Hongxing Lei

发表

Concerted Perturbation Observed in a Hub Network in Alzheimer’s Disease

Dapeng Liang, Guangchun Han, Xuemei Feng, 2012, PloS one.

Folding free-energy landscape of villin headpiece subdomain from molecular dynamics simulations

Y. Duan, Hongxing Lei, Chun Wu, 2007, Proceedings of the National Academy of Sciences.

Two-stage folding of HP-35 from ab initio simulations.

Y. Duan, Hongxing Lei, 2007, Journal of molecular biology.

Dual folding pathways of an alpha/beta protein from all-atom ab initio folding simulations.

Y. Duan, Hongxing Lei, Chun Wu, 2009, The Journal of chemical physics.

Trends in template/fragment-free protein structure prediction

Y. Duan, Yaoqi Zhou, Yuedong Yang, 2010, Theoretical chemistry accounts.

Protein folding and unfolding by all-atom molecular dynamics simulations.

Y. Duan, Hongxing Lei, 2008, Methods in molecular biology.

Conformational elasticity can facilitate TALE-DNA recognition.

Y. Duan, Jiya Sun, Hongxing Lei, 2014, Advances in protein chemistry and structural biology.

The fast-folding HP35 double mutant has a substantially reduced primary folding free energy barrier.

Y. Duan, Hongxing Lei, Xiaojian Deng, 2008, The Journal of chemical physics.

Gene dysregulation in peripheral blood of moyamoya disease and comparison with other vascular disorders

Hongxing Lei, L. Duan, Dongqing Ye, 2019, PloS one.

Erratum - Strike a balance: Optimization of backbone torsion parameters of AMBER polarizable force field for simulations of proteins and peptides

Wei Zhang, Yong Duan, Piotr Cieplak, 2006, J. Comput. Chem..

Evaluation of Peripheral Immune Dysregulation in Alzheimer's Disease and Vascular Dementia.

Hongxing Lei, Yanjiang Wang, Dongqing Ye, 2019, Journal of Alzheimer's disease : JAD.

Formation of partially ordered oligomers of amyloidogenic hexapeptide (NFGAIL) in aqueous solution observed in molecular dynamics simulations.

Y. Duan, Hongxing Lei, Chun Wu, 2004, Biophysical journal.

The role of Phe in the formation of well-ordered oligomers of amyloidogenic hexapeptide (NFGAIL) observed in molecular dynamics simulations with explicit solvent.

Y. Duan, Hongxing Lei, Chun Wu, 2005, Biophysical journal.

Protein Folding by Computer: How Far Have We Gone?: Protein Folding by Computer: How Far Have We Gone?

Y. Duan, Hongxing Lei, 2011 .

Folding network of villin headpiece subdomain.

Y. Duan, Hongxing Lei, Yao Su, 2010, Biophysical journal.

The protein folding network indicates that the ultrafast folding mutant of villin headpiece subdomain has a deeper folding funnel.

Y. Duan, Hongxing Lei, Yi Xiao, 2011, The Journal of chemical physics.

A two-gene marker for the two-tiered innate immune response in COVID-19 patients

Hongxing Lei, 2023, PloS one.

Dual binding modes of Congo red to amyloid protofibril surface observed in molecular dynamics simulations.

Y. Duan, Hongxing Lei, Chun Wu, 2007, Journal of the American Chemical Society.

Perturbation of the transcriptome: implications of the innate immune system in Alzheimer's disease.

Fuhai Song, Zhouxian Bai, Hongxing Lei, 2016, Current opinion in pharmacology.

Improved sampling methods for molecular simulation.

Hongxing Lei, Yong Duan, Y. Duan, 2007, Current opinion in structural biology.

GSA: Genome Sequence Archive*

Qian Zhang, Yanqing Wang, Lei Yu, 2017, Genom. Proteom. Bioinform..

Transposon-Derived and Satellite-Derived Repetitive Sequences Play Distinct Functional Roles in Mammalian Intron Size Expansion

Hongxing Lei, Jun Yu, Xumin Wang, 2012, Evolutionary bioinformatics online.

Down-regulation of energy metabolism in Alzheimer's disease is a protective response of neurons to the microenvironment.

Hongxing Lei, Xuemei Feng, Dapeng Liang, 2012, Journal of Alzheimer's disease : JAD.

Chromosome 19p in Alzheimer's disease: when genome meets transcriptome.

Xuemei Feng, Yong Duan, Hongxing Lei, 2013, Journal of Alzheimer's disease : JAD.

Robust gene dysregulation in Alzheimer's disease brains.

Guangchun Han, Xuemei Feng, Jiya Sun, 2014, Journal of Alzheimer's disease : JAD.

AlzBase: an Integrative Database for Gene Dysregulation in Alzheimer’s Disease

Guangchun Han, Hongxing Lei, Xing Peng, 2014, Molecular Neurobiology.

Characteristic transformation of blood transcriptome in Alzheimer's disease.

Hongxing Lei, Yan-Jiang Wang, Xuemei Feng, 2013, Journal of Alzheimer's disease : JAD.

Genomics in Neurological Disorders

Jiajia Wang, Fuhai Song, Zhouxian Bai, 2014, Genom. Proteom. Bioinform..

The frontline of immune response in peripheral blood

Hongxing Lei, Xiuhui Li, Dongqing Ye, 2017, PloS one.

Hidden risk genes with high-order intragenic epistasis in Alzheimer's disease.

Fuhai Song, Zhouxian Bai, Hongxing Lei, 2014, Journal of Alzheimer's disease : JAD.

