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584 results on '"Yu, Jiyang"'

1. Integrome signatures of lentiviral gene therapy for SCID-X1 patients.

Author

Yan, Koon-Kiu, Condori, Jose, Ma, Zhijun, Metais, Jean-Yves, Ju, Bensheng, Ding, Liang, Dhungana, Yogesh, Palmer, Lance, Langfitt, Deanna, Ferrara, Francesca, Throm, Robert, Shi, Hao, Risch, Isabel, Bhatara, Sheetal, Shaner, Bridget, Lockey, Timothy, Talleur, Aimee, Easton, John, Meagher, Michael, Puck, Jennifer, Zhou, Sheng, Mamcarz, Ewelina, Gottschalk, Stephen, Yu, Jiyang, and Cowan, Morton

Abstract

Lentiviral vector (LV)-based gene therapy holds promise for a broad range of diseases. Analyzing more than 280,000 vector integration sites (VISs) in 273 samples from 10 patients with X-linked severe combined immunodeficiency (SCID-X1), we discovered shared LV integrome signatures in 9 of 10 patients in relation to the genomics, epigenomics, and 3D structure of the human genome. VISs were enriched in the nuclear subcompartment A1 and integrated into super-enhancers close to nuclear pore complexes. These signatures were validated in T cells transduced with an LV encoding a CD19-specific chimeric antigen receptor. Intriguingly, the one patient whose VISs deviated from the identified integrome signatures had a distinct clinical course. Comparison of LV and gamma retrovirus integromes regarding their 3D genome signatures identified differences that might explain the lower risk of insertional mutagenesis in LV-based gene therapy. Our findings suggest that LV integrome signatures, shaped by common features such as genome organization, may affect the efficacy of LV-based cellular therapies.

Published
2023

2. Modular chimeric cytokine receptors with leucine zippers enhance the antitumour activity of CAR T cells via JAK/STAT signalling

Author

Bell, Matthew, Lange, Shannon, Sejdiu, Besian I., Ibanez, Jorge, Shi, Hao, Sun, Xiang, Meng, Xiaoxi, Nguyen, Phuong, Sutton, Morgan, Wagner, Jessica, KC, Anil, Langfitt, Deanna, Patil, Sagar L., Tan, Haiyan, Pandey, Ram Vinay, Li, Yuxin, Yuan, Zuo-Fei, Anido, Alejandro Allo, Ho, Mitchell, Sheppard, Heather, Vogel, Peter, Yu, Jiyang, Peng, Junmin, Chi, Hongbo, Babu, M. Madan, Krenciute, Giedre, and Gottschalk, Stephen

Published
2024
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3. SE-ORNet: Self-Ensembling Orientation-aware Network for Unsupervised Point Cloud Shape Correspondence

Author

Deng, Jiacheng, Wang, Chuxin, Lu, Jiahao, He, Jianfeng, Zhang, Tianzhu, Yu, Jiyang, and Zhang, Zhe

Subjects
Computer Science - Computer Vision and Pattern Recognition
Abstract

Unsupervised point cloud shape correspondence aims to obtain dense point-to-point correspondences between point clouds without manually annotated pairs. However, humans and some animals have bilateral symmetry and various orientations, which lead to severe mispredictions of symmetrical parts. Besides, point cloud noise disrupts consistent representations for point cloud and thus degrades the shape correspondence accuracy. To address the above issues, we propose a Self-Ensembling ORientation-aware Network termed SE-ORNet. The key of our approach is to exploit an orientation estimation module with a domain adaptive discriminator to align the orientations of point cloud pairs, which significantly alleviates the mispredictions of symmetrical parts. Additionally, we design a selfensembling framework for unsupervised point cloud shape correspondence. In this framework, the disturbances of point cloud noise are overcome by perturbing the inputs of the student and teacher networks with different data augmentations and constraining the consistency of predictions. Extensive experiments on both human and animal datasets show that our SE-ORNet can surpass state-of-the-art unsupervised point cloud shape correspondence methods.

