Works matching AU Yaoqi Zhou

Results: 178

The Co-Evolution of Paleoclimate, Paleoceanography, and Sedimentation in the Yanshan Basin, North China: Records from the Yangzhuang Formation of the Jixian Section.

Published in:

Minerals (2075-163X), 2025, v. 15, n. 6, p. 633, doi. 10.3390/min15060633

By:

Zhang, Yan;
Zhou, Yaoqi;
Cao, Mengchun;
Tian, Hui;
Yin, Xingcheng

Publication type:

Article

Papain‐Like Protease of SARS‐CoV‐2 Induces Intestinal Inflammation via the ISG15 Pathway: Identification of Natural Compound Inhibitors.

Published in:

Journal of Medical Virology, 2025, v. 97, n. 6, p. 1, doi. 10.1002/jmv.70448

By:

Wu, Fang;
Zhang, Zhaoyong;
Lun, Qili;
Hong, Xu;
Chen, Jiantao;
Xu, Xinfeng;
Xiong, Xinyi;
Zhang, Ying;
Shcherbakov, Dmitry N.;
Liu, Shuwen;
Zhou, Yaoqi;
Wang, Yanqun;
Zhan, Jian;
Zhao, Jincun;
Xu, Wei

Publication type:

Article

Evaluating the predictions of the protein stability change upon single amino acid substitutions for the FXN CAGI5 challenge.

Published in:

Human Mutation, 2019, v. 40, n. 9, p. 1392, doi. 10.1002/humu.23843

By:

Savojardo, Castrense;
Petrosino, Maria;
Babbi, Giulia;
Bovo, Samuele;
Corbi‐Verge, Carles;
Casadio, Rita;
Fariselli, Piero;
Folkman, Lukas;
Garg, Aditi;
Karimi, Mostafa;
Katsonis, Panagiotis;
Kim, Philip M.;
Lichtarge, Olivier;
Martelli, Pier Luigi;
Pasquo, Alessandra;
Pal, Debnath;
Shen, Yang;
Strokach, Alexey V.;
Turina, Paola;
Zhou, Yaoqi

Publication type:

Article

Assessment of methods for predicting the effects of PTEN and TPMT protein variants.

Published in:

Human Mutation, 2019, v. 40, n. 9, p. 1495, doi. 10.1002/humu.23838

By:

Pejaver, Vikas;
Babbi, Giulia;
Casadio, Rita;
Folkman, Lukas;
Katsonis, Panagiotis;
Kundu, Kunal;
Lichtarge, Olivier;
Martelli, Pier Luigi;
Miller, Maximilian;
Moult, John;
Pal, Lipika R.;
Savojardo, Castrense;
Yin, Yizhou;
Zhou, Yaoqi;
Radivojac, Predrag;
Bromberg, Yana

Publication type:

Article

Quantitative mapping of genetic similarity in human heritable diseases by shared mutations.

Published in:

Human Mutation, 2018, v. 39, n. 2, p. 292, doi. 10.1002/humu.23358

By:

Zhao, Huiying;
Yang, Yuedong;
Lu, Yutong;
Mort, Matthew;
Cooper, David N.;
Zuo, Zhiyi;
Zhou, Yaoqi

Publication type:

Article

Investigating DNA-, RNA-, and protein-based features as a means to discriminate pathogenic synonymous variants.

Published in:

Human Mutation, 2017, v. 38, n. 10, p. 1336, doi. 10.1002/humu.23283

By:

Livingstone, Mark;
Folkman, Lukas;
Yang, Yuedong;
Zhang, Ping;
Mort, Matthew;
Cooper, David N.;
Liu, Yunlong;
Stantic, Bela;
Zhou, Yaoqi

Publication type:

Article

ExonImpact: Prioritizing Pathogenic Alternative Splicing Events.

Published in:

Human Mutation, 2017, v. 38, n. 1, p. 16, doi. 10.1002/humu.23111

By:

Li, Meng;
Feng, Weixing;
Zhang, Xinjun;
Yang, Yuedong;
Wang, Kejun;
Mort, Matthew;
Cooper, David N;
Wang, Yue;
Zhou, Yaoqi;
Liu, Yunlong

Publication type:

Article

Structure-based prediction of protein- peptide binding regions using Random Forest.

