Article
Oncology
Svetlana Gaponova, Olga Patutina, Aleksandra Sen'kova, Ekaterina Burakova, Innokenty Savin, Andrey Markov, Elena Shmendel, Mikhail Maslov, Dmitry Stetsenko, Valentin Vlassov, Marina Zenkova
Summary: Current approaches to cancer treatment lack efficiency and selectivity, causing non-specific toxic effects. This study demonstrates the potential of highly selective antisense downregulation of microRNAs as a targeted therapy for oncological diseases. Combinations of oligonucleotides targeted to specific microRNAs effectively inhibit tumor growth and metastasis without causing toxic effects in vivo.
Article
Engineering, Electrical & Electronic
Kai Yue, Richeng Jin, Chau-Wai Wong, Huaiyu Dai
Summary: This paper proposes a predictive coding based compression scheme for federated learning, which can significantly reduce communication overhead while improving learning performance.
IEEE JOURNAL OF SELECTED TOPICS IN SIGNAL PROCESSING
(2022)
Article
Ophthalmology
Chung-Ling Liang, Ku-Chung Chen, Edward Hsi, Jui-Yu Lin, Chien-Yuan Chen, Jung-Kai Tseng, Suh-Hang H. Juo
Summary: This study investigated the role of miR-328-3p in controlling myopia. The results showed that anti-miR-328-3p could reduce the expression of fibromodulin and collagen1A1 in myopic eyes, and it exerted its effects by regulating the expression of TGF-beta 1 and phosphorylation levels of p38-MAPK and JNK. Additionally, retinoic acid was found to up-regulate the expression of miR-328-3p. Animal studies demonstrated that anti-miR-328-3p effectively suppressed axial elongation. The toxicity study showed that anti-miR-328-3p had no adverse effects.
INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE
(2022)
Article
Agricultural Engineering
Ying Chen, Dong Yang, Wei Tang, Cuiluan Ma, Yu-Cai He
Summary: Glycerol was used as a hydrogen-bond-donor to prepare a ChCl-based deep eutectic solvent (DES) for the combination pretreatment of bulrush. The DES pretreatment effectively removed lignin and xylan from bulrush, resulting in increased enzymatic digestibility of cellulose. The DES combined with alkali treatment significantly improved the accessibility and crystallinity of cellulose, leading to enhanced enzymatic hydrolysis efficiency.
BIORESOURCE TECHNOLOGY
(2023)
Review
Chemistry, Multidisciplinary
Eleftheria Sapountzaki, Ulrika Rova, Paul Christakopoulos, Io Antonopoulou
Summary: The urgent need to reduce CO2 emissions has driven the development of CO2 capture and utilization technologies. One application is the transformation of CO2 into storage chemicals, such as formic acid, for clean energy carriers. Conventional methods use chemical catalysts for CO2 conversion to formic acid and subsequent H2 release. However, biocatalysts offer a more specific and energy-efficient alternative. Formate dehydrogenase (FDH) catalyzes CO2 conversion to formate, which can be produced by the biocathode in bioelectrochemical systems and electrochemically regenerated. Several microorganisms possessing formate hydrogenlyase or hydrogen-dependent CO2 reductase complexes can catalyze H2 production from formate. Combining these processes enables a CO2-recycling cycle for H2 production, storage, and release with potentially lower environmental impact than conventional methods.
Article
Multidisciplinary Sciences
Acong Yang, Xavier Bofill-De Ros, Ryan Stanton, Tie-Juan Shao, Patricia Villanueva, Shuo Gu
Summary: This study reveals that TENTs generate miRNA isoforms through 3' tailing, and their regulation of miRNAs is highly specific. Dysregulation of a set of miRNAs occurs when uridylation is abolished, while the miR-888 cluster is specifically upregulated by TUT7.
NATURE COMMUNICATIONS
(2022)
Review
Oncology
Yuhe Lei, Lei Chen, Junshan Liu, Yinqin Zhong, Lijuan Deng
Summary: This article discusses the importance of chemoresistance in cancer treatment, introduces the dual roles of autophagy and miRNA in chemoresistance, and explores the potential of miRNA as a target to overcome chemoresistance.
FRONTIERS IN ONCOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Gihwan Lee, Yoonsik Choe
Summary: This paper proposes an extension of a sparse orthonormal transform based on unions of orthonormal dictionaries for image compression. The method constructs dictionaries into a discrete cosine transform and an orthonormal matrix, and adapts Bayesian optimization to determine a trade-off parameter for efficient implementation and optimal parameter selection.
