Zhou, Chenhong
Long-lead forecasts of wintertime air stagnation index in southern China using oceanic memory effects
Zhou, Chenhong, Zhang, Xiaorui, Gao, Meng, Liu, Shanshan, Guo, Yike, Chen, Jie
Stagnant weather condition is one of the major contributors to air pollution as it is favorable for the formation and accumulation of pollutants. To measure the atmosphere's ability to dilute air pollutants, Air Stagnation Index (ASI) has been introduced as an important meteorological index. Therefore, making long-lead ASI forecasts is vital to make plans in advance for air quality management. In this study, we found that autumn Ni\~no indices derived from sea surface temperature (SST) anomalies show a negative correlation with wintertime ASI in southern China, offering prospects for a prewinter forecast. We developed an LSTM-based model to predict the future wintertime ASI. Results demonstrated that multivariate inputs (past ASI and Ni\~no indices) achieve better forecast performance than univariate input (only past ASI). The model achieves a correlation coefficient of 0.778 between the actual and predicted ASI, exhibiting a high degree of consistency.
KRADA: Known-region-aware Domain Alignment for Open-set Domain Adaptation in Semantic Segmentation
Zhou, Chenhong, Liu, Feng, Gong, Chen, Zeng, Rongfei, Liu, Tongliang, Cheung, William K., Han, Bo
In semantic segmentation, we aim to train a pixel-level classifier to assign category labels to all pixels in an image, where labeled training images and unlabeled test images are from the same distribution and share the same label set. However, in an open world, the unlabeled test images probably contain unknown categories and have different distributions from the labeled images. Hence, in this paper, we consider a new, more realistic, and more challenging problem setting where the pixel-level classifier has to be trained with labeled images and unlabeled open-world images -- we name it open-set domain adaptation segmentation (OSDAS). In OSDAS, the trained classifier is expected to identify unknown-class pixels and classify known-class pixels well. To solve OSDAS, we first investigate which distribution that unknown-class pixels obey. Then, motivated by the goodness-of-fit test, we use statistical measurements to show how a pixel fits the distribution of an unknown class and select highly-fitted pixels to form the unknown region in each test image. Eventually, we propose an end-to-end learning framework, known-region-aware domain alignment (KRADA), to distinguish unknown classes while aligning the distributions of known classes in labeled and unlabeled open-world images. The effectiveness of KRADA has been verified on two synthetic tasks and one COVID-19 segmentation task.
One-pass Multi-task Networks with Cross-task Guided Attention for Brain Tumor Segmentation
Zhou, Chenhong, Ding, Changxing, Wang, Xinchao, Lu, Zhentai, Tao, Dacheng
Class imbalance has been one of the major challenges for medical image segmentation. The model cascade (MC) strategy significantly alleviates class imbalance issue. In spite of its outstanding performance, this method leads to an undesired system complexity and meanwhile ignores the relevance among the models. To handle these flaws of MC, we propose in this paper a light-weight deep model, i.e., the One-pass Multi-task Network (OM-Net) to solve class imbalance better than MC and require only one-pass computation for brain tumor segmentation. First, OM-Net integrates the separate segmentation tasks into one deep model. Second, to optimize OM-Net more effectively, we take advantage of the correlation among tasks to design an online training data transfer strategy and a curriculum learning-based training strategy. Third, we further propose to share prediction results between tasks, which enables us to design a cross-task guided attention (CGA) module. With the guidance of prediction results provided by the previous task, CGA can adaptively recalibrate channel-wise feature responses based on the category-specific statistics. Finally, a simple yet effective post-processing method is introduced to refine the segmentation results of the proposed attention network. Extensive experiments are performed to justify the effectiveness of the proposed techniques. Most impressively, we achieve state-of-the-art performance on the BraTS 2015 and BraTS 2017 datasets. With the proposed approaches, we also won the joint third place in the BraTS 2018 challenge among 64 participating teams. We will make the code publicly available at https://github.com/chenhong-zhou/OM-Net.
