Article
Biochemistry & Molecular Biology
Si-Yi Chen, Tao Yue, Qian Lei, An-Yuan Guo
Summary: TCRdb is a comprehensive human TCR sequences database, containing over 277 million highly reliable TCR sequences from over 8265 TCR-Seq samples, with unique features including a powerful search function and interactive data visualization charts for comparing TCR repertoire in different samples. It will serve as a valuable resource for the research and application community of T cell immunology.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemical Research Methods
Yajun Liu, Aimin Li, Yingda Zhu, Xinchao Pang, Xinhong Hei, Guo Xie, Fang-Xiang Wu
Summary: In this study, we developed a publicly available database called piRSNP to provide comprehensive information on piRNA-related SNPs. We systematically identified SNPs on human and mouse piRNAs, collecting a total of 42,967,522 SNPs on 10,773,081 human piRNAs and 29,262,185 SNPs on 16,957,706 mouse piRNAs.
CURRENT BIOINFORMATICS
(2023)
Review
Biochemical Research Methods
Tianjiao Zhang, Liang Chen, Rongzhen Li, Ning Liu, Xiaobing Huang, Garry Wong
Summary: PIWI-interacting RNAs (piRNAs) are short molecules found in various species, with the main function of monitoring and protecting the genome from transposons. They have limited bioinformatics resources compared to microRNAs (miRNAs). This review provides an overview of piRNA-specific and non-specific databases, computational models, and their role in disease associations, particularly in cancer and neurodegenerative conditions.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Biochemistry & Molecular Biology
Georges P. Schmartz, Anna Hartung, Pascal Hirsch, Fabian Kern, Tobias Fehlmann, Rolf Mueller, Andreas Keller
Summary: Plasmids are DNA fragments containing genes for virulence factors and antibiotic resistance mechanisms, playing an important role in metagenomic data processing. The PLSDB database serves as a reliable resource for researchers to compare and annotate sequences, with improvements and updates enhancing quality and performance.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Jingjing Jin, Peng Lu, Yalong Xu, Jiemeng Tao, Zefeng Li, Shuaibin Wang, Shizhou Yu, Chen Wang, Xiaodong Xie, Junping Gao, Qiansi Chen, Lin Wang, Wenxuan Pu, Peijian Cao
Summary: The emergence of single-cell sequencing has revolutionized transcriptomic and genomic research. The lack of a comprehensive database of cell markers for plant research community has been addressed by the development of PCMDB, providing a valuable resource for researchers to annotate cell types and predict the biological function of individual cells.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Multidisciplinary Sciences
Ning Zhu, Fanyi Dong, Guobang Shi, Xingzhen Lao, Heng Zheng
Summary: Peptide hormones, composed of peptide chains, play an important role in the physiological regulation, behavioral control, and drug design. To promote the research on peptide hormones, we constructed HORDB database, which provides comprehensive information and data related to peptide hormones.
Article
Biochemistry & Molecular Biology
Ya Liu, Sheng Liu, Zhuo Pan, Yu Ren, Yiru Jiang, Feng Wang, Dan-dan Li, Yue-zhong Li, Zheng Zhang
Summary: Antimicrobial toxins play a crucial role in prokaryotic life and are important for understanding the pathogenicity of pathogens. This study introduces the prokaryotic antimicrobial toxin database (PAT), which provides comprehensive information on experimentally validated antimicrobial toxins, including immunity proteins, delivery mechanisms, sequences, and more. The database also predicts potential antimicrobial toxins in prokaryotic genomes and provides taxonomic and environmental distribution data.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biology
Uri Seroussi, Andrew Lugowski, Lina Wadi, Robert X. Lao, Alexandra R. Willis, Winnie Zhao, Adam E. Sundby, Amanda G. Charlesworth, Aaron W. Reinke, Julie M. Claycomb
Summary: In this study, the researchers systematically analyzed each C. elegans Argonaute (AGO) using CRISPR-Cas9 genome editing to introduce GFP::3xFLAG tags. They characterized the expression patterns, identified small RNA binding complements, and determined the effects of ago loss on small RNA populations and developmental phenotypes. The analysis revealed distinct regulatory modules and novel stress-induced fertility and pathogen response phenotypes due to ago loss.