Published in:

Bioinformatics, 2018, v. 34, n. 3, p. 477, doi. 10.1093/bioinformatics/btx614

By:

Taherzadeh, Ghazaleh;
Zhou, Yaoqi;
Liew, Alan Wee-Chung;
Yang, Yuedong

Publication type:

Article

Capturing non-local interactions by long short-term memory bidirectional recurrent neural networks for improving prediction of protein secondary structure, backbone angles, contact numbers and solvent accessibility.

Published in:

Bioinformatics, 2017, v. 33, n. 18, p. 2842, doi. 10.1093/bioinformatics/btx218

By:

Heffernan, Rhys;
Yuedong Yang;
Paliwal, Kuldip;
Yaoqi Zhou

Publication type:

Article

SPOT-ligand 2: improving structure-based virtual screening by binding-homology search on an expanded structural template library.

Published in:

Bioinformatics, 2017, v. 33, n. 8, p. 1238, doi. 10.1093/bioinformatics/btw829

By:

Litfin, Thomas;
Yaoqi Zhou;
Yuedong Yang

Publication type:

Article

Improving protein disorder prediction by deep bidirectional long short-term memory recurrent neural networks.

Published in:

Bioinformatics, 2017, v. 33, n. 5, p. 685, doi. 10.1093/bioinformatics/btw678

By:

Hanson, Jack;
Yuedong Yang;
Paliwal, Kuldip;
Yaoqi Zhou

Publication type:

Article

LRFragLib: an effective algorithm to identify fragments for de novo protein structure prediction.

Published in:

Bioinformatics, 2017, v. 33, n. 5, p. 677, doi. 10.1093/bioinformatics/btw668

By:

Tong Wang;
Yuedong Yang;
Yaoqi Zhou;
Haipeng Gong

Publication type:

Article

Predicting the errors of predicted local backbone angles and non-local solvent-accessibilities of proteins by deep neural networks.

Published in:

Bioinformatics, 2016, v. 32, n. 24, p. 3768, doi. 10.1093/bioinformatics/btw549

By:

Jianzhao Gao;
Yuedong Yang;
Yaoqi Zhou

Publication type:

Article

Highly accurate sequence-based prediction of half-sphere exposures of amino acid residues in proteins.

Published in:

Bioinformatics, 2016, v. 32, n. 6, p. 843, doi. 10.1093/bioinformatics/btv665

By:

Heffernan, Rhys;
Dehzangi, Abdollah;
Lyons, James;
Paliwal, Kuldip;
Sharma, Alok;
Jihua Wang;
Sattar, Abdul;
Yaoqi Zhou;
Yuedong Yang

Publication type:

Article

Fast and accurate non-sequential protein structure alignment using a new asymmetric linear sum assignment heuristic.

Published in:

2016

By:

Brown, Peter;
Pullan, Wayne;
Yuedong Yang;
Yaoqi Zhou

Publication type:

Product Review

DDIG-in: detecting disease-causing genetic variations due to frameshifting indels and nonsense mutations employing sequence and structural properties at nucleotide and protein levels.

Published in:

2015

By:

Folkman, Lukas;
Yuedong Yang;
Zhixiu Li;
Stantic, Bela;
Sattar, Abdul;
Mort, Matthew;
Cooper, David N.;
Yunlong Liu;
Yaoqi Zhou

Publication type:

Product Review

Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates.

Published in:

Bioinformatics, 2011, v. 27, n. 15, p. 2076, doi. 10.1093/bioinformatics/btr350

By:

Yang, Yuedong;
Faraggi, Eshel;
Zhao, Huiying;
Zhou, Yaoqi

Publication type:

Article

Structure-based prediction of DNA-binding proteins by structural alignment and a volume-fraction corrected DFIRE-based energy function.

Published in:

Bioinformatics, 2010, v. 26, n. 15, p. 1857, doi. 10.1093/bioinformatics/btq295

By:

Huiying Zhao;
Yuedong Yang;
Yaoqi Zhou

Publication type:

Article

The periodic growth increments of biological shells and the orbital parameters of Earth-Moon system.

Published in:

Environmental Geology, 2007, v. 51, n. 7, p. 1271, doi. 10.1007/s00254-006-0420-0

By:

Zhenyu, Zhao;
Yaoqi, Zhou;
Guosheng, Ji

Publication type:

Article

YesU from Bacillus subtilis preferentially binds fucosylated glycans.