Identifying the Best Machine Learning Algorithms for Brain Tumor Segmentation, Progression Assessment, and Overall Survival Prediction in the BRATS Challenge
Bakas, Spyridon, Reyes, Mauricio, Jakab, Andras, Bauer, Stefan, Rempfler, Markus, Crimi, Alessandro, Shinohara, Russell Takeshi, Berger, Christoph, Ha, Sung Min, Rozycki, Martin, Prastawa, Marcel, Alberts, Esther, Lipkova, Jana, Freymann, John, Kirby, Justin, Bilello, Michel, Fathallah-Shaykh, Hassan, Wiest, Roland, Kirschke, Jan, Wiestler, Benedikt, Colen, Rivka, Kotrotsou, Aikaterini, Lamontagne, Pamela, Marcus, Daniel, Milchenko, Mikhail, Nazeri, Arash, Weber, Marc-Andre, Mahajan, Abhishek, Baid, Ujjwal, Kwon, Dongjin, Agarwal, Manu, Alam, Mahbubul, Albiol, Alberto, Albiol, Antonio, Alex, Varghese, Tran, Tuan Anh, Arbel, Tal, Avery, Aaron, B., Pranjal, Banerjee, Subhashis, Batchelder, Thomas, Batmanghelich, Kayhan, Battistella, Enzo, Bendszus, Martin, Benson, Eze, Bernal, Jose, Biros, George, Cabezas, Mariano, Chandra, Siddhartha, Chang, Yi-Ju, Chazalon, Joseph, Chen, Shengcong, Chen, Wei, Chen, Jefferson, Cheng, Kun, Christoph, Meinel, Chylla, Roger, Clérigues, Albert, Costa, Anthony, Cui, Xiaomeng, Dai, Zhenzhen, Dai, Lutao, Deutsch, Eric, Ding, Changxing, Dong, Chao, Dudzik, Wojciech, Estienne, Théo, Shin, Hyung Eun, Everson, Richard, Fabrizio, Jonathan, Fang, Longwei, Feng, Xue, Fidon, Lucas, Fridman, Naomi, Fu, Huan, Fuentes, David, Gering, David G, Gao, Yaozong, Gates, Evan, Gholami, Amir, Gong, Mingming, González-Villá, Sandra, Pauloski, J. Gregory, Guan, Yuanfang, Guo, Sheng, Gupta, Sudeep, Thakur, Meenakshi H, Maier-Hein, Klaus H., Han, Woo-Sup, He, Huiguang, Hernández-Sabaté, Aura, Herrmann, Evelyn, Himthani, Naveen, Hsu, Winston, Hsu, Cheyu, Hu, Xiaojun, Hu, Xiaobin, Hu, Yan, Hu, Yifan, Hua, Rui, Huang, Teng-Yi, Huang, Weilin, Huo, Quan, HV, Vivek, Isensee, Fabian, Islam, Mobarakol, Albiol, Francisco J., Wang, Chiatse J., Jambawalikar, Sachin, Jose, V Jeya Maria, Jian, Weijian, Jin, Peter, Jungo, Alain, Nuechterlein, Nicholas K, Kao, Po-Yu, Kermi, Adel, Keutzer, Kurt, Khened, Mahendra, Kickingereder, Philipp, King, Nik, Knapp, Haley, Knecht, Urspeter, Kohli, Lisa, Kong, Deren, Kong, Xiangmao, Koppers, Simon, Kori, Avinash, Krishnamurthi, Ganapathy, Kumar, Piyush, Kushibar, Kaisar, Lachinov, Dmitrii, Lee, Joon, Lee, Chengen, Lee, Yuehchou, Lefkovits, Szidonia, Lefkovits, Laszlo, Li, Tengfei, Li, Hongwei, Li, Wenqi, Li, Hongyang, Li, Xiaochuan, Lin, Zheng-Shen, Lin, Fengming, Liu, Chang, Liu, Boqiang, Liu, Xiang, Liu, Mingyuan, Liu, Ju, Lladó, Xavier, Luo, Lin, Iftekharuddin, Khan M., Tsai, Yuhsiang M., Ma, Jun, Ma, Kai, Mackie, Thomas, Mahmoudi, Issam, Marcinkiewicz, Michal, McKinley, Richard, Mehta, Sachin, Mehta, Raghav, Meier, Raphael, Merhof, Dorit, Meyer, Craig, Mitra, Sushmita, Moiyadi, Aliasgar, Mrukwa, Grzegorz, Monteiro, Miguel A. B., Myronenko, Andriy, Carver, Eric N, Nalepa, Jakub, Ngo, Thuyen, Niu, Chen, Oermann, Eric, Oliveira, Arlindo, Oliver, Arnau, Ourselin, Sebastien, French, Andrew P., Pound, Michael P., Pridmore, Tony P., Serrano-Rubio, Juan Pablo, Paragios, Nikos, Paschke, Brad, Pei, Linmim, Peng, Suting, Pham, Bao, Piella, Gemma, Pillai, G. N., Piraud, Marie, Popli, Anmol, Prčkovska, Vesna, Puch, Santi, Puybareau, Élodie, Qiao, Xu, Suter, Yannick R, Scott, Matthew