Article
Plant Sciences
Yuan Lin, Bing Hao, Ying Chun Lu, Yang Dong, Ying Li, Guang Hui Zhang, Zi Jiang Yang, Gui Sheng Xiang, Guan Ze Liu, Xue Jiao Li, Qin Zhu, Qing Hui Yang, Xu Zhen Li, Sheng Chao Yang
Summary: The Panax genus is a valuable natural medicinal source that contains high levels of triterpenoid saponins. The PanaxGDB database integrates omics data and information on varieties, providing reliable and comprehensive information on the biology and functions of Panax.
FRONTIERS IN PLANT SCIENCE
(2022)
Editorial Material
Cell Biology
Pei-Hsuan Wu, Phillip D. Zamore
Summary: Researchers have proposed different but not conflicting models for how piRNAs regulate genes, and have suggested criteria for validating these models.
NATURE REVIEWS MOLECULAR CELL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Lei Zheng, Pengfei Liang, Chunshen Long, Haicheng Li, Hanshuang Li, Yuchao Liang, Xiang He, Qilemuge Xi, Yongqiang Xing, Yongchun Zuo
Summary: The lack of global embryogenesis repository and systematic analysis tools hinders the progress of research in stem cells, human congenital diseases, and assisted reproduction. EmAtlas provides a comprehensive collection of multi-omics data and multi-scale tools to explore the spatiotemporal activation during mammalian embryogenesis.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Jingjing Jin, Peng Lu, Yalong Xu, Zefeng Li, Shizhou Yu, Jun Liu, Huan Wang, Nam-Hai Chua, Peijian Cao
Summary: The upgrade of the Plant Long noncoding RNA Database (PLncDB) provides comprehensive information on 1,246,372 lncRNAs from 80 plant species, incorporating data from other resources. Users can visualize expression patterns and epigenetic signals using various tools, and explore targets and regulatory networks of lncRNAs. PLncDB V2.0 serves as a valuable resource for the plant lncRNA community and data-driven research.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Artem Kushner, Anton S. Petrov, Khanh Dao Duc
Summary: RiboXYZ is a database tool that provides access to ribosome structures, allowing users to search, visualize, and compare ribosome structures from different species, conformational states, and ligand bindings. It also offers specialized visualization tools for identification and prediction of ligand binding sites, as well as 3D superimposition of ribosomal components.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Zhi-Luo Deng, Philipp C. Munch, Rene Mreches, Alice C. McHardy
Summary: This article introduces a novel software called RiboDetector, based on a bi-directional long short-term memory neural network, which can rapidly and accurately identify ribosomal RNA (rRNA) sequences from different types of RNA. The software produces fewer misclassifications compared to current state-of-the-art methods and has the ability to detect novel rRNA sequences. Additionally, RiboDetector has a much faster processing speed than other methods.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemical Research Methods
Tengwei Zhong, Wenqing Wang, Houyan Liu, Maolin Zeng, Xinyu Zhao, Zhiyun Guo
Summary: eccDNA Atlas is a user-friendly database that provides a high-quality and integrated resource for browsing, searching and analyzing eccDNAs from multiple species. It contains curated eccDNAs from literature and predicted eccDNAs from whole-genome sequencing data, with abundant annotations and analyzing utilities provided.
