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Article ; Online: ROTACs leverage signaling-incompetent R-spondin for targeted protein degradation.

Sun, Rui / Meng, Zibo / Lee, Hyeyoon / Offringa, Rienk / Niehrs, Christof

Cell chemical biology

2023 Volume 30, Issue 7, Page(s) 739–752.e8

Abstract: Proteolysis-targeting chimeras (PROTACs) are an emerging technology for therapeutic intervention, but options to target cell surface proteins and receptors remain limited. Here we introduce ROTACs, bispecific WNT- and BMP-signaling-disabled R-spondin ( ... ...

Abstract	Proteolysis-targeting chimeras (PROTACs) are an emerging technology for therapeutic intervention, but options to target cell surface proteins and receptors remain limited. Here we introduce ROTACs, bispecific WNT- and BMP-signaling-disabled R-spondin (RSPO) chimeras, which leverage the specificity of these stem cell growth factors for ZNRF3/RNF43 E3 transmembrane ligases, to target degradation of transmembrane proteins. As a proof-of-concept, we targeted the immune checkpoint protein, programmed death ligand 1 (PD-L1), a prominent cancer therapeutic target, with a bispecific RSPO2 chimera, R2PD1. The R2PD1 chimeric protein binds to PD-L1 and at picomolar concentration induces its lysosomal degradation. In three melanoma cell lines, R2PD1 induced between 50 and 90% PD-L1 protein degradation. PD-L1 degradation was strictly dependent on ZNRF3/RNF43. Moreover, R2PD1 reactivates cytotoxic T cells and inhibits tumor cell proliferation more potently than Atezolizumab. We suggest that signaling-disabled ROTACs represent a paradigm to target cell surface proteins for degradation in a range of applications.
MeSH term(s)	Receptors, G-Protein-Coupled/metabolism ; Proteolysis ; B7-H1 Antigen/metabolism ; Wnt Signaling Pathway ; Ubiquitin-Protein Ligases/metabolism
Chemical Substances	Receptors, G-Protein-Coupled ; B7-H1 Antigen ; Ubiquitin-Protein Ligases (EC 2.3.2.27)
Language	English
Publishing date	2023-06-14
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2451-9448
ISSN (online)	2451-9448
DOI	10.1016/j.chembiol.2023.05.010
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Correction for: Using ESTIMATE algorithm to establish an 8-mRNA signature prognosis prediction system and identify immunocyte infiltration-related genes in Pancreatic adenocarcinoma.

Meng, Zibo / Ren, Dianyun / Zhang, Kun / Zhao, Jingyuan / Jin, Xin / Wu, Heshui

Aging

2023 Volume 15, Issue 24, Page(s) 15701–15702

Language	English
Publishing date	2023-12-28
Publishing country	United States
Document type	Journal Article ; Published Erratum
ISSN	1945-4589
ISSN (online)	1945-4589
DOI	10.18632/aging.205456
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Book ; Online: Real-Time Super-Resolution for Real-World Images on Mobile Devices

Cai, Jie / Meng, Zibo / Ding, Jiaming / Ho, Chiu Man

2022

Abstract: Image Super-Resolution (ISR), which aims at recovering High-Resolution (HR) images from the corresponding Low-Resolution (LR) counterparts. Although recent progress in ISR has been remarkable. However, they are way too computationally intensive to be ... ...