Published
2023

4. Video2StyleGAN: Encoding Video in Latent Space for Manipulation

Author

Yu, Jiyang, Liu, Jingen, Huang, Jing, Zhang, Wei, and Mei, Tao

Subjects
Computer Science - Computer Vision and Pattern Recognition
Abstract

Many recent works have been proposed for face image editing by leveraging the latent space of pretrained GANs. However, few attempts have been made to directly apply them to videos, because 1) they do not guarantee temporal consistency, 2) their application is limited by their processing speed on videos, and 3) they cannot accurately encode details of face motion and expression. To this end, we propose a novel network to encode face videos into the latent space of StyleGAN for semantic face video manipulation. Based on the vision transformer, our network reuses the high-resolution portion of the latent vector to enforce temporal consistency. To capture subtle face motions and expressions, we design novel losses that involve sparse facial landmarks and dense 3D face mesh. We have thoroughly evaluated our approach and successfully demonstrated its application to various face video manipulations. Particularly, we propose a novel network for pose/expression control in a 3D coordinate system. Both qualitative and quantitative results have shown that our approach can significantly outperform existing single image methods, while achieving real-time (66 fps) speed.

Published
2022

5. Loss of phosphatase CTDNEP1 potentiates aggressive medulloblastoma by triggering MYC amplification and genomic instability.

Author

Luo, Zaili, Xin, Dazhuan, Liao, Yunfei, Berry, Kalen, Ogurek, Sean, Zhang, Feng, Zhang, Liguo, Zhao, Chuntao, Rao, Rohit, Dong, Xinran, Li, Hao, Yu, Jianzhong, Lin, Yifeng, Huang, Guoying, Xu, Lingli, Xin, Mei, Nishinakamura, Ryuichi, Yu, Jiyang, Kool, Marcel, Pfister, Stefan M, Roussel, Martine F, Zhou, Wenhao, Weiss, William A, Andreassen, Paul, and Lu, Q Richard

Subjects
Animals, Humans, Mice, Medulloblastoma, Brain Neoplasms, Cerebellar Neoplasms, Cell Transformation, Neoplastic, Genomic Instability, Phosphoric Monoester Hydrolases, Proto-Oncogene Proteins c-myc, Child, Phosphoprotein Phosphatases, Pediatric Cancer, Genetics, Human Genome, Brain Cancer, Pediatric, Rare Diseases, Brain Disorders, Cancer, Neurosciences, Development of treatments and therapeutic interventions, 2.1 Biological and endogenous factors, Aetiology, 5.1 Pharmaceuticals
Abstract

MYC-driven medulloblastomas are highly aggressive childhood brain tumors, however, the molecular and genetic events triggering MYC amplification and malignant transformation remain elusive. Here we report that mutations in CTDNEP1, a CTD nuclear-envelope-phosphatase, are the most significantly enriched recurrent alterations in MYC-driven medulloblastomas, and define high-risk subsets with poorer prognosis. Ctdnep1 ablation promotes the transformation of murine cerebellar progenitors into Myc-amplified medulloblastomas, resembling their human counterparts. CTDNEP1 deficiency stabilizes and activates MYC activity by elevating MYC serine-62 phosphorylation, and triggers chromosomal instability to induce p53 loss and Myc amplifications. Further, phosphoproteomics reveals that CTDNEP1 post-translationally modulates the activities of key regulators for chromosome segregation and mitotic checkpoint regulators including topoisomerase TOP2A and checkpoint kinase CHEK1. Co-targeting MYC and CHEK1 activities synergistically inhibits CTDNEP1-deficient MYC-amplified tumor growth and prolongs animal survival. Together, our studies demonstrate that CTDNEP1 is a tumor suppressor in highly aggressive MYC-driven medulloblastomas by controlling MYC activity and mitotic fidelity, pointing to a CTDNEP1-dependent targetable therapeutic vulnerability.