BRIEFINGS IN BIOINFORMATICS
(2023)
Article
Biochemistry & Molecular Biology
Yongbiao Xue, Yiming Bao, Zhang Zhang, Wenming Zhao, Jingfa Xiao, Shun-min He, Guoqing Zhang, Yixue Li, Zhao Guoping, Runsheng Chen, Jingyao Zeng, Yadong Zhang, Yun-fei Shang, Jialin Mai, Shuo Shi, Mingming Lu, Congfan Bu, Zhewen Zhang, Zhenglin Du, Yinying Wang, Hongen Kang, Tianyi Xu, Lili Hao, Peilin Jia, Shuai Jiang, Qiheng Qian, Tong-tong Zhu, Yunfei Shang, Wenting Zong, Tong Jin, Yuansheng Zhang, Dong Zou, Zhang Zhang, Qiang Du, Changrui Feng, Lina Ma, Sisi Zhang, Anke Wang, Lili Dong, Yan-qing Wang, Wan Liu, Xing Yan, Yunchao Ling, Guoping Zhao, Zhihua Zhou, Wang Kang, Tao Zhang, Shuai Ma, Haoteng Yan, Zunpeng Liu, Zejun Ji, Yusheng Cai, Si Wang, Moshi Song, Jie Ren, Qi Zhou, Jing Qu, Weiqi Zhang, Guanghui Liu, Xu Chen, Tingting Chen, Zhang Sisi, Yanling Sun, Caixia Yu, Bixia Tang, Junwei Zhu, Shuang Zhai, Yubin Sun, Qiancheng Chen, Xiaoyu Yang, Xin Zhang, Zhengqi Sang, Yonggang Wang, Yilin Zhao, Huanxin Chen, Li Lan, Yanqing Wang, Yingke Ma, Yaokai Jia, Xin-chang Zheng, Meili Chen, Zou Dong, Tongtong Zhu, Chen Ming, Guangyi Niu, Rong Pan, Wei Jing, Jian Sang, Chang Liu, Yujia Xiong, Hao Lili, Mochen Zhang, Guoliang Wang, Lizhi Yi, Zhao Wei, Wenting Zong, Song Wu, Zhuang Xiong, Li Rujiao, Gong Zheng, Rujiao Li, Lin Liu, Zhao Li, Qianpeng Li, Jing Wei, Sicheng Luo, Jiajia Wang, Yirong Shi, Honghong Zhou, Peng Zhang, Tingrui Song, Yanyan Li, Fei Yang, Mengwei Li, Zhao-hua Li, Hongen Kang, Xinchang Zheng, Ru-jiao Li, Dongmei Tian, Xiaonan Liu, Cuiping Li, Xufei Teng, Shuhui Song, Yang Zhang, Guangyi Niu, Tongtong Zhu, Yuansheng Zhang, Ruru Chen, Rongqin Zhang, Feng Xu, Yifan Wang, Yunchao Ling, Chenfen Zhou, Haizhou Wang, Andrew E. Teschendorff, Yungang He, Yang Zhen, Cuiping Li, Junwei Zhu, Lun Li, Na Li, Zheng Gong, Meili Chen, Ying Cui, Guangya Duan, Jin Tong, Gangao Wu, Tianhao Huang, Enhui Jin, Wei Zhao, Hailong Kang, Zhonghuang Wang, Jingyao Zeng, Hua Chen, Mingkun Li, Wenming Zhao, Wanshan Ning, Yu Xue, Yanhu Liu, Ying Cui, Qijun Zhou, Xingyan Liu, Longlong Zhang, Bingyu Mao, Shihua Zhang, Yaping Zhang, Guodong Wang, Qianghui Zhu, Xin Li, Menghua Li, Yuanming Liu, Hong Luo, Xiaoyuan Wu, Haichun Jing, Yitong Pan, Ming Chen, Lina Ma, Leisheng Shi, Mingkun Li, Li Lan, Yiming Bao, Wen-ming Zhao, Zhixiang Zuo, Jian Ren, Xinxin Zhang, Yun Xiao, Xia Li, Dan Liu, Chi Zhang, Yu Xue, Zheng Zhao, Tao Jiang, Wanying Wu, Fangqing Zhao, Xianwen Meng, Di Peng, Hao Luo, Feng Gao, Shaofeng Lin, Chuijie Liu, Anyuan Guo, Hao Yuan, Tianhan Su, Yong E. Zhang, Yincong Zhou, Weizhi Zhang, Shanshan Fu, Xiaodan Tan, Yubin Xie, Guoji Guo, Chenwei Wang, Xingyu Liao, Xin Gao, Jianxin Wang, Guiyan Xie, Chunhui Yuan, Feng Tian, Dechang Yang, Dachao Tang, Wenyi Wu, Yujie Gou, Cheng Han, Qinghua Cui, Xiang Shang Li, Chuan-Yun Li, XiaoTong Luo, Jia Ren, Xia Li
Summary: The National Genomics Data Center (NGDC) of China National Center for Bioinformation (CNCB) provides database resources to support global research, with a focus on single-cell omics and precision medicine. They continuously scale up and update core database resources, daily update SARS-CoV-2 genome data, and establish OpenLB and update Database Commons.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Jiajia Wang, Yirong Shi, Honghong Zhou, Peng Zhang, Tingrui Song, Zhiye Ying, Haopeng Yu, Yanyan Li, Yi Zhao, Xiaoxi Zeng, Shunmin He, Runsheng Chen