Abstract	Image Super-Resolution (ISR), which aims at recovering High-Resolution (HR) images from the corresponding Low-Resolution (LR) counterparts. Although recent progress in ISR has been remarkable. However, they are way too computationally intensive to be deployed on edge devices, since most of the recent approaches are deep learning-based. Besides, these methods always fail in real-world scenes, since most of them adopt a simple fixed "ideal" bicubic downsampling kernel from high-quality images to construct LR/HR training pairs which may lose track of frequency-related details. In this work, an approach for real-time ISR on mobile devices is presented, which is able to deal with a wide range of degradations in real-world scenarios. Extensive experiments on traditional super-resolution datasets (Set5, Set14, BSD100, Urban100, Manga109, DIV2K) and real-world images with a variety of degradations demonstrate that our method outperforms the state-of-art methods, resulting in higher PSNR and SSIM, lower noise and better visual quality. Most importantly, our method achieves real-time performance on mobile or edge devices. Comment: arXiv admin note: text overlap with arXiv:2004.13674
Keywords	Computer Science - Computer Vision and Pattern Recognition ; Electrical Engineering and Systems Science - Image and Video Processing
Subject code	006
Publishing date	2022-06-03
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Pulmonary papillary squamous cell carcinoma: a population-based analysis of incidence, treatment, and prognosis.

Yuan, Qingchen / Sun, Na / Meng, Zibo / Chen, Xiao

Journal of thoracic disease

2019 Volume 11, Issue 10, Page(s) 4271–4281

Abstract: Background: Pulmonary papillary squamous cell carcinoma (PSCC) is a rare variant of pulmonary squamous cell carcinoma (SCC). This study aims to improve relevant understanding and demonstrate the incidence, treatment, and prognosis of pulmonary PSCC ... ...

Abstract	Background: Pulmonary papillary squamous cell carcinoma (PSCC) is a rare variant of pulmonary squamous cell carcinoma (SCC). This study aims to improve relevant understanding and demonstrate the incidence, treatment, and prognosis of pulmonary PSCC using a population-based database. Methods: The Surveillance, Epidemiology and End Results (SEER) database was used to extract data of cases diagnosed with PSCC from 1973 to 2015 and analyze the incidence, treatment, and prognosis. Results: A total of 151 pulmonary PSCC cases were identified. The incidence of pulmonary PSCC cases in 2015 was 0.009 per 100,000 persons. The tumor grade of pulmonary PSCC cases was significantly lower than that of SCC cases (P<0.001). Both cancer-specific (CSS) and overall survival (OS) of pulmonary PSCC were significantly higher than those of other pulmonary SCCs (P<0.001). The outcomes of pulmonary PSCC cases receiving surgery were significantly better than cases without surgery (P<0.001). On the contrary, patients with radiotherapy had a worsened prognosis compared with those without radiotherapy (P<0.05). As expected, the prognosis of pulmonary PSCC cases receiving surgery was significantly better than that of pulmonary PSCC cases receiving chemotherapy and radiotherapy (both P<0.05). Conclusions: Our population-based evidence shows that pulmonary PSCC, as a rare cancer, has a better prognosis compared with other pulmonary SCCs. Surgery was the only effective treatment to improve CSS and OS, while chemotherapy was ineffective and radiotherapy worsened prognosis.
Language	English
Publishing date	2019-11-07
Publishing country	China
Document type	Journal Article
ZDB-ID	2573571-8
ISSN	2077-6624 ; 2072-1439
ISSN (online)	2077-6624
ISSN	2072-1439
DOI	10.21037/jtd.2019.09.71
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Article ; Online: T-Cell-Based Platform for Functional Screening of T-Cell Receptors Identified in Single-Cell RNA Sequencing Data Sets of Tumor-Infiltrating T-Cells.

Ehrenfried, Aaron Rodriguez / Zens, Stefan / Steffens, Laura K / Kehm, Hannes / Paul, Alina / Lauenstein, Claudia / Volkmar, Michael / Poschke, Isabel / Meng, Zibo / Offringa, Rienk

Bio-protocol

2024 Volume 14, Issue 8, Page(s) e4972

Abstract: The advent of single-cell RNA sequencing (scRNAseq) has enabled in-depth gene expression analysis of several thousand cells isolated from tissues. We recently reported the application of scRNAseq toward the dissection of the tumor-infiltrating T-cell ... ...