Published
2023

7. Motion feature simulation based on wearable sensors and global search algorithms

Author

Yu Jiyang

Subjects
Wearable sensor, Global search algorithm, Motion characteristics, Simulation, Electric apparatus and materials. Electric circuits. Electric networks, TK452-454.4
Abstract

With the development of wearable technology, it is often difficult to accurately describe motion features with sensor data alone. To solve these problems, a simulation method based on global search algorithm is proposed, which combines sensor data and global search algorithm to capture motion features better. On the basis of analyzing the advantages and disadvantages of traditional motion feature extraction methods, this paper uses a global search algorithm to optimize sensor data to eliminate noise and fill data gaps, and get more accurate motion features. Through in-depth study of machine learning related theories, a model is established and its characteristics are deeply explored. The experimental results show that the simulation method based on wearable sensor and global search algorithm can effectively simulate motion features. Compared with the traditional analysis method based on sensor raw data, the proposed method can provide more accurate and comprehensive motion feature analysis results, reduce workload and time cost, and improve motion efficiency.

Published
2024
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13. NetBID2 provides comprehensive hidden driver analysis

Author

Dong, Xinran, Ding, Liang, Thrasher, Andrew, Wang, Xinge, Liu, Jingjing, Pan, Qingfei, Rash, Jordan, Dhungana, Yogesh, Yang, Xu, Risch, Isabel, Li, Yuxin, Yan, Lei, Rusch, Michael, McLeod, Clay, Yan, Koon-Kiu, Peng, Junmin, Chi, Hongbo, Zhang, Jinghui, and Yu, Jiyang

Published
2023
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15. Memory-Augmented Non-Local Attention for Video Super-Resolution

Author

Yu, Jiyang, Liu, Jingen, Bo, Liefeng, and Mei, Tao

Subjects
Computer Science - Computer Vision and Pattern Recognition
Abstract

In this paper, we propose a novel video super-resolution method that aims at generating high-fidelity high-resolution (HR) videos from low-resolution (LR) ones. Previous methods predominantly leverage temporal neighbor frames to assist the super-resolution of the current frame. Those methods achieve limited performance as they suffer from the challenge in spatial frame alignment and the lack of useful information from similar LR neighbor frames. In contrast, we devise a cross-frame non-local attention mechanism that allows video super-resolution without frame alignment, leading to be more robust to large motions in the video. In addition, to acquire the information beyond neighbor frames, we design a novel memory-augmented attention module to memorize general video details during the super-resolution training. Experimental results indicate that our method can achieve superior performance on large motion videos comparing to the state-of-the-art methods without aligning frames. Our source code will be released.

Published
2021

16. Single-cell systems pharmacology identifies development-driven drug response and combination therapy in B cell acute lymphoblastic leukemia

Author

Huang, Xin, Li, Yizhen, Zhang, Jingliao, Yan, Lei, Zhao, Huanbin, Ding, Liang, Bhatara, Sheetal, Yang, Xu, Yoshimura, Satoshi, Yang, Wenjian, Karol, Seth E., Inaba, Hiroto, Mullighan, Charles, Litzow, Mark, Zhu, Xiaofan, Zhang, Yingchi, Stock, Wendy, Jain, Nitin, Jabbour, Elias, Kornblau, Steven M., Konopleva, Marina, Pui, Ching-Hon, Paietta, Elisabeth, Evans, William, Yu, Jiyang, and Yang, Jun J.