Summary: Piwi-interacting RNAs are small noncoding RNAs with diverse functions, and piRBase is a curated resource aimed at assisting functional analysis of piRNAs. The latest release, piRBase v3.0, includes over 181 million unique piRNA sequences from 44 species, along with disease-related piRNAs and regulatory relationship visualizations. The web interface has been redesigned for a better user experience, and new content such as gold standard piRNA sets and expression data has been added.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Yiwei Niu, Xueyi Teng, Honghong Zhou, Yirong Shi, Yanyan Li, Yiheng Tang, Peng Zhang, Huaxia Luo, Quan Kang, Tao Xu, Shunmin He
Summary: This study presents a comprehensive map of non-reference MEIs constructed from 5675 genomes, including Chinese samples and samples from the 1000 Genomes Project. LINE-1 insertions were found to be highly enriched in centromere regions, and MEIs were estimated to account for approximately 9.3% of all protein-truncating events per genome. A companion database named HMEID was also established for public use.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Microbiology
Li Wan, Hexin Li, Gaoyuan Sun, Lili Zhang, Hongtao Xu, Fei Su, Shunmin He, Fei Xiao
Summary: In this study, a powerful framework was developed to investigate the mutagenesis effect and proliferation influence of chemotherapeutic agents on gut microbiota, as well as the interaction between these drugs and gut microbiota. The results showed that the drugs significantly affected mutation signatures of gut microbiota and led to changes in bacteriome and functional alterations.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Pharmacology & Pharmacy
Meng Wu, Jingyi Cui, Huimin Hou, Ying Li, Shengjie Liu, Li Wan, Lili Zhang, Wei Huang, Gaoyuan Sun, Jingchao Liu, Pengfei Jin, Shunmin He, Ming Liu
Summary: The MDM2-p53 inhibitor XR-2 has been found to effectively inhibit the progression of prostate cancer and shows a synergistic effect in overcoming enzalutamide resistance.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Yingmin Zhang, Xinhua Qiao, Lihui Liu, Wensheng Han, Qinghua Liu, Yuanyuan Wang, Ting Xie, Yiheng Tang, Tiepeng Wang, Jiao Meng, Aojun Ye, Shunmin He, Runsheng Chen, Chang Chen
Summary: The downregulation of MAGI2-AS3 decreases superoxide levels and hydrogen peroxide content by stabilizing the HSPA8 protein level, leading to delayed cell senescence through the suppression of the ROS/MAP2K6/p38 signaling pathway. These findings suggest a potential anti-aging application.
Article
Ecology
Xin Zhao, Huaxia Luo, Shunmin He, Bin Yang, Tong Wei, Yumei Hu, Ziyan Wang, Xinxin Li
Summary: This study investigated the vertical distribution of bacterial communities in the Atacama Trench and found that alpha diversity changed with depth. The quantity and bioavailability of organic matter influenced bacterial diversity, and different size fractions showed preferences for different types of particles and lifestyles.