Abstract	The advent of single-cell RNA sequencing (scRNAseq) has enabled in-depth gene expression analysis of several thousand cells isolated from tissues. We recently reported the application of scRNAseq toward the dissection of the tumor-infiltrating T-cell repertoire in human pancreatic cancer samples. In this study, we demonstrated that combined whole transcriptome and T-cell receptor (TCR) sequencing provides an effective way to identify tumor-reactive TCR clonotypes on the basis of gene expression signatures. An important aspect in this respect was the experimental validation of TCR-mediated anti-tumor reactivity by means of an in vitro functional assay, which is the subject of the present protocol. This assay involves the transient transfection of mRNA gene constructs encoding TCRα/β pairs into a well-defined human T-cell line, followed by co-cultivation with the tumor cells of interest and detection of T-cell activation by flow cytometry. Due to the high transfectability and the low background reactivity of the mock-transfected T-cell line to a wide variety of tumor cells, this assay offers a highly robust and versatile platform for the functional screening of large numbers of TCR clonotypes as identified in scRNAseq data sets. Whereas the assay was initially developed to test TCRs of human origin, it was more recently also applied successfully for the screening of TCRs of murine origin. Key features • Efficient functional screening of-and discrimination between-TCRs isolated from tumor-reactive vs. bystander T-cell clones. • Applicable to TCRs from CD8
Language	English
Publishing date	2024-04-20
Publishing country	United States
Document type	Journal Article
ZDB-ID	2833269-6
ISSN	2331-8325 ; 2331-8325
ISSN (online)	2331-8325
ISSN	2331-8325
DOI	10.21769/BioProtoc.4972
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Article ; Online: Characterization of sub-nanosecond pulse compression based on frequency-detuning SBS.

Liu, Fuhan / Wang, Yulei / Cao, Chen / Meng, Zibo / Man, Zhaoyang / Bai, Zhenxu / Lu, Zhiwei

Optics express

2021 Volume 32, Issue 2, Page(s) 2281–2292

Abstract: High-frequency, high-power picosecond lasers have important and wide-ranging applications in laser ranging, optoelectronic countermeasures, and ultrafine industrial processing. Pulse compression based on stimulated Brillouin scattering (SBS) can achieve ... ...

Abstract	High-frequency, high-power picosecond lasers have important and wide-ranging applications in laser ranging, optoelectronic countermeasures, and ultrafine industrial processing. Pulse compression based on stimulated Brillouin scattering (SBS) can achieve a highly efficient picosecond laser output, while improving the peak power and beam quality of the laser. In this paper, a generator-amplifier two-cell structure with frequency-detuning was proposed to achieve a pulse output that combines high compression ratio and high energy reflectivity. The experiment proved that under a pump pulse width of 15 ns and repetition frequency of 10 Hz, when the generator cell and amplifier cell media were selected as HT-230, the highest energy reflectivity of 46% and narrowest compression pulse width of 1.1 ns were achieved, and the pulse compression ratio was 13.6. When the amplifier cell was selected as FC-770 and the generator cell was selected as HT-230, an energy reflectivity of 52% and a compression pulse width of 840 ps could be achieved simultaneously, and the pulse compression ratio was 18.
Language	English
Publishing date	2021-10-01
Publishing country	United States
Document type	Journal Article
ZDB-ID	1491859-6
ISSN	1094-4087 ; 1094-4087
ISSN (online)	1094-4087
ISSN	1094-4087
DOI	10.1364/OE.514562
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Book ; Online: Residual Channel Attention Generative Adversarial Network for Image Super-Resolution and Noise Reduction

Cai, Jie / Meng, Zibo / Ho, Chiu Man

2020

Abstract: Image super-resolution is one of the important computer vision techniques aiming to reconstruct high-resolution images from corresponding low-resolution ones. Most recently, deep learning-based approaches have been demonstrated for image super-resolution. ...

