Published in Towards Data Science·Jun 17, 2020Member-onlyIntegrating image and tabular data for deep learningUse fastai and image_tabular to integrate image and tabular data for deep learning and train a joint model using the integrated data — I recently participated in the SIIM-ISIC Melanoma Classification competition on Kaggle. In this competition, participants are asked to identify melanoma in images of skin lesions. Interestingly, they also provide metadata about the patient and the anatomic site in addition to the image. In essence, we have both image and structured…Deep Learning5 min readDeep Learning5 min read
Jan 10, 2020UFC Decade in Review — a Data Scientist’s PerspectiveI recently watched the fantastic UFC Decade in Review series, which summarized some of the most memorable moments that happened in the UFC every year from 2010 to 2020. Inspired by those videos, I decided to quickly review some UFC data accumulated over the last decade. The Number of UFC Fights Hit New High In 2019 UFC increased the number…UFC2 min readUFC2 min read
Published in Towards Data Science·Sep 14, 2019Member-onlyIntegrative analysis of single-cell multi-omics data using deep learning (with video tutorials)Video tutorial #1: Video tutorial #2: Single-cell RNA sequencing (scRNA-seq) has offered a comprehensive and unbiased approach to profile immune cells including T cells with a single-cell resolution using next‑generation sequencing. More recently, exciting technologies such as cellular indexing of transcriptomes and epitopes by sequencing…Machine Learning5 min readMachine Learning5 min read
Published in Towards Data Science·Apr 22, 2019Member-onlyReFocus: Making Out-of-Focus Microscopy Images In-Focus AgainMicroscopy images are widely used for the diagnosis of various diseases such as infections and cancers. Furthermore, they facilitate basic biomedical research that has been continuously generating new insights into the causes of human diseases. Therefore, microscopy images are of great importance in improving our health. However, obtaining high-quality in-focus…Deep Learning5 min readDeep Learning5 min read
Published in Becoming Human: Artificial Intelligence Magazine·Feb 23, 2019Predicting T Cell Receptor Specificity with Deep LearningOur immune system protects us from various infectious diseases and cancers, and T cells are “foot soldiers” of the immune system and are essential for protective immunity. T cells recognize infected and cancer cells via the interactions between T cell receptors (TCRs) that are expressed on the surface of T…Machine Learning5 min readMachine Learning5 min read
Nov 26, 2018Predict UFC Fights with Deep Learning II — Data collection and implementation in PyTorchSince the publication of my first post “Predict UFC Fights with Deep Learning”, I have received many requests for the datasets used in the project. Therefore, I have decided to open source the code for scraping the data in this follow-up post. …Machine Learning2 min readMachine Learning2 min read
Oct 27, 2018Building my own deep learning and gaming rigI have been teaching myself deep learning by following online courses including Andrew Ng’s Deep Learning Specialization and Practical Deep Learning For Coders taught by Jeremy Howard and Rachel Thomas. I wanted to build my own rig for deep learning and gaming (not gonna lie here) but was waiting for…Machine Learning3 min readMachine Learning3 min read
Aug 26, 2018Predicting peptide immunogenicity with deep learningMy colleague and friend Dr. Sandeep Kumar Dhanda recently published a paper where he used a neural network-based method called NNAlign to predict the ability of peptides to induce human CD4 T cell responses (termed immunogenicity). Notably, he achieved an average area under the ROC curve (AUC) score of 0.7…Machine Learning4 min readMachine Learning4 min read
Jun 20, 2018What does Dr. Eric Topol Tweet?Dr. Eric Topol is a physician-scientist and a pioneer in the field of digital medicine. He currently serves as Executive VP of The Scripps Research Institute (TSRI) in La Jolla, California. Dr. Topol is also the Founder and Director of the Scripps Translational Science Institute (STSI), which is about 3…Data Analysis3 min readData Analysis3 min read
Published in Becoming Human: Artificial Intelligence Magazine·Jun 3, 2018Detecting Pneumonia with Deep LearningPneumonia is lung inflammation caused by infection with virus, bacteria, fungi or other pathogens. According to National Institutes of Health (NIH), chest x ray is the best test for pneumonia diagnosis. However, reading x ray images can be tricky and requires domain expertise and experience. It would be nice if…Machine Learning6 min readMachine Learning6 min read
