning • ICON dataset • link prediction • machine learning • Netflix Prize • Network Science • Network Visualization
Network Science: The Hidden Field behind Machine Learning, Economics and Genetics That You’ve (Probably) Never Heard of – An Interview with Dr. Aaron Clauset [Part 1]
By Bryce Merkl Sasaki
February 13, 2018 9 mins read
I recently had the opportunity to combine work and pleasure and meet with Dr. Aaron Clauset, an expert on network science, data science and complex systems. In 2016, Clauset won the Erdos-Renyi Prize in Network Science but you might be… Read more →
Keywords: complex systems • cybersecurity • data science • economics • genetics • graph algorithms • ICON dataset • machine learning • Network Science • social network
7VORTEX: Systems Thinking Powered by Graph Technology
By Bryce Merkl Sasaki
October 10, 2017 5 mins read
The success of many enterprises greatly depends on their ability to gather useful information and process it in a timely manner. Automation is essential and so is presentation, giving tangible feedback, to decision makers. This is where technology reaches out… Read more →
Keywords: biology • Connected Data • graph algorithms • graph technology • graph visualization • GraphAware • graphconnect • natural language processing • nlp • PageRank
Neo4j Life Sciences & Healthcare Workshop – Proceedings from Berlin
By Michael Hunger
September 29, 2017 9 mins read
Often invisible to the people outside of the field, life science researchers have been quietly embracing graph databases instead of the traditional triple and relational stores. On June 21, we invited a group of life science and healthcare researchers and… Read more →
Keywords: Bioinformatics • computational biology • cypher • drug development • Healthcare • intermine • Knowledge Graph • Life Sciences • network biology • systems biology
Integrating All of Biology into a Public Neo4j Database
By Rachel Howard
June 20, 2017 8 mins read
Editor’s Note: This presentation was given by Daniel Himmelstein at GraphConnect San Francisco in October 2016. Summary Himmelstein started his PhD research with the question: How do you teach a computer biology? He found the answer in a heterogenous network… Read more →
Keywords: biology • digitalocean • docker • drug repurposing • graphconnect • heterogeneous network • hetnet • machine learning • property graph • python
Accelerating Scientific Research through Machine Learning and Graphs
By Joy Chao
May 22, 2017 18 mins read
Editor’s Note: This presentation was given by Jorge Soto and Antonio Molins at GraphConnect San Francisco in October 2016. Here’s a quick review of what they covered: Introduction to the role of microRNA Monitoring microRNAs Applying the method to stomach… Read more →
Keywords: breast cancer • data analysis • graphconnect • Hadoop • Hive • machine learning • microfluidics • microRNA • natural language processing • stomach cancer
The 5-Minute Interview: Stephan Reiling, Senior Scientist at Novartis
By Rachel Howard
April 14, 2017 3 mins read
“Cypher, for us, is really the killer feature of Neo4j,” said Stephan Reiling, Senior Scientist at Novartis Institute for Biomedical Research. The Novartis team recently embarked on a project to bring together huge volumes of disparate biological data, which they… Read more →
Keywords: 5-minute interview • batch importer • biological data • biomedical research • bulk data import • cypher • Medicine • Novartis • pharmaceuticals • text mining
The 5-Minute Interview: Antonio Molins, VP of Data Science at Miroculus
By Rachel Howard
March 3, 2017 2 mins read
“We think it’s good to use the right tool for the right problem — and graph databases are the right tool if you are focusing on relationships,” said Antonio Molins, Vice President of Data Science at Miroculus. Choosing the right… Read more →
Keywords: 5-minute interview • data insights • data science • graph database • graphconnect • microRNA • Miroculus • molecular diagnostics • neo4j • scientific data
The 5-Minute Interview: Daniel Himmelstein, Postdoctoral Fellow at University of Pennsylvania
By Rachel Howard
January 6, 2017 3 mins read
“This is a really advanced graph algorithm and Cypher nailed it,” said Daniel Himmelstein, a Postdoctoral Fellow at the University of Pennsylvania. Before using Neo4j, it took as many as 1,000 lines of code to write the main query for… Read more →
Keywords: 5-minute interview • Bioinformatics • biology • bolt • cypher • Graph Algorithm • graphconnect • Neo4j Community • python • r
WayBlazer Cognitive Computing Application Powered by IBM Watson & Neo4j
By Rachel Howard
December 15, 2016 < 1 min read
Editor’s Note: This presentation was given by Ivan Portilla at GraphConnect Europe in April 2016. Here’s a quick review of what he covered: The three eras of computing What is cognitive computing? What’s new with Watson? Streamlining travel with Wayblazer
Keywords: Bluemix • CAPI Flash • cognitive computing • cypher • embodied cognition • graph technology • graphconnect • IBM Watson • POWER8 • WayBlazer
The 5-Minute Interview: David Meza, Chief Knowledge Architect, NASA
By Rachel Howard
November 18, 2016 3 mins read
For this week’s 5-Minute Interview, I chatted with David Meza, Chief Knowledge Architect at NASA Johnson Space Center in Houston. I caught up with David at GraphConnect San Francisco. Here’s what we talked about: Tell us a little bit about… Read more →
Keywords: 5-minute interview • Big Data • data model • Data Relationships • graph database • nasa • relational database • relational model • sql • unstructured data
From the Neo4j Community: October 2016
By Rachel Howard
November 17, 2016 3 mins read
October was a big month for the Neo4j community – not only was there GraphConnect San Francisco (catch video recordings here), but also the beta launch of Neo4j 3.1. Beyond that, the Neo4j community was doing what it does best… Read more →
Keywords: Big Data • cypher • graph database • graphconnect • Load CSV • nasa • Neo4j Community • Panama Papers • software development • US presidential election
Who Cares What Beyoncé Ate for Lunch?