Abstract	Image super-resolution is one of the important computer vision techniques aiming to reconstruct high-resolution images from corresponding low-resolution ones. Most recently, deep learning-based approaches have been demonstrated for image super-resolution. However, as the deep networks go deeper, they become more difficult to train and more difficult to restore the finer texture details, especially under real-world settings. In this paper, we propose a Residual Channel Attention-Generative Adversarial Network(RCA-GAN) to solve these problems. Specifically, a novel residual channel attention block is proposed to form RCA-GAN, which consists of a set of residual blocks with shortcut connections, and a channel attention mechanism to model the interdependence and interaction of the feature representations among different channels. Besides, a generative adversarial network (GAN) is employed to further produce realistic and highly detailed results. Benefiting from these improvements, the proposed RCA-GAN yields consistently better visual quality with more detailed and natural textures than baseline models; and achieves comparable or better performance compared with the state-of-the-art methods for real-world image super-resolution.
Keywords	Electrical Engineering and Systems Science - Image and Video Processing ; Computer Science - Computer Vision and Pattern Recognition
Subject code	004
Publishing date	2020-04-28
Publishing country	us
Document type	Book ; Online
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Book ; Online: GIA-Net

Meng, Zibo / Xu, Runsheng / Ho, Chiu Man

Global Information Aware Network for Low-light Imaging

2020

Abstract: It is extremely challenging to acquire perceptually plausible images under low-light conditions due to low SNR. Most recently, U-Nets have shown promising results for low-light imaging. However, vanilla U-Nets generate images with artifacts such as color ...

Abstract	It is extremely challenging to acquire perceptually plausible images under low-light conditions due to low SNR. Most recently, U-Nets have shown promising results for low-light imaging. However, vanilla U-Nets generate images with artifacts such as color inconsistency due to the lack of global color information. In this paper, we propose a global information aware (GIA) module, which is capable of extracting and integrating the global information into the network to improve the performance of low-light imaging. The GIA module can be inserted into a vanilla U-Net with negligible extra learnable parameters or computational cost. Moreover, a GIA-Net is constructed, trained and evaluated on a large scale real-world low-light imaging dataset. Experimental results show that the proposed GIA-Net outperforms the state-of-the-art methods in terms of four metrics, including deep metrics that measure perceptual similarities. Extensive ablation studies have been conducted to verify the effectiveness of the proposed GIA-Net for low-light imaging by utilizing global information. Comment: 16 pages 6 figures; accepted to AIM at ECCV 2020
Keywords	Computer Science - Computer Vision and Pattern Recognition
Subject code	006
Publishing date	2020-09-14
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Correlations of inhaled NO with the cTnI levels and the plasma clotting factor in rabbits with acute massive pulmonary embolism.

Zhang, Zeming / Meng, Zibo / Wang, Yancun

Acta cirurgica brasileira

2018 Volume 33, Issue 8, Page(s) 664–672

Abstract: Purpose: To investigate the correlation of inhaled nitric oxide (NO) on plasma levels of cardiac troponin I (cTnI) and von Willebrand factor (vWF), glycoprotein (GP) IIb/IIIa, granule membrane protein 140 (GMP-140) in rabbits with acute massive ... ...