Published
2024
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17. A Pipelined Arithmetic Architecture for the Motion Planning of Multi-DOF Manipulator

Author

Pang, Yalong, Jiang, Shuai, Yu, Jiyang, Luan, Shenshen, Angrisani, Leopoldo, Series Editor, Arteaga, Marco, Series Editor, Panigrahi, Bijaya Ketan, Series Editor, Chakraborty, Samarjit, Series Editor, Chen, Jiming, Series Editor, Chen, Shanben, Series Editor, Chen, Tan Kay, Series Editor, Dillmann, Rüdiger, Series Editor, Duan, Haibin, Series Editor, Ferrari, Gianluigi, Series Editor, Ferre, Manuel, Series Editor, Hirche, Sandra, Series Editor, Jabbari, Faryar, Series Editor, Jia, Limin, Series Editor, Kacprzyk, Janusz, Series Editor, Khamis, Alaa, Series Editor, Kroeger, Torsten, Series Editor, Li, Yong, Series Editor, Liang, Qilian, Series Editor, Martín, Ferran, Series Editor, Ming, Tan Cher, Series Editor, Minker, Wolfgang, Series Editor, Misra, Pradeep, Series Editor, Möller, Sebastian, Series Editor, Mukhopadhyay, Subhas, Series Editor, Ning, Cun-Zheng, Series Editor, Nishida, Toyoaki, Series Editor, Oneto, Luca, Series Editor, Pascucci, Federica, Series Editor, Qin, Yong, Series Editor, Seng, Gan Woon, Series Editor, Speidel, Joachim, Series Editor, Veiga, Germano, Series Editor, Wu, Haitao, Series Editor, Zamboni, Walter, Series Editor, Zhang, Junjie James, Series Editor, Sun, Jiande, editor, Wang, Yue, editor, Huo, Mengyao, editor, and Xu, Lexi, editor

Published
2023
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19. Real-Time Selfie Video Stabilization

Author

Yu, Jiyang, Ramamoorthi, Ravi, Cheng, Keli, Sarkis, Michel, and Bi, Ning

Subjects
Computer Science - Computer Vision and Pattern Recognition
Abstract

We propose a novel real-time selfie video stabilization method. Our method is completely automatic and runs at 26 fps. We use a 1D linear convolutional network to directly infer the rigid moving least squares warping which implicitly balances between the global rigidity and local flexibility. Our network structure is specifically designed to stabilize the background and foreground at the same time, while providing optional control of stabilization focus (relative importance of foreground vs. background) to the users. To train our network, we collect a selfie video dataset with 1005 videos, which is significantly larger than previous selfie video datasets. We also propose a grid approximation method to the rigid moving least squares warping that enables the real-time frame warping. Our method is fully automatic and produces visually and quantitatively better results than previous real-time general video stabilization methods. Compared to previous offline selfie video methods, our approach produces comparable quality with a speed improvement of orders of magnitude.

Published
2020

33. Network-based assessment of HDAC6 activity predicts preclinical and clinical responses to the HDAC6 inhibitor ricolinostat in breast cancer

Author

Zeleke, Tizita Z., Pan, Qingfei, Chiuzan, Codruta, Onishi, Maika, Li, Yuxin, Tan, Haiyan, Alvarez, Mariano J., Honan, Erin, Yang, Min, Chia, Pei Ling, Mukhopadhyay, Partha, Kelly, Sean, Wu, Ruby, Fenn, Kathleen, Trivedi, Meghna S., Accordino, Melissa, Crew, Katherine D., Hershman, Dawn L., Maurer, Matthew, Jones, Simon, High, Anthony, Peng, Junmin, Califano, Andrea, Kalinsky, Kevin, Yu, Jiyang, and Silva, Jose

Published
2023
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34. Genomic landscape of Down syndrome–associated acute lymphoblastic leukemia

Author

Li, Zhenhua, Chang, Ti-Cheng, Junco, Jacob J., Devidas, Meenakshi, Li, Yizhen, Yang, Wenjian, Huang, Xin, Hedges, Dale J., Cheng, Zhongshan, Shago, Mary, Carroll, Andrew J., Heerema, Nyla A., Gastier-Foster, Julie, Wood, Brent L., Borowitz, Michael J., Sanclemente, Lauren, Raetz, Elizabeth A., Hunger, Stephen P., Feingold, Eleanor, Rosser, Tracie C., Sherman, Stephanie L., Loh, Mignon L., Mullighan, Charles G., Yu, Jiyang, Wu, Gang, Lupo, Philip J., Rabin, Karen R., and Yang, Jun J.

