Grain characteristics, including kernel length, kernel width, and thousand kernel weight, are critical component traits for grain yield. Manual measurements and counting are expensive, forming the bottleneck for dissecting these traits’ genetic architectures toward ultimate yield improvement. High-throughput phenotyping methods have been developed by analyzing images of kernels. However, segmenting kernels from the image background and noise artifacts or from other kernels positioned in close proximity remain as challenges. In this study, we developed a software package, named GridFree, to overcome these challenges. GridFree uses an unsupervised machine learning approach, K-Means, to segment kernels from the background by using principal component analysis on both raw image channels and their color indices. GridFree incorporates users’ experiences as a dynamic criterion to set thresholds for a divide-and-combine strategy that effectively segments adjacent kernels. When adjacent multiple kernels are incorrectly segmented as a single object, they form an outlier on the distribution plot of kernel area, length, and width. GridFree uses the dynamic threshold settings for splitting and merging. In addition to counting, GridFree measures kernel length, width, and area with the option of scaling with a reference object. Evaluations against existing software programs demonstrated that GridFree had the smallest error on counting seeds for multiple crop species. GridFree was implemented in Python with a friendly graphical user interface to allow users to easily visualize the outcomes and make decisions, which ultimately eliminates time-consuming and repetitive manual labor. GridFree is freely available at the GridFree website (https://zzlab.net/GridFree).

Tissue extracellular matrix (ECM) is a structurally and compositionally unique microenvironment within which native cells can perform their natural biological activities. Cells grown on artificial substrata differ biologically and phenotypically from those grown within their native tissue microenvironment. Studies examining human tissue ECM structures and the biology of human tissue cells in their corresponding tissue ECM are lacking. Such investigations will improve our understanding about human pathophysiological conditions for better clinical care. We report here human normal breast tissue and invasive ductal carcinoma tissue ECM structural features. For the first time, a hydrogel was successfully fabricated using whole protein extracts of human normal breast ECM. Using immunofluorescence staining of type I collagen (Col I) and machine learning of its fibrous patterns in the polymerized human breast ECM hydrogel, we have defined the microstructural characteristics of the hydrogel and compared the microstructures with those of other native ECM hydrogels. Importantly, the ECM hydrogel supported 3D growth and cell-ECM interaction of both normal and cancerous mammary epithelial cells. This work represents further advancement toward full reconstitution of the human breast tissue microenvironment, an accomplishment that will accelerate the use of human pathophysiological tissue-derived matrices for individualized biomedical research and therapeutic development.

The Hagberg–Perten falling number (HFN) method is the international standard used to evaluate the damage to wheat (Triticum aestivum) grain quality due to preharvest sprouting (PHS) and late maturity alpha‐amylase (LMA). However, the HFN test requires specialized laboratory facilities and is time consuming. Spectrometers were known as a potential tool for quick HFN assessment, but none of the studies have validated the assessment results across different datasets. In this study, an independent validation was conducted using independent samples and spectral instruments. The calibration set had 462 grain samples of 92 varieties grown at 24 locations in 2019 and examined using a near‐infrared spectrometer. In the validation set, 19 varieties collected from 10 locations in 2 years that experienced either PHS or LMA were scanned with a hyperspectral camera. The association between spectra and HFN was modeled by partial least square regression. As a result, the independent validation correlation accuracy was r = 0.72 and a mean absolute error of 56 s. Furthermore, this study showed a cost‐effective alternative using only 10 spectral bands to predict HFN, and it achieved better performance than the full spectrum of the hyperspectral system. In conclusion, this is the first study that showed the potential that wheat HFN could be predicted on an independent dataset measured by a different instrument. The result suggested that spectrometers can potentially serve as a faster alternative for plant breeders to develop varieties resistant to PHS and LMA, and for growers to screen damaged grains in transportation processes.