Han Ye

Saba Moeinizade, Hieu Pham, Ye Han et al.

For a global breeding organization, identifying the next generation of superior crops is vital for its success. Recognizing new genetic varieties requires years of in-field testing to gather data about the crop's yield, pest resistance, heat resistance, etc. At the conclusion of the growing season, organizations need to determine which varieties will be advanced to the next growing season (or sold to farmers) and which ones will be discarded from the candidate pool. Specifically for soybeans, identifying their relative maturity is a vital piece of information used for advancement decisions. However, this trait needs to be physically observed, and there are resource limitations (time, money, etc.) that bottleneck the data collection process. To combat this, breeding organizations are moving toward advanced image capturing devices. In this paper, we develop a robust and automatic approach for estimating the relative maturity of soybeans using a time series of UAV images. An end-to-end hybrid model combining Convolutional Neural Networks (CNN) and Long Short-Term Memory (LSTM) is proposed to extract features and capture the sequential behavior of time series data. The proposed deep learning model was tested on six different environments across the United States. Results suggest the effectiveness of our proposed CNN-LSTM model compared to the local regression method. Furthermore, we demonstrate how this newfound information can be used to aid in plant breeding advancement decisions.

Saeed Khaki, Hieu Pham, Ye Han et al.

The future landscape of modern farming and plant breeding is rapidly changing due to the complex needs of our society. The explosion of collectable data has started a revolution in agriculture to the point where innovation must occur. To a commercial organization, the accurate and efficient collection of information is necessary to ensure that optimal decisions are made at key points of the breeding cycle. However, due to the shear size of a breeding program and current resource limitations, the ability to collect precise data on individual plants is not possible. In particular, efficient phenotyping of crops to record its color, shape, chemical properties, disease susceptibility, etc. is severely limited due to labor requirements and, oftentimes, expert domain knowledge. In this paper, we propose a deep learning based approach, named DeepStand, for image-based corn stand counting at early phenological stages. The proposed method adopts a truncated VGG-16 network as a backbone feature extractor and merges multiple feature maps with different scales to make the network robust against scale variation. Our extensive computational experiments suggest that our proposed method can successfully count corn stands and out-perform other state-of-the-art methods. It is the goal of our work to be used by the larger agricultural community as a way to enable high-throughput phenotyping without the use of extensive time and labor requirements.

Jack Yutong Li, Ruoqing Zhu, Annie Qu et al.

Emergency Department (ED) crowding is a worldwide issue that affects the efficiency of hospital management and the quality of patient care. This occurs when the request for an admit ward-bed to receive a patient is delayed until an admission decision is made by a doctor. To reduce the overcrowding and waiting time of ED, we build a classifier to predict the disposition of patients using manually-typed nurse notes collected during triage, thereby allowing hospital staff to begin necessary preparation beforehand. However, these triage notes involve high dimensional, noisy, and also sparse text data which makes model fitting and interpretation difficult. To address this issue, we propose the semi-orthogonal non-negative matrix factorization (SONMF) for both continuous and binary design matrices to first bi-cluster the patients and words into a reduced number of topics. The subjects can then be interpreted as a non-subtractive linear combination of orthogonal basis topic vectors. These generated topic vectors provide the hospital with a direct understanding of the cause of admission. We show that by using a transformation of basis, the classification accuracy can be further increased compared to the conventional bag-of-words model and alternative matrix factorization approaches. Through simulated data experiments, we also demonstrate that the proposed method outperforms other non-negative matrix factorization (NMF) methods in terms of factorization accuracy, rate of convergence, and degree of orthogonality.