Gene Regulatory Networks in the Genomics Era

Matthew Loose, Xiangdong Fang, Hongxing Lei, 2013, Genom. Proteom. Bioinform..

Phenol red interacts with the protofibril-like oligomers of an amyloidogenic hexapeptide NFGAIL through both hydrophobic and aromatic contacts.

Y. Duan, Hongxing Lei, Chun Wu, 2006, Biophysical journal.

iBIG: An Integrative Network Tool for Supporting Human Disease Mechanism Studies

Yong Duan, Huijuan Zhang, Hongxing Lei, 2013, Genom. Proteom. Bioinform..

Big Data and the Brain: Peeking at the Future

Xiangdong Fang, Hongxing Lei, Hongzhu Qu, 2019, Genom. Proteom. Bioinform..

Development of polarizable models for molecular mechanical calculations II: induced dipole models significantly improve accuracy of intermolecular interaction energies.

Jie Li, Ray Luo, Piotr Cieplak, 2011, The journal of physical chemistry. B.

Alzheimer's Disease: Genomics and Beyond.

Fuhai Song, Zhouxian Bai, Hongxing Lei, 2015, International review of neurobiology.

Early stage intercalation of doxorubicin to DNA fragments observed in molecular dynamics binding simulations.

Hongxing Lei, Chun Wu, Xiaofeng Wang, 2012, Journal of molecular graphics & modelling.

Multiple roles of a conserved GAF domain tyrosine residue in cyanobacterial and plant phytochromes.

Hongxing Lei, Yong Duan, Y. Duan, 2005, Biochemistry.

Single-cell RNA-Seq revealed profound immune alteration in the peripheral blood of patients with bacterial infection.

Hongxing Lei, Chengbin Wang, Chi Wang, 2020, International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases.

Functional Networking of Human Divergently Paired Genes (DPGs)

Hongxing Lei, Yong Duan, Jun Yu, 2013, PloS one.

A single transcript for the prognosis of disease severity in COVID-19 patients

Hongxing Lei, 2021, Scientific Reports.

A host-based two-gene model for the identification of bacterial infection in general clinical settings.

Hongxing Lei, Chi Wang, Xiaoyue Xu, 2021, International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases.

Distinctive RNA Expression Profiles in Blood Associated With Alzheimer Disease After Accounting for White Matter Hyperintensities

Guangchun Han, Hongxing Lei, C. DeCarli, 2014, Alzheimer disease and associated disorders.

Elevated Plasma Angiogenesis Factors in Alzheimer’s Disease

Hongxing Lei, Q. Wanga, Y. Tanga, 2015 .

The binding of thioflavin T and its neutral analog BTA-1 to protofibrils of the Alzheimer's disease Abeta(16-22) peptide probed by molecular dynamics simulations.

Y. Duan, Hongxing Lei, Chun Wu, 2008, Journal of molecular biology.

Folding processes of the B domain of protein A to the native state observed in all-atom ab initio folding simulations.

Chun Wu, Hongxing Lei, Yaoqi Zhou, 2008, The Journal of chemical physics.

Towards Personalized Intervention for Alzheimer’s Disease

Ying Qian, Xing Peng, Fuhai Song, 2016, Genom. Proteom. Bioinform..

The role of plastic beta-hairpin and weak hydrophobic core in the stability and unfolding of a full sequence design protein.

Y. Duan, Hongxing Lei, 2004, The Journal of chemical physics.

Molecular dynamics simulations and free energy analyses on the dimer formation of an amyloidogenic heptapeptide from human beta2-microglobulin: implication for the protofibril structure.

Y. Duan, Hongxing Lei, Chun-Yi Wu, 2006, Journal of molecular biology.

Ab initio folding of albumin binding domain from all-atom molecular dynamics simulation.

Hongxing Lei, Yong Duan, Y. Duan, 2007, The journal of physical chemistry. B.

Elongation of ordered peptide aggregate of an amyloidogenic hexapeptide NFGAIL observed in molecular dynamics simulations with explicit solvent.

Y. Duan, Hongxing Lei, Chun Wu, 2005, Journal of the American Chemical Society.

Strike a balance: Optimization of backbone torsion parameters of AMBER polarizable force field for simulations of proteins and peptides

Wei Zhang, Yong Duan, Piotr Cieplak, 2006, J. Comput. Chem..

Conformational changes in protein function.

Y. Duan, Hongxing Lei, Haiguang Liu, 2008, Methods in molecular biology.

Accurate ab Initio Study on the Hydrogen-Bond Pairs in Protein Secondary Structures.

Y. Duan, Hongxing Lei, Chun Wu, 2007, Journal of chemical theory and computation.

The role of the unfolded state in hairpin stability.

Hongxing Lei, Paul E. Smith, 2003, Biophysical journal.

Fs-21 Peptides Can Form Both Single Helix and Helix−Turn−Helix

Wei Zhang, Y. Duan, Hongxing Lei, 2004 .

Common Aging Signature in the Peripheral Blood of Vascular Dementia and Alzheimer’s Disease

Guangchun Han, Hongxing Lei, Yanjiang Wang, 2016, Molecular Neurobiology.

The binding of thioflavin T and its neutral analog BTA-1 to protofibrils of the Alzheimer's disease Abeta(16-22) peptide probed by molecular dynamics simulations.

Y. Duan, Hongxing Lei, Chun Wu, 2008, Journal of molecular biology.

Common Aging Signature in the Peripheral Blood of Vascular Dementia and Alzheimer’s Disease

Fuhai Song, Zhouxian Bai, Hongxing Lei, 2015, Molecular Neurobiology.