Published in:

Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-31241-8

By:

Tiralongo, Joe;
Cooper, Oren;
Litfin, Tom;
Yang, Yuedong;
King, Rebecca;
Zhan, Jian;
Zhao, Huiying;
Bovin, Nicolai;
Day, Christopher J.;
Zhou, Yaoqi

Publication type:

Article

Diagenetic Controls of Sandstone Densification in the Lower Cretaceous Laiyang Group, Lingshan Island, Eastern China.

Published in:

Minerals (2075-163X), 2024, v. 14, n. 12, p. 1261, doi. 10.3390/min14121261

By:

Chen, Tongtong;
Zhou, Yaoqi;
Liu, Hanqing;
Liu, Ruiyang

Publication type:

Article

From "Dark Matter" to "Star": Insight Into the Regulation Mechanisms of Plant Functional Long Non-Coding RNAs.

Published in:

Frontiers in Plant Science, 2021, v. 12, p. 1, doi. 10.3389/fpls.2021.650926

By:

Chen, Qingshuai;
Liu, Kui;
Yu, Ru;
Zhou, Bailing;
Huang, Pingping;
Cao, Zanxia;
Zhou, Yaoqi;
Wang, Jihua

Publication type:

Article

Exact results for the effect of bond flexibility on the structure and the collapse transition of isolated square-well trimers.

Published in:

Molecular Physics, 1996, v. 89, n. 6, p. 1707, doi. 10.1080/00268979609482568

By:

Zhou, Yaoqi;
Karplus, Martin

Publication type:

Article

Exact results for isolated sticky chains.

Published in:

Molecular Physics, 1995, v. 86, n. 6, p. 1485, doi. 10.1080/00268979500102871

By:

Zhou, Yaoqi;
Hall, Carol K.;
Stell, George

Publication type:

Article

Linear dependence on chain length for the thermodynamic properties of tangent hard-sphere chains.

Published in:

Molecular Physics, 1995, v. 86, n. 5, p. 1157, doi. 10.1080/00268979500102641

By:

Zhou, Yaoqi;
Smith, Steven W.;
Hall, Carol K.

Publication type:

Article

Fluids inside a pore—An integral equation approach.

Published in:

Molecular Physics, 1989, v. 68, n. 6, p. 1265, doi. 10.1080/00268978900102891

By:

Zhou, Yaoqi;
Stell, George

Publication type:

Article

Fluids inside a pore—an integral-equation approach.

Published in:

Molecular Physics, 1989, v. 66, n. 4, p. 791, doi. 10.1080/00268978900100521

By:

Zhou, Yaoqi;
Stell, George

Publication type:

Article

Fluids inside a pore—an integral-equation approach.

Published in:

Molecular Physics, 1989, v. 66, n. 4, p. 767, doi. 10.1080/00268978900100511

By:

Zhou, Yaoqi;
Stell, George

Publication type:

Article

Late Mesozoic rifting and its deep dynamic mechanisms in the central Sulu orogenic belt: Records from Lingshan Island.

Published in:

SCIENCE CHINA Earth Sciences, 2022, v. 65, n. 9, p. 1751, doi. 10.1007/s11430-021-9925-y

By:

Zhou, Tengfei;
Zhou, Yaoqi;
Søager, Nina;
Holm, Paul Martin;
Zhang, Zhenkai;
Wang, Jun;
Liang, Zhao;
Mu, Hongyu;
Cheng, Yanjun;
Liu, Feifei;
Wang, Miao;
Zhang, Yue;
Zhang, Hui;
Gu, Yangjian;
Dong, Shihui;
Zhao, Hanjie;
Li, Manjie;
Chen, Yang;
Liu, Yanzi

Publication type:

Article

Late Jurassic to early Cretaceous magnetostratigraphy of scientific drilling core LK-1 in the Lingshan Island of Riqingwei Basin, eastern China.

Published in:

SCIENCE CHINA Earth Sciences, 2022, v. 65, n. 4, p. 742, doi. 10.1007/s11430-021-9865-2

By:

Cheng, Yanjun;
Wu, Zhiping;
Liu, Xiaoyu;
Zhou, Yaoqi;
Dai, Yining;
Zhang, Tongjie;
Zhou, Tengfei

Publication type:

Article

DLIGAND2: an improved knowledge-based energy function for protein–ligand interactions using the distance-scaled, finite, ideal-gas reference state.

