An alternative implementation — By Sixing Huang and Liang Li. Inspired by Maruthi Prithivirajan Lokananthan. Knowledge graphs are semantic graph databases. We encode our knowledge into a series of subject-predicate-object triples and import them into the graphs. Knowledge graphs can integrate information from multiple sources. As a result, they can enrich user experience by…

Uphold data quality at data entry — High quality data is the key to success in data projects. Data scientists spend a considerable amount of time and energy on data quality checks. They need to catch a wide range of quality issues such as typos, missing data, outliers and wrong formats and fix them. In general, the…

How to store your CAZy knowledge in AuraDB — Our world is full of data and information. But it takes effort and time to turn them into knowledge and ultimately wisdom. And one of the key processes is the formatting of data. Suitable formats ease our understanding and make discovery easy. And knowledge graph is one such format. A…

How to do bioinformatics with a modern data stack — The Carbohydrate-Active enZYmes (CAZy) database is a web portal that provides information about enzymes that synthesize, modify or degrade carbohydrates (CAZymes). It is a very valuable resource for genomic scientists. They use the CAZy database to identify new CAZymes, predict their functions and study new genomes. In my previous article…

For me, GPT-3 is still the one — In my previous articles, I have given lots of praise to GPT-3, a text generator from OpenAI. In my medical chatbot Doctor.ai, I used GPT-3 to convert English to Neo4j’s Cypher, translate German, Chinese and Japanese to English, extract subject-verb-object from raw texts (1 & 2), and ELI5 complex medical…

Accelerate knowledge graph construction with an all-star NLP pipeline — In my previous article Relationship Extraction with GPT-3, I have demonstrated how we can use the powerful GPT-3 to extract subject-verb-object relationships such as gene regulations and metabolic capacities from research article excerpts. GPT-3 not only correctly recognizes the name entities, but it also does the necessary noun-verb conversions and…

Write your first Solidity Smart Contract — It is open to debate whether we are heading into the blockchain economy (1). But there is little doubt that this decentralized public ledger has the potential to revolutionize the financial system. It is mostly known as the technology that powers Bitcoin, Ethereum and other cryptocurrencies (cryptos). …

Explain difficult concepts in layman’s terms in Doctor.ai — We humans get sick now and then. So we went to the doctors. However, the doctors have more or better information than the patients (that is also the reason why the patients go to see the doctors in the first place). …

Accelerate knowledge graph construction with GPT-3 — In my previous articles (1, 2, and 3), I have demonstrated that GPT-3 from OpenAI is a game-changing Natural Language Understanding (NLU) engine. GPT-3 is easy to learn and easy to repurpose. It is highly accurate in both content and format. In the case of Doctor.ai, compared to AWS Lex…