R., Rane, Swapnil, Rebsamen, Michael, Ren, Hongliang, Ren, Xuhua, Rezaei, Mina, Lorenzo, Pablo Ribalta, Rippel, Oliver, Robert, Charlotte, Choudhury, Ahana Roy, Jackson, Aaron S., Manjunath, B. S., Salem, Mostafa, Salvi, Joaquim, Sánchez, Irina, Schellingerhout, Dawid, Shboul, Zeina, Shen, Haipeng, Shen, Dinggang, Shenoy, Varun, Shi, Feng, Shu, Hai, Snyder, James, Han, Il Song, Soni, Mehul, Stawiaski, Jean, Subramanian, Shashank, Sun, Li, Sun, Roger, Sun, Jiawei, Sun, Kay, Sun, Yu, Sun, Guoxia, Sun, Shuang, Park, Moo Sung, Szilagyi, Laszlo, Talbar, Sanjay, Tao, Dacheng, Tao, Dacheng, Khadir, Mohamed Tarek, Thakur, Siddhesh, Tochon, Guillaume, Tran, Tuan, Tseng, Kuan-Lun, Turlapov, Vadim, Tustison, Nicholas, Shankar, B. Uma, Vakalopoulou, Maria, Valverde, Sergi, Vanguri, Rami, Vasiliev, Evgeny, Vercauteren, Tom, Vidyaratne, Lasitha, Vivekanandan, Ajeet, Wang, Guotai, Wang, Qian, Wang, Weichung, Wen, Ning, Wen, Xin, Weninger, Leon, Wick, Wolfgang, Wu, Shaocheng, Wu, Qiang, Xia, Yong, Xu, Yanwu, Xu, Xiaowen, Xu, Peiyuan, Yang, Tsai-Ling, Yang, Xiaoping, Yang, Hao-Yu, Yang, Junlin, Yang, Haojin, Yao, Hongdou, Young-Moxon, Brett, Yue, Xiangyu, Zhang, Songtao, Zhang, Angela, Zhang, Kun, Zhang, Xuejie, Zhang, Lichi, Zhang, Xiaoyue, Zhao, Sicheng, Zhao, Yu, Zheng, Yefeng, Zhong, Liming, Zhou, Chenhong, Zhou, Xiaobing, Zhu, Hongtu, Zong, Weiwei, Kalpathy-Cramer, Jayashree, Farahani, Keyvan, Davatzikos, Christos, van Leemput, Koen, Menze, Bjoern
Gliomas are the most common primary brain malignancies, with different degrees of aggressiveness, variable prognosis and various heterogeneous histologic sub-regions, i.e., peritumoral edematous/invaded tissue, necrotic core, active and non-enhancing core. This intrinsic heterogeneity is also portrayed in their radio-phenotype, as their sub-regions are depicted by varying intensity profiles disseminated across multi-parametric magnetic resonance imaging (mpMRI) scans, reflecting varying biological properties. Their heterogeneous shape, extent, and location are some of the factors that make these tumors difficult to resect, and in some cases inoperable. The amount of resected tumor is a factor also considered in longitudinal scans, when evaluating the apparent tumor for potential diagnosis of progression. Furthermore, there is mounting evidence that accurate segmentation of the various tumor sub-regions can offer the basis for quantitative image analysis towards prediction of patient overall survival. This study assesses the state-of-the-art machine learning (ML) methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International Brain Tumor Segmentation (BraTS) challenge, i.e. 2012-2018. Specifically, we focus on i) evaluating segmentations of the various glioma sub-regions in pre-operative mpMRI scans, ii) assessing potential tumor progression by virtue of longitudinal growth of tumor sub-regions, beyond use of the RECIST criteria, and iii) predicting the overall survival from pre-operative mpMRI scans of patients that undergone gross total resection. Finally, we investigate the challenge of identifying the best ML algorithms for each of these tasks, considering that apart from being diverse on each instance of the challenge, the multi-institutional mpMRI BraTS dataset has also been a continuously evolving/growing dataset.