REGIONAL STUDIES IN MARINE SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Yu Zheng, Huaxia Luo, Xueyi Teng, Xinpei Hao, Xiaoyu Yan, Yiheng Tang, Wanyu Zhang, Yuanxin Wang, Peng Zhang, Yanyan Li, Yi Zhao, Runsheng Chen, Shunmin He
Summary: The updated NPInter database provides valuable and informative ncRNA interaction information for biological researchers, including RNA-DNA interactions, RNA interactions between SARS-CoV-2 virus and its host, and the expression specificity of long noncoding RNAs in different cell types.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Yongbiao Xue, Yiming Bao, Zhang Zhang, Wenming Zhao, Jingfa Xiao, Shun-min He, Guoqing Zhang, Yixue Li, Guoping Zhao, Runsheng Chen, Yingke Ma, Meili Chen, Cuiping Li, Shuai Jiang, Dong Zou, Zheng Gong, Xue-tong Zhao, Yanqing Wang, Junwei Zhu, Shuhui Song, Yunchao Ling, Yiwei Wang, Jiaxin Yang, Xinhao Zhuang, Guangya Duan, Gangao Wu, Xiaoning Chen, Dongmei Tian, Zhaohua Li, Yan-ling Sun, Zhenglin Du, Lili Hao, Yuan Gao, Bixia Tang, Yadong Zhang, Hao Zhang, Zaichao Zhang, Qiheng Qian, Zhewen Zhang, Hailong Kang, Tianhao Huang, Zhiqiang Xia, Xincheng Zhou, Jin-quan Chao, Zhonghuang Wang, Jun-wei Zhu, Sisi Zhang, Weimin Tian, Wenquan Wang, Song Wu, Yue Huang, Mochen Zhang, Guoliang Wang, Xin-chang Zheng, Wenting Zong, Wei Zhao, Peiqi Xing, Rujiao Li, Zhaoqi Liu, Mingming Lu, Fengchun Yang, Jialin Mai, Qianwen Gao, Xiaowei Xu, Hongyu Kang, Li Hou, Yunfei Shang, Qiheng Qain, Jie Liu, Meiye Jiang, Congfan Bu, Jinyue Wang, Jingyao Zeng, Jiao Li, Siyu Pan, Hongen Kang, Xinxuan Liu, Shiqi Lin, Na Yuan, Peilin Jia, Xinchang Zheng, Yanling Sun, Zhuang Xiong, Fei Yang, Xu Chen, Tingting Chen, Caixia Yu, Lili Dong, Shuang Zhai, Yubin Sun, Qiancheng Chen, Xiaoyu Yang, Xin Zhang, Zhengqi Sang, Yonggang Wang, Yilin Zhao, Huanxin Chen, Li Lan, Yan-qing Wang, Anke Wang, Yaokai Jia, Xuetong Zhao, Yitong Pan, Xiaonan Liu, Rongqin Zhang, Yi Wang, Lina Ma, Xufei Teng, Lun Li, Na Li, Ying Cui, Tong Jin, Enhui Jin, Tao Zhang, Tianyi Xu, Ming Chen, Guangyi Niu, Rong Pan, Tongtong Zhu, Yuan Chu, Jian Sang, Yuanpu Zhang, Zhennan Wang, Yuan-sheng Zhang, Qiliang Yao, Xinran Zhang, Xutong Guo, Zhao Li, Lin Liu, Changrui Feng, Yuxin Qin, Wei Jing, Sicheng Luo, Tong-tong Zhu, Yuansheng Zhang, Zis-han Wu, Qianpeng Li, Pei Liu, Yongqing Sun, Zhuojing Fan, Wen-ming Zhao, Wen-Kang Shen, An-Yuan Guo, Zhixiang Zuo, Jian Ren, Xinxin Zhang, Yun Xiao, Xia Li, Dan Liu, Chi Zhang, Yu Xue, Zheng Zhao, Tao Jiang, Wanying Wu, Fangqing Zhao, Xianwen Meng, Yujie Gou, Miaomiao Chen, Di Peng, Hao Luo, Feng Gao, Wanshan Ning, Wan Liu, Ruifang Cao, Guo-qing Zhang, Yuxiang Wei, Chun-Jie Liu, Gui-Yan Xie, Hao Yuan, Tianhan Su, Yong E. Zhang, Chenfen Zhou, Pengyu Wang, Yincong Zhou, Guoji Guo, Qiong Zhang, Shanshan Fu, Xiaodan Tan, Dachao Tang, Weizhi Zhang, Mei Luo, Yubin Xie, Ya-Ru Miao, Xinhe Huang, Zihao Feng, Xingyu Liao, Xin Gao, Jianxin Wang, Guiyan Xie, Chunhui Yuan, Dechang Yang, Feng Tian, Ge Gao, Wenyi Wu, Cheng Han, Qinghua Cui, Chunfu Xiao, Chuan-Yun Li, XiaoTong Luo, Qing Tang
Summary: The National Genomics Data Center (NGDC) of the China National Center for Bioinformation (CNCB) provides database resources to support global academic and industrial communities. The NGDC constantly expands and updates core database resources by archiving big data, conducting integrative analysis, and providing value-added curation. New database resources have been developed for infectious diseases and microbiology, cancer-trait association, and tropical plants. Additionally, resources for the monkeypox virus and SARS-CoV-2 have been newly constructed and regularly updated. All resources and services are publicly accessible at https://ngdc.cncb.ac.cn.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Multidisciplinary Sciences
