Nature Search

Detecting and quantifying circular RNAs in terabyte-scale RNA-seq datasets with CIRI3

CIRI3 speeds up circRNA detection with low memory requirements.

Xin Zheng
Jinyang Zhang
Yuan Gao
ResearchOpen Access01 Oct 2025
Nature Biotechnology

P: 1-7
Nitrogen enhances post-drought recovery in wheat by modulating TaSnRK2.10-mediated regulation of TaNLP7

Nitrogen promotes wheat’s recovery after drought stress through the TaSnRK2.10-TaNLP7 module. This breakthrough connects drought-stress signalling with nitrate response pathways, providing a genetic framework for developing climate-resilient crops.

Junyi Mu
Honglei Wang
Ming-Yi Bai
Research05 Sept 2025
Nature Plants

Volume: 11, P: 1810-1826
Branched-chain amino acids contribute to diabetic kidney disease progression via PKM2-mediated podocyte metabolic reprogramming and apoptosis

Previous studies have suggested that branched chain amino acids (BCAA) may contribute to the development of diabetic kidney disease (DKD).Here the authors report that genetic disruption of BCAA catabolism in podocytes or exogenous BCAA supplementation can trigger DKD initiation via rewiring of glucose metabolism in mice.

Huishou Zhao
Dan Sun
Ling Tao
ResearchOpen Access25 Aug 2025
Nature Communications

Volume: 16, P: 1-20
An adaptive AI-based virtual reality sports system for adolescents with excess body weight: a randomized controlled trial

A reinforcement learning-based virtual reality system, implementing a series of sport sessions with coaching, was as effective as standard physical activity in reducing fat mass in adolescents, with positive effects on cognition.

Jihong Wang
Yiming Qin
Huating Li
ResearchOpen Access23 Jun 2025
Nature Medicine

Volume: 31, P: 2255-2268
Delocalized electrolyte design enables 600 Wh kg⁻¹ lithium metal pouch cells

Lithium metal battery performance is optimized using a delocalized electrolyte design that induces a disordered solvation microenvironment, thereby combining the advantages of the solvent-dominated and anion-dominated structures of conventional electrolytes.

He Huang
Yitao Hu
Wenbin Hu
Research13 Aug 2025
Nature

Volume: 644, P: 660-667
Sensitivity analysis and monitoring of control parameters in cantilever casting construction of prestressed concrete continuous girder bridges

Jinyang Zhang
Haiqing Liu
Liang Wang
ResearchOpen Access11 Aug 2025
Scientific Reports

Volume: 15, P: 1-18
Full-color laser displays based on organic printed microlaser arrays

In the next generation of display technology for portable devices, lasers could replace LEDs to achieve more vibrant colours. Here, Zhao et al. demonstrate a dynamic full-color display in which each pixel is made up of three printed organic microlasers to cover the RGB space.

Jinyang Zhao
Yongli Yan
Yong Sheng Zhao
ResearchOpen Access20 Feb 2019
Nature Communications

Volume: 10, P: 1-7
Coronavirus M protein promotes mitophagy over virophagy by recruiting PDPK1 to phosphorylate SQSTM1 at T138

Autophagy plays a dual role in coronavirus infection. Here, the authors identify PDPK1 as a key regulator that switches between virophagy and mitophagy and demonstrate that a PDPK1-targeting peptide restored immunity and protected mice from lethal viral infections.

Yahui Li
Chunyan Li
Boli Hu
ResearchOpen Access16 Oct 2024
Nature Communications

Volume: 15, P: 1-19
The proto-oncogene tyrosine kinase c-SRC facilitates glioblastoma progression by remodeling fatty acid synthesis

Fatty acid synthesis has been reported to promote glioblastoma. Here, the authors show that the tyrosine kinase c-SRC phosphorylates both acetyl-CoA synthetase ACSS2 and ATP-citrate lyase ACLY, to increase acetyl-CoA and NADPH production for fatty acid synthesis to support glioblastoma progression.