By Rachel Howard
November 16, 2016 13 mins read
Editor’s Note: This presentation was given by Alicia Powers at GraphConnect Europe in April 2016. Here’s a quick review of what she covered: The global obesity epidemic How to verify your data model The key components of a recommendation engine… Read more →
Keywords: Beyoncé • CDC • center for disease control • data model • graph data model • graphconnect • r • real-time recommendations • recommendation algorithm • Recommendation Engine
The 5-Minute Interview: Tim Williamson, Data Scientist, Monsanto
By Bryce Merkl Sasaki
November 11, 2016 10 mins read
For this week’s 5-Minute Interview, I sat down with Tim Williamson, a Data Scientist at Monsanto. I interviewed Tim at GraphConnect San Francisco after his popular presentation: “Graphs Are Feeding the World.” Tell us a little bit about your role… Read more →
Keywords: 5-minute interview • apache kafka • Big Data • cypher • data modeling • graphconnect • Oracle • relational database • Titan
Graphs Are Feeding the World
By Bryce Merkl Sasaki
October 19, 2016 15 mins read
Editor’s Note: This presentation was given by Tim Williamson at GraphConnect San Francisco in October 2015. Here’s a quick review of what he covered: The needs of a growing population Leaps in scientific research Increasing crop yields with graph databases… Read more →
Keywords: ancestry data • apache spark • genomic data • genotype data • graph • graphconnect • HBase • Kafka • monsanto • Oracle
Using Neo4j & Structr to Measure the Impact of 1 Tonne of Carbon
By Bryce Merkl Sasaki
October 5, 2016 4 mins read
Structr is a Silver sponsor of GraphConnect San Francisco. Meet their team on October 13-14th at the Hyatt Regency SF. It’s on the news all the time: climate change, global warming, etc. Advocated by politicians like Al Gore and President… Read more →
Keywords: ACID • application framework • content management system • enterprise content management • global warming • graph database • neo4j • relational database • sql • Structr
The 5-Minute Interview: Irina Balaur, Researcher at EISBM
By Rachel Howard
September 23, 2016 3 mins read
For this week’s 5-Minute Interview, I chatted with Irina Balaur, Postdoctoral Researcher at the European Institute for Systems Biology and Medicine in Lyon, France. I caught up with Irina at GraphConnect Europe last April. Here’s what we talked about: Talk… Read more →
Keywords: 5-minute interview • biomedical data • cypher • data integration • data management • declarative query language • eTRIKS • knowledge management • systems biology • translational medicine
My Neo4j Summer Road Trip to the World of Healthcare [Part 4]
By Bryce Merkl Sasaki
September 7, 2016 11 mins read
Part 4: Create Relationships with FuzzyWuzzy Welcome back to my adventure to the world of healthcare! In the past three blog posts, I have discussed the data model of the healthcare graph, loading XML data into Neo4j and cleaning CSV… Read more →
Keywords: cypher • FuzzyWuzzy • graph database • graph technology • Healthcare • neo4j • python • RxNorm • string matching • string processing
Data Management in Systems Biology and Medicine
By Bryce Merkl Sasaki
August 10, 2016 10 mins read
Editor’s Note: This presentation was given by Irina Balaur at GraphConnect Europe in April 2016. Here’s a quick review of what she covered: Integrating Data for Translational Medicine Informatics Incorporating a Graph Database into the eTRIKS Data Architecture The Data… Read more →
Keywords: Bayesian network • data analytics • data integration • data management • Data Visualization • epigenetics • graphconnect • medicine informatics • systems biology • translational medicine
My Neo4j Summer Road Trip to the World of Healthcare [Part 3]
By Bryce Merkl Sasaki
August 8, 2016 6 mins read
Part 3: Cleaning CSV Files in Bash Hi friends and welcome back to my summer road trip through the world of healthcare. For those who are new to my adventure, this is the third part of the blog series. Catch… Read more →
Keywords: bash • CSV files • data modeling • etl • graph database • Healthcare • Load CSV • National Provider Identifier • NPI • python
My Neo4j Summer Road Trip to the World of Healthcare [Part 2]
By Bryce Merkl Sasaki
July 25, 2016 11 mins read
Part 2: Visualize XML Files in Neo4j with APOC Welcome back to my Neo4j summer adventure. In my previous post, I gathered all the available data and explored how to model the data into a healthcare graph. Starting with… Read more →
Keywords: APOC • cypher • gun control • Healthcare • lobbying contributions • lobbying disclosures • Medicaid • Medicare • python • XML
My Neo4j Summer Road Trip to the World of Healthcare [Part 1]
By Bryce Merkl Sasaki
July 4, 2016 7 mins read
Nothing excites me more than getting on an adventurous road trip to explore the unknown. What’s even better is this adventure doesn’t involve getting sweaty and exhausted to drive long hours in the middle of nowhere. Yes, I’m talking about… Read more →
Keywords: cypher • drug manufacturer • etl • FDA • Graph Databases • Healthcare • lobbying disclosures • Medicare • neo4j • prescription drug abuse
Neo4j 3.0 and the Graph of the Universe
By Bryce Merkl Sasaki
April 28, 2016 4 mins read
The Cosmic Web Paper by the Barabasi Lab After I came across this tweet the other night, Turns out the universe is just a very big graph database: https://t.co/tKkTLnNpqK pic.twitter.com/hh4s5pKWPI— David J Carr (@djc1805) April 22, 2016 I checked out… Read more →
Keywords: binary protocol • bolt • cosmic web • csv data • graph • graph visualization • javascript • Load CSV • neo4j 3.0 • ngraph