Published
2023
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39. Inhibition of mitochondrial complex I reverses NOTCH1-driven metabolic reprogramming in T-cell acute lymphoblastic leukemia

Author

Baran, Natalia, Lodi, Alessia, Dhungana, Yogesh, Herbrich, Shelley, Collins, Meghan, Sweeney, Shannon, Pandey, Renu, Skwarska, Anna, Patel, Shraddha, Tremblay, Mathieu, Kuruvilla, Vinitha Mary, Cavazos, Antonio, Kaplan, Mecit, Warmoes, Marc O., Veiga, Diogo Troggian, Furudate, Ken, Rojas-Sutterin, Shanti, Haman, Andre, Gareau, Yves, Marinier, Anne, Ma, Helen, Harutyunyan, Karine, Daher, May, Garcia, Luciana Melo, Al-Atrash, Gheath, Piya, Sujan, Ruvolo, Vivian, Yang, Wentao, Shanmugavelandy, Sriram Saravanan, Feng, Ningping, Gay, Jason, Du, Di, Yang, Jun J., Hoff, Fieke W., Kaminski, Marcin, Tomczak, Katarzyna, Eric Davis, R., Herranz, Daniel, Ferrando, Adolfo, Jabbour, Elias J., Emilia Di Francesco, M., Teachey, David T., Horton, Terzah M., Kornblau, Steven, Rezvani, Katayoun, Sauvageau, Guy, Gagea, Mihai, Andreeff, Michael, Takahashi, Koichi, Marszalek, Joseph R., Lorenzi, Philip L., Yu, Jiyang, Tiziani, Stefano, Hoang, Trang, and Konopleva, Marina

Published
2022
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43. SoC Design and Implementation of CAN 2.0 Protocol Toward Satellite Applications

Author

Pang, Yalong, Wang, Xinxin, Jiang, Shuai, Yu, Jiyang, Niu, YueHua, Angrisani, Leopoldo, Series Editor, Arteaga, Marco, Series Editor, Panigrahi, Bijaya Ketan, Series Editor, Chakraborty, Samarjit, Series Editor, Chen, Jiming, Series Editor, Chen, Shanben, Series Editor, Chen, Tan Kay, Series Editor, Dillmann, Rüdiger, Series Editor, Duan, Haibin, Series Editor, Ferrari, Gianluigi, Series Editor, Ferre, Manuel, Series Editor, Hirche, Sandra, Series Editor, Jabbari, Faryar, Series Editor, Jia, Limin, Series Editor, Kacprzyk, Janusz, Series Editor, Khamis, Alaa, Series Editor, Kroeger, Torsten, Series Editor, Liang, Qilian, Series Editor, Martín, Ferran, Series Editor, Ming, Tan Cher, Series Editor, Minker, Wolfgang, Series Editor, Misra, Pradeep, Series Editor, Möller, Sebastian, Series Editor, Mukhopadhyay, Subhas, Series Editor, Ning, Cun-Zheng, Series Editor, Nishida, Toyoaki, Series Editor, Pascucci, Federica, Series Editor, Qin, Yong, Series Editor, Seng, Gan Woon, Series Editor, Speidel, Joachim, Series Editor, Veiga, Germano, Series Editor, Wu, Haitao, Series Editor, Zhang, Junjie James, Series Editor, Wang, Yue, editor, Xu, Lexi, editor, Yan, Yufeng, editor, and Zou, Jiaqi, editor

Published
2021
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44. CRISPR screens unveil signal hubs for nutrient licensing of T cell immunity