APPLIED SCIENCES-BASEL
(2022)
Article
Agricultural Engineering
Jiaping Wang, Hui Cheng, Zhihong Zhao, Yimin Zhang
Summary: In this study, a tri-enzymatic cascade route was designed and reconstructed for the large-scale production of inositol. By optimizing the reaction conditions and using immobilized cells with colloidal chitin, the conversion rate and final yield of inositol reached the highest level.
BIORESOURCE TECHNOLOGY
(2022)
Article
Engineering, Electrical & Electronic
Weixin Hong, Tong Chen, Ming Lu, Shiliang Pu, Zhan Ma
Summary: A two-stage approach is proposed to reduce computational complexity and memory space on resource-constrained mobile platforms through fixed-point inference architecture. Comparable coding efficiency and performance are demonstrated in image decoding, video super-resolution networks, and classification tasks.
IEEE TRANSACTIONS ON CIRCUITS AND SYSTEMS FOR VIDEO TECHNOLOGY
(2021)
Article
Computer Science, Information Systems
Xia Wang, Jia Liu, Yanyan Wang, Xingyu Chen, Lijun Chen
Summary: Tag grouping in RFID systems assigns group IDs to inform tags of their group, improving inventory efficiency. This paper proposes a two-phase grouping scheme to address slot waste and data redundancy, increasing the efficiency through slot reuse and data compression. The best protocol presented here demonstrates a 51.9% improvement in time efficiency compared to existing methods.
IEEE TRANSACTIONS ON MOBILE COMPUTING
(2021)
Article
Engineering, Environmental
Kai Lin, Ao Xia, Yun Huang, Xianqing Zhu, Kaiyong Cai, Zidong Wei, Qiang Liao
Summary: In this study, a microreactor loaded with cellulase based on co-deposition of dopamine (DA) and polyethyleneimine (PEI) was proposed to efficiently hydrolyze carboxymethyl cellulose (CMC) and produce sugar. The cellulase-loaded microreactor showed better temperature adaptability and higher long-term stability than other reaction systems, resulting in higher glucose production per unit time.
CHEMICAL ENGINEERING JOURNAL
(2022)
Review
Oncology
Hiroaki Taniguchi, Yasunori Suzuki, Kohzoh Imai, Yasushi Adachi
Summary: Oligonucleotide therapeutics, including antisense oligonucleotides (ASOs) and small interfering RNAs (siRNAs), have great potential in targeting specific DNA or RNA sequences or proteins. However, their clinical application is still challenging and needs to be compatible with next-generation sequencing for diagnosis.
Article
Chemistry, Analytical
Xiao-Long Zhang, Sha-Sha Li, Yi-Jia Liu, Wei-Wei Liu, Ling-Qi Kong, Ya-Qin Chai, Xi-Liang Luo, Ruo Yuan
Summary: An ingenious three-dimensional DNA walker with high walking efficiency is developed by limiting the reaction space, providing a rapid and sensitive detection method for miRNA. Compared to traditional DNA walkers, this immobilized DNA walker shows improved kinetic and thermodynamic favorability, resulting in faster reaction speed and higher walking efficiency. By utilizing this walker, a sensitive sensing platform for rapid miRNA-21 detection is constructed with a limit of detection of 19.8 aM, allowing for highly sensitive biomarker detection in cancer cell lysates.
ANALYTICAL CHEMISTRY
(2023)
Article
Computer Science, Software Engineering
Kun Hu, Xiaochao Wang, Jianping Hu, Danyang Li, Ling Du, Hongfei Wang, Hong Qin
Summary: This study introduces a robust and efficient image watermarking algorithm based on 1D empirical mode decomposition and the Hilbert curve for dimensional reduction, aiming to improve efficiency and robustness by converting the two-dimensional image watermarking problem into a one-dimensional signal watermarking problem.
