Design and Validation of a Low-Cost Smartphone Based Fluorescence Detection Platform Compared with Conventional Microplate Readers

A low cost fluorescence-based optical system is developed for detecting the presence of certain microorganisms and molecules within a diluted sample. A specifically designed device setup compatible with conventional 96 well plates is chosen to create an ideal environment in which a smart phone camera can be used as the optical detector. In comparison with conventional microplate reading machines such as Perkin Elmer Victor Machine, the device presented in this paper is not equipped with expensive elements such as exciter filer, barrier filter and photomultiplier; instead, a phone camera is all needed to detect fluorescence within the sample. The strategy being involved is to determine the relationship between the image color of the sample in RGB color space and the molar concentration of the fluorescence specimen in that sample. This manuscript is a preprint version of work related to a publication in IEEE. The final version may differ from this manuscript.

Quantitative measurements of biological/chemical concentrations using smartphone cameras

This paper presents a smartphone-based imaging system capable of quantifying the concentration of an assortment of biological/chemical assay samples. The main objective is to construct an image database which characterizes the relationship between color information and concentrations of the biological/chemical assay sample. For this aim, a designated optical setup combined with image processing and data analyzing techniques was implemented. A series of experiments conducted on selected assays, including fluorescein, RNA Mango, homogenized milk and yeast have demonstrated that the proposed system estimates the concentration of fluorescent materials and colloidal mixtures comparable to currently used commercial and laboratory instruments. Furthermore, by utilizing the camera and computational power of smartphones, eventual development can be directed toward extremely compact, inexpensive and portable analysis and diagnostic systems which will allow experiments and tests to be conducted in remote or impoverished areas.

CrystalFormer-CSP: Thinking Fast and Slow for Crystal Structure Prediction

Crystal structure prediction is a fundamental problem in materials science. We present CrystalFormer-CSP, an efficient framework that unifies data-driven heuristic and physics-driven optimization approaches to predict stable crystal structures for given chemical compositions. The approach combines pretrained generative models for space-group-informed structure generation and a universal machine learning force field for energy minimization. Reinforcement fine-tuning can be employed to further boost the accuracy of the framework. We demonstrate the effectiveness of CrystalFormer-CSP on benchmark problems and showcase its usage via web interface and language model integration.

CrystalFormer-RL: Reinforcement Fine-Tuning for Materials Design

Reinforcement fine-tuning has instrumental enhanced the instruction-following and reasoning abilities of large language models. In this work, we explore the applications of reinforcement fine-tuning to the autoregressive transformer-based materials generative model CrystalFormer (arXiv:2403.15734) using discriminative machine learning models such as interatomic potentials and property prediction models. By optimizing reward signals-such as energy above the convex hull and material property figures of merit-reinforcement fine-tuning infuses knowledge from discriminative models into generative models. The resulting model, CrystalFormer-RL, shows enhanced stability in generated crystals and successfully discovers crystals with desirable yet conflicting material properties, such as substantial dielectric constant and band gap simultaneously. Notably, we observe that reinforcement fine-tuning enables not only the property-guided novel material design ability of generative pre-trained model but also unlocks property-driven material retrieval from the unsupervised pre-training dataset. Leveraging rewards from discriminative models to fine-tune materials generative models opens an exciting gateway to the synergies of the machine learning ecosystem for materials.

Space Group Informed Transformer for Crystalline Materials Generation

We introduce CrystalFormer, a transformer-based autoregressive model specifically designed for space group-controlled generation of crystalline materials. The space group symmetry significantly simplifies the crystal space, which is crucial for data and compute efficient generative modeling of crystalline materials. Leveraging the prominent discrete and sequential nature of the Wyckoff positions, CrystalFormer learns to generate crystals by directly predicting the species and locations of symmetry-inequivalent atoms in the unit cell. Our results demonstrate that CrystalFormer matches state-of-the-art performance on standard benchmarks for both validity, novelty, and stability of the generated crystalline materials. Our analysis also shows that CrystalFormer ingests sensible solid-state chemistry information from data for generative modeling. The CrystalFormer unifies symmetry-based structure search and generative pre-training in the realm of crystalline materials. The simplicity, generality, and flexibility of CrystalFormer position it as a promising architecture to be the foundational model of the entire crystalline materials space, heralding a new era in materials modeling and discovery.