Wentao Zhao
Cong Ouyang
Zhanxiang Wang
ResearchOpen Access28 Aug 2024
Nature Communications

Volume: 15, P: 1-18
Publisher Correction: Targeting overexpressed antigens in glioblastoma via CAR T cells with computationally designed high-affinity protein binders

Zhen Xia
Qihan Jin
Qi Xie
Amendments and Corrections11 Dec 2024
Nature Biomedical Engineering

Volume: 8, P: 1744
Author Correction: Comprehensive profiling of circular RNAs with nanopore sequencing and CIRI-long

Jinyang Zhang
Lingling Hou
Fangqing Zhao
Amendments and Corrections30 Apr 2021
Nature Biotechnology

Volume: 39, P: 893
Detecting features of antibody structure through their mediator-accessible redox activities

A method called mediated electrochemical probing (MEP) was developed, which enables the rapid conversion of information about structural perturbations of proteins into convenient, readily accessible electronic data. MEP was used to detect structural variants of a monoclonal antibody by discerning patterns associated with the antibody’s mediator-accessible redox activity.

Dana Motabar
Eunkyoung Kim
William E. Bentley
Research02 Dec 2024
Nature Chemical Biology

Volume: 21, P: 291-299
Genome structure and evolution of Antirrhinum majus L

This study reports a near-complete genome of Antirrhinum majus L., provides insights into gene and genome duplication events, and reveals the genetic basis underlying complex traits of snapdragon, such as flower asymmetry and self-incompatibility.

Miaomiao Li
Dongfen Zhang
Yongbiao Xue
ResearchOpen Access28 Jan 2019
Nature Plants

Volume: 5, P: 174-183
Exploring the cellular landscape of circular RNAs using full-length single-cell RNA sequencing

Studies of circular RNAs have often been limited to the tissue or organism level. Here, authors investigate the comprehensive expression landscape of circRNAs in human and mouse at single-cell resolution, revealing highly specific and dynamic changes of circRNAs during multiple biological processes.

Wanying Wu
Jinyang Zhang
Fangqing Zhao
ResearchOpen Access10 Jun 2022
Nature Communications

Volume: 13, P: 1-14
Comprehensive profiling of circular RNAs with nanopore sequencing and CIRI-long

The rich diversity of circular RNAs is sequenced using nanopore long reads.

Jinyang Zhang
Lingling Hou
Fangqing Zhao
Research11 Mar 2021
Nature Biotechnology

Volume: 39, P: 836-845
Targeting overexpressed antigens in glioblastoma via CAR T cells with computationally designed high-affinity protein binders

Computationally designed protein binders with high affinity for overexpressed antigens on tumour cells in glioblastoma enhance the antitumour activity of cytotoxic T cells with chimeric antigen receptors.

Zhen Xia
Qihan Jin
Qi Xie
Research17 Oct 2024
Nature Biomedical Engineering

Volume: 8, P: 1634-1650
Study on the influence of forced ventilation on the maximum fire temperature in roadway heading

Bolun Li
Yucheng Li
Hongwei Liu
ResearchOpen Access21 Mar 2025
Scientific Reports

Volume: 15, P: 1-20
Author Correction: Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision

Marieke Vromman
Jasper Anckaert
Pieter-Jan Volders
Amendments and Corrections17 Jan 2025
Nature Methods

Volume: 22, P: 448
Large-area patterning of full-color quantum dot arrays beyond 1000 pixels per inch by selective electrophoretic deposition

Colloidal quantum dots are promising for next-generation displays, yet the technology to realise high-resolution and uniform patterning is still scarce. Here, the authors report full-colour QD large area patterning by combining photolithography and selective electrophoretic deposition technique.

Jinyang Zhao
Lixuan Chen
Xiao Wei Sun
ResearchOpen Access29 Jul 2021
Nature Communications

Volume: 12, P: 1-8
Real-time and programmable transcriptome sequencing with PROFIT-seq

Zhang, Hou, Ma et al. present PROFIT-seq, a sequencing strategy that involves adaptive sampling of transcriptome libraries to enrich genes of interest and allows unbiased quantification of the whole transcriptome.