Article
Oncology
Haisheng Zhang, Antje Schaefer, Yichen Wang, Richard G. Hodge, Devon R. Blake, J. Nathaniel Diehl, Alex G. Papageorge, Matthew D. Stachler, Jennifer Liao, Jin Zhou, Zhong Wu, Fahire G. Akarca, Leonie K. de Klerk, Sarah Derks, Mariaelena Pierobon, Katherine A. Hoadley, Timothy C. Wang, George Church, Kwok-Kin Wong, Emanuel F. Petricoin, Adrienne D. Cox, Douglas R. Lowy, Channing J. Der, Adam J. Bass
Article
Biochemical Research Methods
Shilpa Garg, John Aach, Heng Li, Isaac Sebenius, Richard Durbin, George Church
Article
Biochemistry & Molecular Biology
Jonathan M. Stokes, Kevin Yang, Kyle Swanson, Wengong Jin, Andres Cubillos-Ruiz, Nina M. Donghia, Craig R. MacNair, Shawn French, Lindsey A. Carfrae, Zohar Bloom-Ackerman, Victoria M. Tran, Anush Chiappino-Pepe, Ahmed H. Badran, Ian W. Andrews, Emma J. Chory, George M. Church, Eric D. Brown, Tommi S. Jaakkola, Regina Barzilay, James J. Collins
Review
Pharmacology & Pharmacy
Dong Niu, Xiang Ma, Taoyan Yuan, Yifan Niu, Yibin Xu, Zhongxin Sun, Yuan Ping, Weifen Li, Jufang Zhang, Tao Wang, George M. Church
Summary: Xenotransplantation of pig organs offers a potential solution to the shortage of donor organs for human patients but faces challenges such as immune rejection and the risk of porcine endogenous retrovirus transmission. Advances in genome engineering and immunosuppressive medications have the potential to overcome these barriers, leading to promising preclinical results and upcoming clinical trials for organs like islet, kidney, and heart transplantation.
ADVANCED DRUG DELIVERY REVIEWS
(2021)
Article
Multidisciplinary Sciences
Jessica A. Weber, Seung Gu Park, Victor Luria, Sungwon Jeon, Hak-Min Kim, Yeonsu Jeon, Youngjune Bhak, Je Hun Jun, Sang Wha Kim, Won Hee Hong, Semin Lee, Yun Sung Cho, Amir Karger, John W. Cain, Andrea Manica, Soonok Kim, Jae-Hoon Kim, Jeremy S. Edwards, Jong Bhak, George M. Church
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2020)
Editorial Material
Geriatrics & Gerontology
Brian P. Hanley, Steve Keen, George Church
REJUVENATION RESEARCH
(2020)
Article
Multidisciplinary Sciences
Kai Wang, Ruei-Zeng Lin, Xuechong Hong, Alex H. Ng, Chin Nien Lee, Joseph Neumeyer, Gang Wang, Xi Wang, Minglin Ma, William T. Pu, George M. Church, Juan M. Melero-Martin
Letter
Biotechnology & Applied Microbiology
Matthew J. MacKay, Anna C. Hooker, Ebrahim Afshinnekoo, Marc Salit, Jason Kelly, Jonathan V. Feldstein, Nick Haft, Doug Schenkel, Subhalaxmi Nambi, Yizhi Cai, Feng Zhang, George Church, Junbiao Dai, Cliff L. Wang, Shawn Levy, Jeff Huber, Hanlee P. Ji, Alison Kriegel, Anne L. Wyllie, Christopher E. Mason
NATURE BIOTECHNOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Jorge A. Marchand, Merrick D. Pierson Smela, Thomas H. H. Jordan, Kamesh Narasimhan, George M. Church
Summary: T-box riboswitches are a large family of tRNA-binding leader sequences that are crucial for gene regulation in many gram-positive bacteria. TBDB is an open-access database that contains a vast collection of T-box riboswitch sequences and provides structural annotations for this important family of regulatory RNA.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Engineering, Biomedical
Yanan Yue, Weihong Xu, Yinan Kan, Hong-Ye Zhao, Yixuan Zhou, Xiaobin Song, Jiajia Wu, Juan Xiong, Dharmendra Goswami, Meng Yang, Lydia Lamriben, Mengyuan Xu, Qi Zhang, Yu Luo, Jianxiong Guo, Shengyi Mao, Deling Jiao, Tien Dat Nguyen, Zhuo Li, Jacob V. Layer, Mailin Li, Violette Paragas, Michele E. Youd, Zhongquan Sun, Yuan Ding, Weilin Wang, Hongwei Dou, Lingling Song, Xueqiong Wang, Lei Le, Xin Fang, Haydy George, Ranjith Anand, Shi Yun Wang, William F. Westlin, Marc Guell, James Markmann, Wenning Qin, Yangbin Gao, Hong-Jiang Wei, George M. Church, Luhan Yang
Summary: Genetic engineering of pigs using a combination of CRISPR-Cas9 and transposon technologies allows for inactivation of endogenous retroviruses and enhancement of compatibility with the human immune system, providing a potential pathway for safe and effective porcine xenotransplantation.