Abstract	Purpose: To investigate the correlation of inhaled nitric oxide (NO) on plasma levels of cardiac troponin I (cTnI) and von Willebrand factor (vWF), glycoprotein (GP) IIb/IIIa, granule membrane protein 140 (GMP-140) in rabbits with acute massive pulmonary embolism (PE). Methods: Thirty apanese white rabbits were divided into 3 groups, thrombus were injected in model group (n = 10), NO were inhalated for 24 h after massive PE in NO group (n = 10), saline were injected in control group (n = 10). The concentrations of vWF, GP IIb/IIIa, GMP-140 and cTnI were tested at 4, 8, 12, 16, 20, and 24 h, Correlation analyses were conducted between cTnI and vWF, GP IIb/IIIa, and GMP-140 by Pearson's correlation. Results: The concentration of cTnI and vWF, GP IIb/IIIa, and GMP-140 was increased in the model group, compared to control group. In the inhaled group, the concentrations of cTnI, vWF, GP IIb/IIIa, and GMP-140 were reduced compared to model group. There was a positive correlation between cTnI and vWF, GP IIb/IIIa, and GMP-140. Conclusion: Inhaled nitric oxide can lead to a decrease in levels of cardiac troponin I, von Willebrand factor, glycoprotein, and granule membrane protein 140, after an established myocardial damage, provoked by acute massive pulmonary embolism.
MeSH term(s)	Administration, Inhalation ; Animals ; Disease Models, Animal ; Heart Ventricles/pathology ; Myocardium/pathology ; Nitric Oxide/administration & dosage ; P-Selectin/blood ; P-Selectin/drug effects ; Platelet Glycoprotein GPIIb-IIIa Complex/analysis ; Platelet Glycoprotein GPIIb-IIIa Complex/drug effects ; Pulmonary Embolism/blood ; Pulmonary Embolism/drug therapy ; Pulmonary Embolism/pathology ; Rabbits ; Reference Values ; Reproducibility of Results ; Time Factors ; Treatment Outcome ; Troponin I/blood ; Troponin I/drug effects ; X-Ray Microtomography ; von Willebrand Factor/analysis ; von Willebrand Factor/drug effects
Chemical Substances	P-Selectin ; Platelet Glycoprotein GPIIb-IIIa Complex ; Troponin I ; von Willebrand Factor ; Nitric Oxide (31C4KY9ESH)
Language	English
Publishing date	2018-09-10
Publishing country	Brazil
Document type	Journal Article
ZDB-ID	2012156-8
ISSN	1678-2674 ; 0102-8650
ISSN (online)	1678-2674
ISSN	0102-8650
DOI	10.1590/s0102-865020180080000002
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Article ; Online: Improving Speech Related Facial Action Unit Recognition by Audiovisual Information Fusion.

Meng, Zibo / Han, Shizhong / Liu, Ping / Tong, Yan

IEEE transactions on cybernetics

2018 Volume 49, Issue 9, Page(s) 3293–3306

Abstract: It is challenging to recognize facial action unit (AU) from spontaneous facial displays, especially when they are accompanied by speech. The major reason is that the information is extracted from a single source, i.e., the visual channel, in the current ... ...

Abstract	It is challenging to recognize facial action unit (AU) from spontaneous facial displays, especially when they are accompanied by speech. The major reason is that the information is extracted from a single source, i.e., the visual channel, in the current practice. However, facial activity is highly correlated with voice in natural human communications. Instead of solely improving visual observations, this paper presents a novel audiovisual fusion framework, which makes the best use of visual and acoustic cues in recognizing speech-related facial AUs. In particular, a dynamic Bayesian network is employed to explicitly model the semantic and dynamic physiological relationships between AUs and phonemes as well as measurement uncertainty. Experiments on a pilot audiovisual AU-coded database have demonstrated that the proposed framework significantly outperforms the state-of-the-art visual-based methods in terms of recognizing speech-related AUs, especially for those AUs whose visual observations are impaired during speech, and more importantly is also superior to audio-based methods and feature-level fusion methods, which employ low-level audio features, by explicitly modeling and exploiting physiological relationships between AUs and phonemes.
MeSH term(s)	Algorithms ; Bayes Theorem ; Face/anatomy & histology ; Face/physiology ; Facial Expression ; Facial Muscles/physiology ; Humans ; Pattern Recognition, Automated/methods ; Signal Processing, Computer-Assisted ; Speech/classification ; Speech/physiology
Language	English
Publishing date	2018-06-21
Publishing country	United States
Document type	Journal Article
ISSN	2168-2275
ISSN (online)	2168-2275
DOI	10.1109/TCYB.2018.2840090
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