arXiv subjects

Weikang Wang

Publications and source records attributed to Weikang Wang.

23 records · Page 2Linked to original sources

arXiv2021

Cell phenotypic transition proceeds through concerted reorganization of gene regulatory network

Phenotype transition takes place in many biological processes such as differentiation, and understanding how a cell reprograms its global gene expression profile is a problem of rate theories. A cell phenotype transition accompanies with switching of expression rates of clusters of genes, analogous to domain flipping in an Ising system. Here through analyzing single cell RNA sequencing data in the framework of transition path theory, we set to study how such a genome-wide expression program switching proceeds in three different cell transition processes. For each process after reconstructing a Markov transition model in the cell state space, we formed an ensemble of shortest paths connecting the initial and final cell states, reconstructed a reaction coordinate describing the transition progression, and inferred the gene regulation network (GRN) along the reaction coordinate. In all three processes we observed common pattern that the frustration of gene regulatory network (GRN), defined as overall confliction between the regulation received by genes and their expression states, first increases then decreases when approaching a new phenotype. The results support a mechanism of concerted silencing of genes that are active in the initial phenotype and activation of genes that are active in the final phenotype.

q-bio.MN↗

arXiv2021

Calculate Center-of-Inertia Frequency and System RoCoF Using PMU Data

The power system frequency is important for the system overall stability. However, there does not exist a single measurement point of the system frequency due to the distributed nature of the system inertia and the small inconsistency of different generator rotor electrical speeds in one synchronized system. This paper proposed a new approach to calculate the system center-of-inertia (COI) frequency and the rate-of-change-of-frequency (RoCoF) more accurately using PMU data at multiple locations. The COI frequency and the RoCoF value were further used to assist fast estimation of the imbalance MW amount of a frequency event. Test results using actual measurements in the U.S. Eastern Interconnection system validated the effectiveness of the proposed method.

eess.SY↗

arXiv2019

Are You for Real? Detecting Identity Fraud via Dialogue Interactions

Identity fraud detection is of great importance in many real-world scenarios such as the financial industry. However, few studies addressed this problem before. In this paper, we focus on identity fraud detection in loan applications and propose to solve this problem with a novel interactive dialogue system which consists of two modules. One is the knowledge graph (KG) constructor organizing the personal information for each loan applicant. The other is structured dialogue management that can dynamically generate a series of questions based on the personal KG to ask the applicants and determine their identity states. We also present a heuristic user simulator based on problem analysis to evaluate our method. Experiments have shown that the trainable dialogue system can effectively detect fraudsters, and achieve higher recognition accuracy compared with rule-based systems. Furthermore, our learned dialogue strategies are interpretable and flexible, which can help promote real-world applications.

cs.CL↗

arXiv2019

Incremental Learning from Scratch for Task-Oriented Dialogue Systems

Clarifying user needs is essential for existing task-oriented dialogue systems. However, in real-world applications, developers can never guarantee that all possible user demands are taken into account in the design phase. Consequently, existing systems will break down when encountering unconsidered user needs. To address this problem, we propose a novel incremental learning framework to design task-oriented dialogue systems, or for short Incremental Dialogue System (IDS), without pre-defining the exhaustive list of user needs. Specifically, we introduce an uncertainty estimation module to evaluate the confidence of giving correct responses. If there is high confidence, IDS will provide responses to users. Otherwise, humans will be involved in the dialogue process, and IDS can learn from human intervention through an online learning module. To evaluate our method, we propose a new dataset which simulates unanticipated user needs in the deployment stage. Experiments show that IDS is robust to unconsidered user actions, and can update itself online by smartly selecting only the most effective training data, and hence attains better performance with less annotation cost.

cs.CL↗

arXiv2019

Learn to segment single cells with deep distance estimator and deep cell detector

Single cell segmentation is critical and challenging in live cell imaging data analysis. Traditional image processing methods and tools require time-consuming and labor-intensive efforts of manually fine-tuning parameters. Slight variations of image setting may lead to poor segmentation results. Recent development of deep convolutional neural networks(CNN) provides a potentially efficient, general and robust method for segmentation. Most existing CNN-based methods treat segmentation as a pixel-wise classification problem. However, three unique problems of cell images adversely affect segmentation accuracy: lack of established training dataset, few pixels on cell boundaries, and ubiquitous blurry features. The problem becomes especially severe with densely packed cells, where a pixel-wise classification method tends to identify two neighboring cells with blurry shared boundary as one cell, leading to poor cell count accuracy and affecting subsequent analysis. Here we developed a different learning strategy that combines strengths of CNN and watershed algorithm. The method first trains a CNN to learn Euclidean distance transform of binary masks corresponding to the input images. Then another CNN is trained to detect individual cells in the Euclidean distance transform. In the third step, the watershed algorithm takes the outputs from the previous steps as inputs and performs the segmentation. We tested the combined method and various forms of the pixel-wise classification algorithm on segmenting fluorescence and transmitted light images. The new method achieves similar pixel accuracy but significant higher cell count accuracy than pixel-wise classification methods do, and the advantage is most obvious when applying on noisy images of densely packed cells.

q-bio.QM↗