Yirong Shi, Yiwei Niu, Peng Zhang, Huaxia Luo, Shuai Liu, Sijia Zhang, Jiajia Wang, Yanyan Li, Xinyue Liu, Tingrui Song, Tao Xu, Shunmin He
Summary: This study presents a comprehensive map of 366,013 polymorphic short tandem repeats (pSTRs) in the human genome, based on deeply sequenced genomes. The study explores the associations between STR mutations and various genomic features, such as gene expression and alternative polyadenylation. It also investigates population differentiation and genotypes disease-causing STRs.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Huaxia Luo, Peng Zhang, Wanyu Zhang, Yu Zheng, Di Hao, Yirong Shi, Yiwei Niu, Tingrui Song, Yanyan Li, Shilei Zhao, Hua Chen, Tao Xu, Shunmin He
Summary: Characterizing natural selection signatures and their relationship with phenotype spectra is crucial for understanding human evolution and biological mechanisms. By analyzing the genetic data of Han Chinese, we identified 24 genetic loci under recent selection, including immune-related and alcohol metabolism-related genes. The study revealed the impact of these selection signatures on the immune system, alcohol metabolism, and perception. Moreover, the study discovered polygenic adaptation in various complex traits and developed a database to display selection signals in multiple populations.
Article
Multidisciplinary Sciences
Caishang Zheng, Yanjun Wei, Qiang Zhang, Ming Sun, Yunfei Wang, Jiakai Hou, Peng Zhang, Xiangdong Lv, Dan Su, Yujie Jiang, Joy Gumin, Nidhi Sahni, Baoli Hu, Wenyi Wang, Xi Chen, Daniel J. McGrail, Chaolin Zhang, Suyun Huang, Han Xu, Junjie Chen, Frederick F. Lang, Jian Hu, Yiwen Chen
Summary: In this study, a lncRNA DARS1-AS1-controlled posttranscriptional circuitry was identified to promote the malignant properties of GBM cells/GSCs. Depleting DARS1-AS1 inhibited the proliferation of GBM cells/GSCs and self-renewal of GSCs, enhancing the radiosensitivity of GBM cells/GSCs. DARS1-AS1 interacted with YBX1 to up-regulate expression of key regulators and stabilize mRNA, contributing to GBM tumorigenesis and therapeutic resistance.
Article
Medicine, Research & Experimental
Caishang Zheng, Yanjun Wei, Peng Zhang, Longyong Xu, Zhenzhen Zhang, Kangyu Lin, Jiakai Hou, Xiangdong Lv, Yao Ding, Yulun Chiu, Antrix Jain, Nelufa Islam, Anna Malovannaya, Yun Wu, Feng Ding, Han Xu, Ming Sun, Xi Chen, Yiwen Chen
Summary: Emerging evidence shows that cryptic translation within lncRNAs may produce new proteins with important functions. In this study, researchers found that estrogen receptor alpha-positive breast cancer depends on the cryptic ORFs encoded by upregulated lncRNA genes. They identified an unannotated protein, GT3-INCP, which promotes tumor growth and is associated with poor prognosis in luminal tumors. Mechanistically, GT3-INCP interacts with GATA3, a transcription factor important in mammary gland development and breast cancer cell proliferation, and regulates the expression of genes involved in estrogen response and cell proliferation.
JOURNAL OF CLINICAL INVESTIGATION
(2023)