Jinyang Zhang
Lingling Hou
Fangqing Zhao
ResearchOpen Access23 Oct 2024
Nature Cell Biology

Volume: 26, P: 2183-2194
Accurate quantification of circular RNAs identifies extensive circular isoform switching events

Quantification and characterization of circRNAs in sequencing data remains challenging, hindering efforts to understand their roles and regulation. The algorithm introduced here enables accurate circRNA quantification and permits insight into competitive splicing between linear and circular isoforms.

Jinyang Zhang
Shuai Chen
Fangqing Zhao
ResearchOpen Access03 Jan 2020
Nature Communications

Volume: 11, P: 1-14
Intrinsic and Extrinsic Charge Transport in CH₃NH₃PbI₃ Perovskites Predicted from First-Principles

Tianqi Zhao
Wen Shi
Zhigang Shuai
ResearchOpen Access29 Jan 2016
Scientific Reports

Volume: 6, P: 1-9
Relationship between nutritional assessment and nutritional risk screening in hospitalized children with cerebral palsy: a single-center prospective study

Jixun Zhao
Yuyang Qiu
Huiqun Wang
ResearchOpen Access28 Jul 2025
Scientific Reports

Volume: 15, P: 1-12
Circular RNA discovery with emerging sequencing and deep learning technologies

This Review discusses recent advances in circular RNA discovery afforded by breakthroughs in sequencing technologies and deep learning-based algorithms and highlights outstanding challenges in integrating large-scale circular RNA datasets.

Jinyang Zhang
Fangqing Zhao
Reviews17 Apr 2025
Nature Genetics

Volume: 57, P: 1089-1102
Comprehensive identification of internal structure and alternative splicing events in circular RNAs

Circular RNAs are increasingly understood to have important biological roles and have several subclasses. Here, the authors develop CIRI-AS to analyse sequencing data, identifying the prevalence of alternative splicing and circular RNA isoforms.

Yuan Gao
Jinfeng Wang
Fangqing Zhao
ResearchOpen Access28 Jun 2016
Nature Communications

Volume: 7, P: 1-13
Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels

Maize oil is an important food and energy source. Now, Jianbing Yan and colleagues report a genome-wide association study in maize for maize kernel oil composition. They analyzed 368 maize lines with 1.06 million SNPs genome-wide and found 74 loci associated with maize kernel oil concentration and fatty acid composition.

Hui Li
Zhiyu Peng
Jianbing Yan
Research16 Dec 2012
Nature Genetics

Volume: 45, P: 43-50
Global nighttime light dataset from 1992 to 2022 with focus on low-light areas

Hui Tang
Yongde Zhong
Juan Wei
ResearchOpen Access11 Jun 2025
Scientific Data

Volume: 12, P: 1-22
Bioinformatics analysis of comorbid mechanisms between ischemic stroke and end stage renal disease

Shuhong Wang
Zhongda Li
Sheng Shen
ResearchOpen Access16 May 2025
Scientific Reports

Volume: 15, P: 1-23
Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision

This study describes benchmarking and validation of computational tools for detecting circRNAs, finding most to be highly precise with variations in sensitivity and total detection. The study also finds over 315,000 putative human circRNAs.

Marieke Vromman
Jasper Anckaert
Pieter-Jan Volders
Research13 Jul 2023
Nature Methods

Volume: 20, P: 1159-1169
Study on the size effect of rock burst tendency of red sandstone under uniaxial compression

Feng Chen
Jinyang Du
Yishan Pan
ResearchOpen Access16 Jul 2024
Scientific Reports

Volume: 14, P: 1-17
circANKRD12/circTIMMDC1 synergistically regulates enteric neural crest cell migration via miR-181b-5p-PROX1-NOTCH1 axis in Hirschsprung’s disease

Runxi Fu
Chen Wang
Wei Cai
Research01 Aug 2025
Pediatric Research

P: 1-14
Identification of genomic alterations in oesophageal squamous cell cancer

Using whole-genome and whole-exome sequencing, this study identifies eight significantly mutated genes in oesophageal squamous cell cancer, including two genes, ADAM29 and FAM135B, not previously associated with this cancer type.