Published in:

Journal of Cheminformatics, 2019, v. 11, n. 1, p. N.PAG, doi. 10.1186/s13321-019-0373-4

By:

Chen, Pin;
Ke, Yaobin;
Lu, Yutong;
Du, Yunfei;
Li, Jiahui;
Yan, Hui;
Zhao, Huiying;
Zhou, Yaoqi;
Yang, Yuedong

Publication type:

Article

Depth of volcanic basalt degassing forecasted from CO<sub>2</sub> fluid inclusions.

Published in:

Chinese Journal of Geochemistry, 2007, v. 26, n. 2, p. 186, doi. 10.1007/s11631-007-0186-4

By:

Chen Yong;
Zhou Yaoqi;
Wu Zhiping;
Ren Yongjun;
Zhao Zhenyu

Publication type:

Article

Trace element geochemistry of the Permian/Triassic boundary section in the Selong-Xishan area, Nyalam County, southern Tibet, China.

Published in:

Chinese Journal of Geochemistry, 1996, v. 15, n. 1, p. 72, doi. 10.1007/BF03166798

By:

Wu, Mingqing;
Chen, Chuzhen;
Zhou, Yaoqi;
Cai, Zhifang

Publication type:

Article

SCUD: Fast structure clustering of decoys using reference state to remove overall rotation.

Published in:

Journal of Computational Chemistry, 2005, v. 26, n. 11, p. 1189, doi. 10.1002/jcc.20251

By:

Hongzhi Li;
Yaoqi Zhou

Publication type:

Article

Solute excluded-volume effects on the stability of globular proteins: A statistical thermodynamic theory.

Published in:

Biopolymers, 1996, v. 38, n. 2, p. 273, doi. 10.1002/(SICI)1097-0282(199602)38:2<273::AID-BIP11>3.0.CO;2-G

By:

Zhou, Yaoqi;
Hall, Carol K.

Publication type:

Article

SPEM: improving multiple sequence alignment with sequence profiles and predicted secondary structures.

Published in:

Bioinformatics, 2005, v. 21, n. 18, p. 3615, doi. 10.1093/bioinformatics/bti582

By:

Hongyi Zhou;
Yaoqi Zhou

Publication type:

Article

Reaching alignment-profile-based accuracy in predicting protein secondary and tertiary structural properties without alignment.

Published in:

Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-11684-w

By:

Singh, Jaspreet;
Paliwal, Kuldip;
Litfin, Thomas;
Singh, Jaswinder;
Zhou, Yaoqi

Publication type:

Article

Predicting DNA-Binding Proteins and Binding Residues by Complex Structure Prediction and Application to Human Proteome.

Published in:

PLoS ONE, 2014, v. 9, n. 5, p. 1, doi. 10.1371/journal.pone.0096694

By:

Zhao, Huiying;
Wang, Jihua;
Zhou, Yaoqi;
Yang, Yuedong

Publication type:

Article

BEST: Improved Prediction of B-Cell Epitopes from Antigen Sequences.

Published in:

PLoS ONE, 2012, v. 7, n. 6, p. 1, doi. 10.1371/journal.pone.0040104

By:

Jianzhao Gao;
Faraggi, Eshel;
Yaoqi Zhou;
Ruan, Jishou;
Kurgan, Lukasz

Publication type:

Article

SP<sup>5</sup>: Improving Protein Fold Recognition by Using Torsion Angle Profiles and Profile-Based Gap Penalty Model.

Published in:

PLoS ONE, 2008, v. 3, n. 6, p. 1, doi. 10.1371/journal.pone.0002325

By:

Wei Zhang;
Song Liu;
Yaoqi Zhou

Publication type:

Article

DNA sequence repeats identify numerous Type I restriction‐modification systems that are potential epigenetic regulators controlling phase‐variable regulons; phasevarions.

Published in:

FASEB Journal, 2020, v. 34, n. 1, p. 1038, doi. 10.1096/fj.201901536RR

By:

Atack, John M.;
Guo, Chengying;
Yang, Long;
Zhou, Yaoqi;
Jennings, Michael P.