NATURE BIOMEDICAL ENGINEERING
(2021)
Article
Chemistry, Multidisciplinary
Mirko Palla, Sukanya Punthambaker, Benjamin Stranges, Frederic Vigneault, Jeff Nivala, Daniel Wiegand, Aruna Ayer, Timothy Craig, Dmitriy Gremyachinskiy, Helen Franklin, Shaw Sun, James Pollard, Andrew Trans, Cleoma Arnold, Charles Schwab, Colin Mcgaw, Preethi Sarvabhowman, Dhruti Dalal, Eileen Thai, Evan Amato, Ilya Lederman, Meng Taing, Sara Kelley, Adam Qwan, Carl W. Fuller, Stefan Roever, George M. Church
Summary: The use of single-molecule DNA sequencing platform allows for rapid screening of polymerase variants, enabling the identification of enzymes with different features. This approach is valuable for applications requiring polymerases with altered physical properties.
Article
Biotechnology & Applied Microbiology
Alex H. M. Ng, Parastoo Khoshakhlagh, Jesus Eduardo Rojo Arias, Giovanni Pasquini, Kai Wang, Anka Swiersy, Seth L. Shipman, Evan Appleton, Kiavash Kiaee, Richie E. Kohman, Andyna Vernet, Matthew Dysart, Kathleen Leeper, Wren Saylor, Jeremy Y. Huang, Amanda Graveline, Jussi Taipale, David E. Hill, Marc Vidal, Juan M. Melero-Martin, Volker Busskamp, George M. Church
Summary: Using a library of human transcription factor genes, this study identified and utilized new transcription factors to directly program human pluripotent stem cells into various cell types, offering a novel approach in the field of cell engineering.
NATURE BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Shilpa Garg, Arkarachai Fungtammasan, Andrew Carroll, Mike Chou, Anthony Schmitt, Xiang Zhou, Stephen Mac, Paul Peluso, Emily Hatas, Jay Ghurye, Jared Maguire, Medhat Mahmoud, Haoyu Cheng, David Heller, Justin M. Zook, Tobias Moemke, Tobias Marschall, Fritz J. Sedlazeck, John Aach, Chen-Shan Chin, George M. Church, Heng Li
Summary: The DipAsm method utilizes long, accurate reads and long-range conformation data to generate chromosome-scale phased assembly for single individuals within a day, demonstrating superior performance in both contiguity and phasing completeness compared to other approaches. DipAsm is crucial for the discovery of structural variants and highly polymorphic and medically important regions, facilitating high-quality precision medicine and studies of individual haplotype variation and population diversity.
NATURE BIOTECHNOLOGY
(2021)
Letter
Multidisciplinary Sciences
Lindsey R. Robinson-McCarthy, Alexander J. Mijalis, Gabriel T. Filsinger, Helena de Puig, Nina M. Donghia, Thomas E. Schaus, Robert A. Rasmussen, Raphael Ferreira, Jeantine E. Lunshof, George Chao, Dmitry Ter-Ovanesyan, Oliver Dodd, Erkin Kuru, Adama M. Sesay, Joshua Rainbow, Andrew C. Pawlowski, Timothy M. Wannier, Peng Yin, James J. Collins, Donald E. Ingber, George M. Church, Jenny M. Tam
Article
Multidisciplinary Sciences
Andrew C. Payne, Zachary D. Chiang, Paul L. Reginato, Sarah M. Mangiameli, Evan M. Murray, Chun-Chen Yao, Styliani Markoulaki, Andrew S. Earl, Ajay S. Labade, Rudolf Jaenisch, George M. Church, Edward S. Boydenit, Jason D. Buenrostrot, Fei Chen
Summary: In situ genome sequencing (IGS) allows for sequencing and imaging of genomes within intact biological samples, providing spatial localization of genomic loci and revealing parent-specific changes in genome structure across embryonic stages, single-cell chromatin domains in zygotes, and epigenetic memory of global chromosome positioning within individual embryos. These results demonstrate the capability of IGS to directly connect sequence and structure across length scales from single base pairs to whole organisms.