Finding Answers from the Word of God: Domain Adaptation for Neural Networks in Biblical Question Answering

Question answering (QA) has significantly benefitted from deep learning techniques in recent years. However, domain-specific QA remains a challenge due to the significant amount of data required to train a neural network. This paper studies the answer sentence selection task in the Bible domain and answer questions by selecting relevant verses from the Bible. For this purpose, we create a new dataset BibleQA based on bible trivia questions and propose three neural network models for our task. We pre-train our models on a large-scale QA dataset, SQuAD, and investigate the effect of transferring weights on model accuracy. Furthermore, we also measure the model accuracies with different answer context lengths and different Bible translations. We affirm that transfer learning has a noticeable improvement in the model accuracy. We achieve relatively good results with shorter context lengths, whereas longer context lengths decreased model accuracy. We also find that using a more modern Bible translation in the dataset has a positive effect on the task.Comment: The paper has been accepted at IJCNN 201

Robust estimation of bacterial cell count from optical density

Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data