Yongmei Song
Lin Li
Qimin Zhan
Research16 Mar 2014
Nature

Volume: 509, P: 91-95
Targeting a chemo-induced adaptive signaling circuit confers therapeutic vulnerabilities in pancreatic cancer

Yohei Saito
Yi Xiao
Dihua Yu
ResearchOpen Access29 Oct 2024
Cell Discovery

Volume: 10, P: 1-20
Engineering circular RNA medicines

Compared to linear mRNA, circular RNAs offer greater stability during storage and delivery, along with more sustained effects due to their circular structure. This Review provides an overview of circRNA-based therapeutics, highlighting key engineering principles, associated challenges and strategies to address such challenges.

Xiaofei Cao
Zhengyi Cai
Fangqing Zhao
Reviews20 Nov 2024
Nature Reviews Bioengineering

Volume: 3, P: 270-287
Pressure-induced charge orders and their postulated coupling to magnetism in hexagonal multiferroic LuFe₂O₄

Fengliang Liu
Yiqing Hao
Wenge Yang
ResearchOpen Access07 Jan 2023
npj Quantum Materials

Volume: 8, P: 1-7
GEFT inhibits the GSDM-mediated proptosis signalling pathway, promoting the progression and drug resistance of rhabdomyosarcoma

Fan Yang
Tian Xia
Chunxia Liu
ResearchOpen Access30 Nov 2024
Cell Death & Disease

Volume: 15, P: 1-14
Full-length circular RNA profiling by nanopore sequencing with CIRI-long

The CIRI-long protocol combines circular reverse transcription and long-read nanopore sequencing to capture full-length circular RNA isoforms, allowing their functional characterization.

Lingling Hou
Jinyang Zhang
Fangqing Zhao
Protocols12 Apr 2023
Nature Protocols

Volume: 18, P: 1795-1813
Z/Ce@hemin enzymes with enhanced peroxidase activity for monitoring and screening the oxidative stress models of Parkinson’s disease

Li Lei
Xiuli Chen
Chunlin Zhang
ResearchOpen Access01 Mar 2025
npj Parkinson's Disease

Volume: 11, P: 1-10
Stress–strain characteristics of FRP–PVC confined spontaneous combustion gangue concrete columns

Jinyang Zhang
Haiqing Liu
Zimu Chen
ResearchOpen Access17 Jan 2024
Scientific Reports

Volume: 14, P: 1-17
Individualized plasticity autograft mimic with efficient bioactivity inducing osteogenesis

Yan Wei
Guixin Zhu
Haibin Xia
ResearchOpen Access12 Apr 2021
International Journal of Oral Science

Volume: 13, P: 1-8
Multi-index comprehensive evaluation model for assessing risk to trainees in an emergency rescue training base for building collapse

Jinyang Li
Zhian Huang
Pengfei Wang
ResearchOpen Access27 Feb 2024
Scientific Reports

Volume: 14, P: 1-12
Blocking GSDMD processing in innate immune cells but not in hepatocytes protects hepatic ischemia–reperfusion injury

Jichang Li
Jie Zhao
Xiaoni Kong
ResearchOpen Access17 Apr 2020
Cell Death & Disease

Volume: 11, P: 1-13
Mapping of 10-km daily diffuse solar radiation across China from reanalysis data and a Machine-Learning method

Qinghai Qi
Jinyang Wu
Ming Zhang
ResearchOpen Access11 Jul 2024
Scientific Data

Volume: 11, P: 1-13
Erratum: Intrinsic and Extrinsic Charge Transport in CH₃NH₃PbI₃ Perovskites Predicted from First-Principles

Tianqi Zhao
Wen Shi
Zhigang Shuai
Amendments and CorrectionsOpen Access05 Apr 2017
Scientific Reports

Volume: 7, P: 1
Performance of genetic risk factors in prediction of trichloroethylene induced hypersensitivity syndrome

Yufei Dai
Ying Chen
Yuxin Zheng
ResearchOpen Access20 Jul 2015
Scientific Reports

Volume: 5, P: 1-8

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