Publication type:

Article

Self-derived structure-disrupting peptides targeting methionine aminopeptidase in pathogenic bacteria: a new strategy to generate antimicrobial peptides.

Published in:

FASEB Journal, 2019, v. 33, n. 2, p. 2095, doi. 10.1096/fj.201700613RR

By:

Jian Zhan;
Husen Jia;
Semchenko, Evgeny A.;
Yunqiang Bian;
Zhou, Amy M.;
Zhixiu Li;
Yuedong Yang;
Jihua Wang;
Sarkar, Sohinee;
Totsika, Makrina;
Blanchard, Helen;
Jen, Freda E.-C.;
Qizhuang Ye;
Haselhorst, Thomas;
Jennings, Michael P.;
Seib, Kate L.;
Yaoqi Zhou

Publication type:

Article

Impact of human pathogenic micro-insertions and micro-deletions on post-transcriptional regulation.

Published in:

Human Molecular Genetics, 2014, v. 23, n. 11, p. 3024, doi. 10.1093/hmg/ddu019

By:

Zhang, Xinjun;
Lin, Hai;
Zhao, Huiying;
Hao, Yangyang;
Mort, Matthew;
Cooper, David N.;
Zhou, Yaoqi;
Liu, Yunlong

Publication type:

Article

Geochemistry of siltstones of the Early Cretaceous Laiyang Group in Taolin area, Shandong Province, Eastern China: Implications for provenance, source weathering, palaeo‐environment, and tectonic setting.

Published in:

Geological Journal, 2020, v. 55, n. 1, p. 133, doi. 10.1002/gj.3400

By:

Zhang, Zhenkai;
Zhou, Yaoqi;
Zhou, Tengfei;
Yu, Shanshan;
He, Yuanfang;
Gao, Feng;
Li, S.

Publication type:

Article

Detrital zircon U–Pb geochronology of early Cretaceous sedimentary rocks in Dingzi Bay and Taolin area from the Sulu Orogen: Provenances and tectonic implications.

Published in:

Geological Journal, 2019, v. 54, n. 4, p. 2693, doi. 10.1002/gj.3364

By:

Liu, Feifei;
Zhou, Yaoqi;
Zhang, Zhenkai;
Yue, Baojing;
Li, S.

Publication type:

Article

Trends in template/fragment-free protein structure prediction.

Published in:

Theoretical Chemistry Accounts: Theory, Computation, & Modeling, 2011, v. 128, n. 1, p. 3, doi. 10.1007/s00214-010-0799-2

By:

Zhou, Yaoqi;
Duan, Yong;
Yang, Yuedong;
Faraggi, Eshel;
Lei, Hongxing

Publication type:

Article

Minimal twister sister-like self-cleaving ribozymes in the human genome revealed by deep mutational scanning.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.90254

By:

Zhe Zhang;
Xu Hong;
Peng Xiong;
Junfeng Wang;
Yaoqi Zhou;
Jian Zhan

Publication type:

Article

Systems-level understanding of ethanol-induced stresses and adaptation in E. coli.

Published in:

Scientific Reports, 2017, p. 44150, doi. 10.1038/srep44150

By:

Cao, Huansheng;
Wei, Du;
Yang, Yuedong;
Shang, Yu;
Li, Gaoyang;
Zhou, Yaoqi;
Ma, Qin;
Xu, Ying

Publication type:

Article

Improving prediction of secondary structure, local backbone angles, and solvent accessible surface area of proteins by iterative deep learning.

Published in:

Scientific Reports, 2015, p. 11476, doi. 10.1038/srep11476

By:

Heffernan, Rhys;
Paliwal, Kuldip;
Lyons, James;
Dehzangi, Abdollah;
Sharma, Alok;
Wang, Jihua;
Sattar, Abdul;
Yang, Yuedong;
Zhou, Yaoqi

Publication type:

Article

Structural signatures of thermal adaptation of bacterial ribosomal RNA, transfer RNA, and messenger RNA.

Published in:

PLoS ONE, 2017, v. 12, n. 9, p. 1, doi. 10.1371/journal.pone.0184722

By:

Jegousse, Clara;
Yang, Yuedong;
Zhan, Jian;
Wang, Jihua;
Zhou, Yaoqi

Publication type:

Article