Author

Long, Lingyun, Wei, Jun, Lim, Seon Ah, Raynor, Jana L., Shi, Hao, Connelly, Jon P., Wang, Hong, Guy, Cliff, Xie, Boer, Chapman, Nicole M., Fu, Guotong, Wang, Yanyan, Huang, Hongling, Su, Wei, Saravia, Jordy, Risch, Isabel, Wang, Yong-Dong, Li, Yuxin, Niu, Mingming, Dhungana, Yogesh, KC, Anil, Zhou, Peipei, Vogel, Peter, Yu, Jiyang, Pruett-Miller, Shondra M., Peng, Junmin, and Chi, Hongbo

Published
2021
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47. An Autonomous Navigation Method with InSAR-Aided INS

Author

Jiang, Shuai, Pang, Yalong, Wang, Luyuan, Yu, Jiyang, Cheng, Bowen, Li, Zongling, Hao, Liang, Wang, Cuilian, Angrisani, Leopoldo, Series Editor, Arteaga, Marco, Series Editor, Panigrahi, Bijaya Ketan, Series Editor, Chakraborty, Samarjit, Series Editor, Chen, Jiming, Series Editor, Chen, Shanben, Series Editor, Chen, Tan Kay, Series Editor, Dillmann, Rüdiger, Series Editor, Duan, Haibin, Series Editor, Ferrari, Gianluigi, Series Editor, Ferre, Manuel, Series Editor, Hirche, Sandra, Series Editor, Jabbari, Faryar, Series Editor, Jia, Limin, Series Editor, Kacprzyk, Janusz, Series Editor, Khamis, Alaa, Series Editor, Kroeger, Torsten, Series Editor, Liang, Qilian, Series Editor, Martín, Ferran, Series Editor, Ming, Tan Cher, Series Editor, Minker, Wolfgang, Series Editor, Misra, Pradeep, Series Editor, Möller, Sebastian, Series Editor, Mukhopadhyay, Subhas, Series Editor, Ning, Cun-Zheng, Series Editor, Nishida, Toyoaki, Series Editor, Pascucci, Federica, Series Editor, Qin, Yong, Series Editor, Seng, Gan Woon, Series Editor, Speidel, Joachim, Series Editor, Veiga, Germano, Series Editor, Wu, Haitao, Series Editor, Zhang, Junjie James, Series Editor, Wang, Liheng, editor, Wu, Yirong, editor, and Gong, Jianya, editor

Published
2020
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49. Modeling and targeting of erythroleukemia by hematopoietic genome editing

Author

Iacobucci, Ilaria, Qu, Chunxu, Varotto, Elena, Janke, Laura J., Yang, Xu, Seth, Aman, Shelat, Anang, Friske, Jake D., Fukano, Reiji, Yu, Jiyang, Freeman, Burgess B., III, Kennedy, James A., Sperling, Adam S., Zheng, Rena, Wang, Yingzhe, Jogiraju, Harini, Dickerson, Kirsten M., Payne-Turner, Debbie, Morris, Sarah M., Hollis, Emily S., Ghosn, Nina, Haggard, Georgia E., Lindsley, R. Coleman, Ebert, Benjamin L., and Mullighan, Charles G.

Published
2021
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50. Metabolic control of TFH cells and humoral immunity by phosphatidylethanolamine

Author

Fu, Guotong, Guy, Clifford S., Chapman, Nicole M., Palacios, Gustavo, Wei, Jun, Zhou, Peipei, Long, Lingyun, Wang, Yong-Dong, Qian, Chenxi, Dhungana, Yogesh, Huang, Hongling, KC, Anil, Shi, Hao, Rankin, Sherri, Brown, Scott A., Johnson, Amanda, Wakefield, Randall, Robinson, Camenzind G., Liu, Xueyan, Sheyn, Anthony, Yu, Jiyang, Jackowski, Suzanne, and Chi, Hongbo

Published
2021
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